| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0001 | RNA-seq, substrate binding assay, enzyme activity assay, mass spectrometry | beta-mannan | Roseburia intestinalis | 30796211 The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary beta-mannans. Nat Commun. 2019 Feb 22;10(1):905. doi: 10.1038/s41467-019-08812-y. |
2019 Feb 22 | degradation | 15 | 9 | CE17, CBM35inCE17, CE2, GH1, GH113, GH130_1, GH130_2, GH36 |
| PUL0002 | enzyme activity assay, Northern Blot | beta-glucan | Bacillus subtilis | 8606172 LicT, a Bacillus subtilis transcriptional antiterminator protein of the BglG family. J Bacteriol. 1996 Apr;178(7):1971-9. doi: 10.1128/jb.178.7.1971-1979.1996. |
1996 Apr | degradation | 2 | 1 | GH16_21 |
| PUL0003 | RT-PCR | xylan | Bacillus subtilis | 26559526 Metabolic potential of Bacillus subtilis 168 for the direct conversion of xylans to fermentation products. Appl Microbiol Biotechnol. 2016 Feb;100(3):1501-1510. doi: 10.1007/s00253-015-7124-x. Epub 2015 Nov 12. |
2016 Feb | degradation | 2 | 2 | GH30_8, GH43_16, CBM6 |
| PUL0004 | enzyme activity assay, substrate binding assay | beta-glucan | uncultured bacterium | 26827771 A novel metagenome-derived gene cluster from termite hindgut: Encoding phosphotransferase system components and high glucose tolerant glucosidase. Enzyme Microb Technol. 2016 Mar;84:24-31. doi: 10.1016/j.enzmictec.2015.12.005. Epub 2015 Dec 15. |
2016 Mar | degradation | 2 | 1 | GH1 |
| PUL0005 | enzyme activity assay, crystallization | beta-glucan | Listeria innocua | 26886583 Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua. PLoS One. 2016 Feb 17;11(2):e0148870. doi: 10.1371/journal.pone.0148870. eCollection 2016. |
2016 | degradation | 2 | 2 | GH3, GH94 |
| PUL0006 | enzyme activity assay | galactan | Geobacillus stearothermophilus | 24637762 Purification, crystallization and preliminary crystallographic analysis of Gan1D, a GH1 6-phospho-beta-galactosidase from Geobacillus stearothermophilus T1. Acta Crystallogr F Struct Biol Commun. 2014 Feb;70(Pt 2):225-31. doi: 10.1107/S2053230X13034778. Epub 2014 Jan 21. |
2014 Feb | degradation | 10 | 1 | GH1 |
| PUL0007 | sequence homology analysis | galactan | Leuconostoc gelidum | 27274361 Complete genome sequence of Leuconostoc gelidum subsp. gasicomitatum KG16-1, isolated from vacuum-packaged vegetable sausages. Stand Genomic Sci. 2016 Jun 7;11:40. doi: 10.1186/s40793-016-0164-8. eCollection 2016. |
2016 | degradation | 8 | 2 | GH42, GH53 |
| PUL0008 | enzyme activity assay, qPCR, thin-layer chromatography, substrate binding assay | fructan | Bacteroides thetaiotaomicron | 28103254 A Highly Active Endo-Levanase BT1760 of a Dominant Mammalian Gut Commensal Bacteroides thetaiotaomicron Cleaves Not Only Various Bacterial Levans, but Also Levan of Timothy Grass. Differential Metabolism of Exopolysaccharides from Probiotic Lactobacilli by the Human Gut Symbiont Bacteroides thetaiotaomicron. PLoS One. 2017 Jan 19;12(1):e0169989. doi: 10.1371/journal.pone.0169989. eCollection 2017. Appl Environ Microbiol. 2015 Jun 15;81(12):3973-83. doi: 10.1128/AEM.00149-15. Epub 2015 Apr 3. |
2017,2015 Jun 15 | degradation | 12 | 3 | GH32 |
| PUL0009 | enzyme activity assay, immunoblotting, ATPase assay | glycosaminoglycan | Streptobacillus moniliformis | 28432302 A bacterial ABC transporter enables import of mammalian host glycosaminoglycans. Sci Rep. 2017 Apr 21;7(1):1069. doi: 10.1038/s41598-017-00917-y. |
2017 Apr 21 | degradation | 15 | 4 | GH88, PL12_1, PL8 |
| PUL0010 | enzyme activity assay, liquid chromatography and mass spectrometry | xylan | Geobacillus thermodenitrificans | 28616644 Synergistic hydrolysis of xylan using novel xylanases, beta-xylosidases, and an alpha-L-arabinofuranosidase from Geobacillus thermodenitrificans NG80-2. Appl Microbiol Biotechnol. 2017 Aug;101(15):6023-6037. doi: 10.1007/s00253-017-8341-2. Epub 2017 Jun 14. |
2017 Aug | degradation | 42 | 8 | CE4, GH10, GH39, GH43_11, CBM91, GH51_1, GH52, GH67 |
| PUL0012 | enzyme activity assay | chitin | Vibrio cholerae | 28683122 The nucleoid occlusion protein SlmA is a direct transcriptional activator of chitobiose utilization in Vibrio cholerae. PLoS Genet. 2017 Jul 6;13(7):e1006877. doi: 10.1371/journal.pgen.1006877. eCollection 2017 Jul. |
2017 Jul | degradation | 11 | 3 | GH20, GH9, GH94 |
| PUL0014 | sequence homology analysis, growth assay | pectin | Geobacillus thermodenitrificans | 28900693 Complete Genome Sequence of Geobacillus thermodenitrificans T12, A Potential Host for Biotechnological Applications. Curr Microbiol. 2018 Jan;75(1):49-56. doi: 10.1007/s00284-017-1349-0. Epub 2017 Sep 12. |
2018 Jan | degradation | 9 | 2 | GH105, PL1_6 |
| PUL0015 | microarray | cellobiose | Lactococcus lactis | 28970222 Disruption of a Transcriptional Repressor by an Insertion Sequence Element Integration Leads to Activation of a Novel Silent Cellobiose Transporter in Lactococcus lactis MG1363. Appl Environ Microbiol. 2017 Nov 16;83(23):e01279-17. doi: 10.1128/AEM.01279-17. Print 2017 Dec 1. |
2017 Dec 1 | degradation | 4 | 1 | GH9 |
| PUL0016 | microarray | cellobiose | Lactococcus lactis | 28970222 Disruption of a Transcriptional Repressor by an Insertion Sequence Element Integration Leads to Activation of a Novel Silent Cellobiose Transporter in Lactococcus lactis MG1363. Appl Environ Microbiol. 2017 Nov 16;83(23):e01279-17. doi: 10.1128/AEM.01279-17. Print 2017 Dec 1. |
2017 Dec 1 | degradation | 5 | 1 | GH1 |
| PUL0017 | qRT-PCR, Western Blot, isothermal titration calorimetry (ITC) | cellobiose | Ruminiclostridium cellulolyticum | 29093754 A seven-gene cluster in Ruminiclostridium cellulolyticum is essential for signalization, uptake and catabolism of the degradation products of cellulose hydrolysis. Biotechnol Biofuels. 2017 Oct 30;10:250. doi: 10.1186/s13068-017-0933-7. eCollection 2017. |
2017 | degradation | 9 | 1 | GH94 |
| PUL0018 | rapid plate method growth assay, gene deletion mutant and growth assay, RT-PCR, enzyme activity assay | glycosaminoglycan | Streptococcus pneumoniae | 22311922 Streptococcus pneumoniae can utilize multiple sources of hyaluronic acid for growth. Infect Immun. 2012 Apr;80(4):1390-8. doi: 10.1128/IAI.05756-11. Epub 2012 Feb 6. |
2012 Apr | degradation | 13 | 3 | CBM70, PL8_1, GH88, PL12_1 |
| PUL0019 | enzyme activity assay, Northern Blot | beta-glucan | Bacillus subtilis | 8990303 Identification and characterization of a new beta-glucoside utilization system in Bacillus subtilis. J Bacteriol. 1997 Jan;179(2):496-506. doi: 10.1128/jb.179.2.496-506.1997. |
1997 Jan | degradation | 6 | 1 | GH4 |
| PUL0020 | rapid plate method growth assay, adhesion assay | glycosaminoglycan | Lactobacillus rhamnosus | 30006634 Probiotics in human gut microbiota can degrade host glycosaminoglycans. Sci Rep. 2018 Jul 13;8(1):10674. doi: 10.1038/s41598-018-28886-w. |
2018 Jul 13 | degradation | 16 | 3 | GH88, PL12_1, PL8 |
| PUL0021 | rapid plate method growth assay, adhesion assay | glycosaminoglycan | Lactobacillus casei | 30006634 Probiotics in human gut microbiota can degrade host glycosaminoglycans. Sci Rep. 2018 Jul 13;8(1):10674. doi: 10.1038/s41598-018-28886-w. |
2018 Jul 13 | degradation | 16 | 2 | GH88, PL12_1 |
| PUL0022 | RT-PCR, gene deletion mutant and growth assay, enzyme activity assay | cellobiose | Bacillus coagulans | 30519284 Simultaneous consumption of cellobiose and xylose by Bacillus coagulans to circumvent glucose repression and identification of its cellobiose-assimilating operons. Biotechnol Biofuels. 2018 Dec 1;11:320. doi: 10.1186/s13068-018-1323-5. eCollection 2018. |
2018 | degradation | 6 | 1 | GH1 |
| PUL0023 | RT-PCR, gene deletion mutant and growth assay, enzyme activity assay | cellobiose | Bacillus coagulans | 30519284 Simultaneous consumption of cellobiose and xylose by Bacillus coagulans to circumvent glucose repression and identification of its cellobiose-assimilating operons. Biotechnol Biofuels. 2018 Dec 1;11:320. doi: 10.1186/s13068-018-1323-5. eCollection 2018. |
2018 | degradation | 5 | 1 | GH1 |
| PUL0024 | enzyme activity assay, qPCR, carbohydrate binding assay | fructan | uncultured bacterium | 31915220 Harvesting of Prebiotic Fructooligosaccharides by Nonbeneficial Human Gut Bacteria. mSphere. 2020 Jan 8;5(1):e00771-19. doi: 10.1128/mSphere.00771-19. |
2020 Jan 8 | degradation | 12 | 1 | GH32 |
| PUL0026 | qPCR, Western Blot, RNA-seq, enzyme activity assay | ribose | Bacteroides thetaiotaomicron | 31901520 A Ribose-Scavenging System Confers Colonization Fitness on the Human Gut Symbiont Bacteroides thetaiotaomicron in a Diet-Specific Manner. Cell Host Microbe. 2020 Jan 8;27(1):79-92.e9. doi: 10.1016/j.chom.2019.11.009. Epub 2019 Dec 31. |
2020 Jan 8 | degradation | 8 | 1 | GH35 |
| PUL0027 | Northern Blot, gene deletion mutant and growth assay | alginate | Azotobacter vinelandii | 10352233 Transcriptional organization of the Azotobacter vinelandii algGXLVIFA genes: characterization of algF mutants. Gene. 1999 May 31;232(2):217-22. doi: 10.1016/s0378-1119(99)00119-5. |
1999 May 31 | biosynthesis | 5 | 1 | PL5_1 |
| PUL0028 | microarray, qPCR, enzyme activity assay | mucin | [Ruminococcus] gnavus | 24204617 Utilisation of mucin glycans by the human gut symbiont Ruminococcus gnavus is strain-dependent. PLoS One. 2013 Oct 25;8(10):e76341. doi: 10.1371/journal.pone.0076341. eCollection 2013. |
2013 | degradation | 14 | 4 | CBM40, GH33, GH1, GH140, GH177 |
| PUL0029 | enzyme activity assay | arabinogalactan | Bifidobacterium longum | 30564851 Degradative enzymes for type II arabinogalactan side chains in Bifidobacterium longum subsp. longum. Two Novel alpha-l-Arabinofuranosidases from Bifidobacterium longum subsp. longum Belonging to Glycoside Hydrolase Family 43 Cooperatively Degrade Arabinan. Appl Microbiol Biotechnol. 2019 Feb;103(3):1299-1310. doi: 10.1007/s00253-018-9566-4. Epub 2018 Dec 18. Appl Environ Microbiol. 2019 Mar 6;85(6):e02582-18. doi: 10.1128/AEM.02582-18. Print 2019 Mar 15. |
2019 Feb,2019 Mar 15 | degradation | 24 | 8 | GH146, GH30_5, GH43_22, GH43_22, GH43_26, GH43_22, GH43_34, GH43_24, GH43_27 |
| PUL0030 | isothermal calorimetric titration, gene deletion mutant and growth assay, enzyme activity assay | galactomannan | Bacillus sp. N16-5 | 26978267 A Novel Manno-Oligosaccharide Binding Protein Identified in Alkaliphilic Bacillus sp. N16-5 Is Involved in Mannan Utilization. Galactomannan Degrading Enzymes from the Mannan Utilization Gene Cluster of Alkaliphilic Bacillus sp. N16-5 and Their Synergy on Galactomannan Degradation. Transcriptional regulation of the mannan utilization genes in the alkaliphilic Bacillus sp. N16-5. PLoS One. 2016 Mar 15;11(3):e0150059. doi: 10.1371/journal.pone.0150059. eCollection 2016. J Agric Food Chem. 2018 Oct 24;66(42):11055-11063. doi: 10.1021/acs.jafc.8b03878. Epub 2018 Oct 15. FEMS Microbiol Lett. 2018 Feb 1;365(4). doi: 10.1093/femsle/fnx280. |
2016,2018 Oct 24,2018 Feb 1 | degradation | 12 | 6 | CE7, GH130_1, GH130_2, GH27 |
| PUL0031 | RNA-seq | starch | Bifidobacterium longum | 16523284 A functional analysis of the Bifidobacterium longum cscA and scrP genes in sucrose utilization. Appl Microbiol Biotechnol. 2006 Oct;72(5):975-81. doi: 10.1007/s00253-006-0358-x. Epub 2006 Mar 8. |
2006 Oct | degradation | 3 | 1 | GH32 |
| PUL0032 | RNA-seq | starch | Bifidobacterium longum | 16523284 A functional analysis of the Bifidobacterium longum cscA and scrP genes in sucrose utilization. Appl Microbiol Biotechnol. 2006 Oct;72(5):975-81. doi: 10.1007/s00253-006-0358-x. Epub 2006 Mar 8. |
2006 Oct | degradation | 3 | 1 | GH13_18 |
| PUL0033 | RT-PCR, yeast two hybrid assay, Southern Blot | trehalose | Spiroplasma citri | 12949193 Glucose and trehalose PTS permeases of Spiroplasma citri probably share a single IIA domain, enabling the spiroplasma to adapt quickly to carbohydrate changes in its environment. Microbiology (Reading). 2003 Sep;149(Pt 9):2687-2696. doi: 10.1099/mic.0.26336-0. |
2003 Sep | degradation | 6 | 1 | GH13_29 |
| PUL0034 | enzyme activity assay | pectin | Dickeya chrysanthemi | 12730169 PaeX, a second pectin acetylesterase of Erwinia chrysanthemi 3937. J Bacteriol. 2003 May;185(10):3091-100. doi: 10.1128/JB.185.10.3091-3100.2003. |
2003 May | degradation | 2 | 0 | NA |
| PUL0035 | enzyme activity assay, Assay of oligogalacturonide uptake in E. coli | pectin | Dickeya chrysanthemi | 11555291 Identification of TogMNAB, an ABC transporter which mediates the uptake of pectic oligomers in Erwinia chrysanthemi 3937. Mol Microbiol. 2001 Sep;41(5):1113-23. doi: 10.1046/j.1365-2958.2001.02564.x. |
2001 Sep | degradation | 5 | 1 | PL2_2 |
| PUL0037 | enzyme activity assay | raffinose | Streptococcus pneumoniae | 31591266 Molecular analysis of an enigmatic Streptococcus pneumoniae virulence factor: The raffinose-family oligosaccharide utilization system. J Biol Chem. 2019 Nov 15;294(46):17197-17208. doi: 10.1074/jbc.RA119.010280. Epub 2019 Oct 7. |
2019 Nov 15 | degradation | 8 | 2 | GH13_18, GH36 |
| PUL0038 | enzyme activity assay, Southern Blot | melibiose | Thermus brockianus | 10741834 The structure of the alpha-galactosidase gene loci in Thermus brockianus ITI360 and Thermus thermophilus TH125. Extremophiles. 2000 Feb;4(1):23-33. doi: 10.1007/s007920050004. |
2000 Feb | degradation | 8 | 2 | GH36, GH42 |
| PUL0039 | enzyme activity assay, Southern Blot | melibiose | Thermus thermophilus | 10741834 The structure of the alpha-galactosidase gene loci in Thermus brockianus ITI360 and Thermus thermophilus TH125. Extremophiles. 2000 Feb;4(1):23-33. doi: 10.1007/s007920050004. |
2000 Feb | degradation | 3 | 1 | GH36 |
| PUL0040 | Northern Blot, enzyme activity assay | cellulose | Ruminiclostridium cellulolyticum | 12896991 A rhamnogalacturonan lyase in the Clostridium cellulolyticum cellulosome. Sequence analysis of a gene cluster encoding cellulases from Clostridium cellulolyticum. Cel9M, a new family 9 cellulase of the Clostridium cellulolyticum cellulosome. J Bacteriol. 2003 Aug;185(16):4727-33. doi: 10.1128/JB.185.16.4727-4733.2003. Gene. 1992 Sep 21;119(1):17-28. doi: 10.1016/0378-1119(92)90062-t. J Bacteriol. 2002 Mar;184(5):1378-84. doi: 10.1128/JB.184.5.1378-1384.2002. |
2003 Aug,1992 Sep 21,2002 Mar | degradation | 6 | 6 | GH5_1, GH5_17, GH9, GH9, CBM3, PL11 |
| PUL0041 | Southern Blot, enzyme activity assay | cellobiose | Klebsiella oxytoca | 9023916 Cloning of cellobiose phosphoenolpyruvate-dependent phosphotransferase genes: functional expression in recombinant Escherichia coli and identification of a putative binding region for disaccharides. Appl Environ Microbiol. 1997 Feb;63(2):355-63. doi: 10.1128/aem.63.2.355-363.1997. |
1997 Feb | degradation | 3 | 1 | GH1 |
| PUL0042 | RT-PCR | starch | Caulobacter vibrioides | 30054816 SucA-dependent uptake of sucrose across the outer membrane of Caulobacter crescentus. J Microbiol. 2018 Sep;56(9):648-655. doi: 10.1007/s12275-018-8225-x. Epub 2018 Jul 27. |
2018 Sep | degradation | 5 | 1 | GH13_4 |
| PUL0044 | qRT-PCR, enzyme activity assay | arabinoxylan | Bacteroides ovatus | 26112186 Glycan complexity dictates microbial resource allocation in the large intestine. Multimodular fused acetyl-feruloyl esterases from soil and gut Bacteroidetes improve xylanase depolymerization of recalcitrant biomass. Nat Commun. 2015 Jun 26;6:7481. doi: 10.1038/ncomms8481. Biotechnol Biofuels. 2020 Mar 31;13:60. doi: 10.1186/s13068-020-01698-9. eCollection 2020. |
2015 Jun 26,2020 | degradation | 34 | 17 | CE20, CE20, CE6, CE1, GH10, GH115, GH3, GH30, GH30_8, GH31_4, GH43_10, CBM91, GH43_12, CBM91, GH43_29, CBM6, GH95, GH97, GH98, CBM35 |
| PUL0045 | qRT-PCR | arabinoxylan | Bacteroides ovatus | 26112186 Glycan complexity dictates microbial resource allocation in the large intestine. Nat Commun. 2015 Jun 26;6:7481. doi: 10.1038/ncomms8481. |
2015 Jun 26 | degradation | 11 | 5 | CBM4, GH10, CE20, CE20, GH10, GH43_1, GH67 |
| PUL0048 | RNA-seq | trehalose | Streptococcus mutans | 29632089 Characterization of the Trehalose Utilization Operon in Streptococcus mutans Reveals that the TreR Transcriptional Regulator Is Involved in Stress Response Pathways and Toxin Production. J Bacteriol. 2018 May 24;200(12):e00057-18. doi: 10.1128/JB.00057-18. Print 2018 Jun 15. |
2018 Jun 15 | degradation | 3 | 1 | GH13_29 |
| PUL0049 | fosmid library screen | beta-glucan | feces metagenome | 29601586 Two new gene clusters involved in the degradation of plant cell wall from the fecal microbiota of Tunisian dromedary. PLoS One. 2018 Mar 30;13(3):e0194621. doi: 10.1371/journal.pone.0194621. eCollection 2018. |
2018 | degradation | 29 | 5 | CE20, GH16_3, GH26, GH43_17 |
| PUL0050 | fosmid library screen | cellulose | feces metagenome | 29601586 Two new gene clusters involved in the degradation of plant cell wall from the fecal microbiota of Tunisian dromedary. PLoS One. 2018 Mar 30;13(3):e0194621. doi: 10.1371/journal.pone.0194621. eCollection 2018. |
2018 | degradation | 20 | 6 | GH130_1, GH26, GH3, GH5_4, GH94 |
| PUL0051 | sequence homology analysis, NMR, size-exclusion chromatography (SEC), clone and expression, recombinant protein expression, enzyme kinetic analysis | alginate | Cellulophaga lytica | 29795267 Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1. |
2018 May 23 | degradation | 6 | 2 | PL17_2, PL17, PL6, PL6_1 |
| PUL0052 | sequence homology analysis, NMR, size-exclusion chromatography (SEC), clone and expression, recombinant protein expression, enzyme kinetic analysis | alginate | Maricaulis maris | 29795267 Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1. |
2018 May 23 | degradation | 10 | 2 | PL17_2, PL17, PL6, PL6_1 |
| PUL0053 | sequence homology analysis, NMR, size-exclusion chromatography (SEC), clone and expression, recombinant protein expression, enzyme kinetic analysis | alginate | Stenotrophomonas maltophilia | 29795267 Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1. |
2018 May 23 | degradation | 8 | 2 | PL17_2, PL17, PL6 |
| PUL0054 | sequence homology analysis, NMR, size-exclusion chromatography (SEC), clone and expression, recombinant protein expression, enzyme kinetic analysis | alginate | Alteromonas macleodii | 29795267 Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1. |
2018 May 23 | degradation | 9 | 2 | PL17_2, PL17, PL6, PL6_1 |
| PUL0055 | sequence homology analysis, NMR, size-exclusion chromatography (SEC), clone and expression, recombinant protein expression, enzyme kinetic analysis | alginate | Bacteroides sp. 1_1_30 | 29795267 Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1. |
2018 May 23 | degradation | 7 | 2 | PL17_2, PL17, PL6, PL6_1 |
| PUL0056 | sequence homology analysis, NMR, size-exclusion chromatography (SEC), clone and expression, recombinant protein expression, enzyme kinetic analysis | alginate | Bacteroides eggerthii | 29795267 Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1. |
2018 May 23 | degradation | 5 | 3 | CE20, PL17_2, PL17, PL6, PL6_1 |
| PUL0058 | enzyme activity assay | glycogen | Bacillus subtilis | 8145641 Glycogen in Bacillus subtilis: molecular characterization of an operon encoding enzymes involved in glycogen biosynthesis and degradation. Mol Microbiol. 1994 Jan;11(1):203-18. doi: 10.1111/j.1365-2958.1994.tb00301.x. |
1994 Jan | biosynthesis | 5 | 3 | CBM48, GH13_9, GT35, GT5 |
| PUL0063 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides ovatus | 31420336 Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 16 | 8 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH9 |
| PUL0064 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides cellulosilyticus | 31420336 Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 12 | 4 | GH2, GH3, GH31_4, GH5_4 |
| PUL0065 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides uniformis | 31420336 Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 13 | 6 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH95 |
| PUL0066 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides fluxus | 31420336 Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 13 | 6 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH95 |
| PUL0067 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Dysgonomonas gadei | 31420336 Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 11 | 6 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH95 |
| PUL0068 | enzyme activity assay, electrophoretic mobility shift assay | raffinose | Escherichia coli | 8277949 Role of two operators in regulating the plasmid-borne raf operon of Escherichia coli. Mol Gen Genet. 1994 Jan;242(1):90-9. doi: 10.1007/BF00277352. |
1994 Jan | degradation | 4 | 2 | GH32, GH36 |
| PUL0078 | enzyme activity assay | xylan | Caldicellulosiruptor sp. Rt8B.4 | 8920183 Cloning, sequencing and overexpression in Escherichia coli of a xylanase gene, xynA from the thermophilic bacterium Rt8B.4 genus Caldicellulosiruptor. Appl Microbiol Biotechnol. 1996 Mar;45(1-2):86-93. doi: 10.1007/s002530050653. |
1996 Mar | degradation | 6 | 1 | CBM22, CBM22, GH10 |
| PUL0081 | qRT-PCR, microarray | pectin | Vibrio parahaemolyticus | 31133029 Carbohydrate metabolic systems present on genomic islands are lost and gained in Vibrio parahaemolyticus. BMC Microbiol. 2019 May 27;19(1):112. doi: 10.1186/s12866-019-1487-6. |
2019 May 27 | degradation | 13 | 2 | PL22, PL22, PL9_1 |
| PUL0082 | electrophoretic mobility shift assay, enzyme activity assay | melibiose | Bacillus subtilis | 31138628 The melREDCA Operon Encodes a Utilization System for the Raffinose Family of Oligosaccharides in Bacillus subtilis. J Bacteriol. 2019 Jul 10;201(15):e00109-19. doi: 10.1128/JB.00109-19. Print 2019 Aug 1. |
2019 Aug 1 | degradation | 6 | 2 | CE19, GH4 |
| PUL0083 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | cellulose | Ruminiclostridium papyrosolvens | 31338125 Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019. |
2019 | degradation | 12 | 11 | CBM3, cohesin, cohesin, cohesin, cohesin, cohesin, cohesin, CBM4, GH9, GH48, GH5_1, GH5_17, GH5_7, GH8, GH9, GH9, CBM3 |
| PUL0084 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | cellulose | Ruminiclostridium papyrosolvens | 31338125 Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019. |
2019 | degradation | 12 | 12 | CE1, CBM6, GH10, CBM6, GH27, CBM6, GH30_8, CBM6, GH43_10, CBM91, CBM6, GH43_29, CBM6, GH59, CBM6, GH62, CBM6, GH62, CBM6, CE6, GH95, CBM32 |
| PUL0085 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | beta-glucan | Ruminiclostridium papyrosolvens | 31338125 Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019. |
2019 | degradation | 3 | 3 | CBM35, GH26, GH9 |
| PUL0086 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | pectin | Ruminiclostridium papyrosolvens | 31338125 Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019. |
2019 | degradation | 3 | 3 | CE8, PL10_1, PL11 |
| PUL0087 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | cellulose | Ruminiclostridium papyrosolvens | 31338125 Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019. |
2019 | degradation | 2 | 2 | GH9, CBM3, CBM3 |
| PUL0088 | Southern Blot | raffinose | Streptococcus mutans | 8764489 The multiple-sugar metabolism (msm) gene cluster of Streptococcus mutans is transcribed as a single operon. FEMS Microbiol Lett. 1996 Jul 1;140(2-3):261-4. doi: 10.1016/0378-1097(96)00191-7. |
1996 Jul 1 | degradation | 8 | 3 | GH13_18, GH13_31, GH36 |
| PUL0089 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | cellulose | Ruminiclostridium papyrosolvens | 31338125 Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019. |
2019 | degradation | 2 | 1 | GH5_4 |
| PUL0091 | sequence homology analysis | host glycan | Phocaeicola vulgatus | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 8 | 7 | CE3, CE20, CE9, GH2, GH20, GH20, CBM32, GH92 |
| PUL0092 | sequence homology analysis | host glycan | Phocaeicola vulgatus | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 10 | 5 | CBM93, GH33, CE3, CE20, GH2, GH20, GH20, CBM32 |
| PUL0093 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 24 | 7 | CE20, CE9, GH2, GH20, GH92 |
| PUL0094 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 25 | 7 | CBM93, GH33, CE3, CE20, GH171, GH2, GH20, GH27 |
| PUL0095 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 17 | 6 | CBM93, GH33, CE3, CE20, GH2, GH20, GH27 |
| PUL0096 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 22 | 12 | CBM93, GH33, CE3, CE3, CE20, CE9, GH2, GH20, GH29, GH92, GH97 |
| PUL0097 | sequence homology analysis | host glycan | Bacteroides massiliensis | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 15 | 10 | CBM93, GH33, CE3, CE3, CE20, CE9, GH2, GH20, GH92 |
| PUL0098 | sequence homology analysis | host glycan | Bacteroides plebeius | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 12 | 1 | CBM93, GH33 |
| PUL0099 | RNA-seq, substrate binding assay, enzyme activity assay, mass spectrometry | beta-mannan | Roseburia intestinalis | 30796211 The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary beta-mannans. Nat Commun. 2019 Feb 22;10(1):905. doi: 10.1038/s41467-019-08812-y. |
2019 Feb 22 | degradation | 3 | 3 | CBM27, GH26, CBM23, GH3 |
| PUL0100 | transposon mutagenesis, growth assay | chitin | Escherichia coli | 9405618 Wild-type Escherichia coli grows on the chitin disaccharide, N,N'-diacetylchitobiose, by expressing the cel operon. Proc Natl Acad Sci U S A. 1997 Dec 23;94(26):14367-71. doi: 10.1073/pnas.94.26.14367. |
1997 Dec 23 | degradation | 6 | 1 | GH4 |
| PUL0101 | sequence homology analysis | host glycan | Bacteroides plebeius | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 19 | 4 | CBM67, GH78, GH115, GH3, GH97 |
| PUL0102 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 25 | 6 | CBM67, GH78, CBM93, GH33, CE20, CE3, GH20, GH29 |
| PUL0103 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 31 | 2 | CBM67, GH78, CBM93, GH33 |
| PUL0104 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 33 | 2 | CBM67, GH78, CBM93, GH33 |
| PUL0105 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 36 | 5 | CBM67, GH78, CBM93, GH33, GH115, GH3, GH97 |
| PUL0106 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 22 | 4 | GH2, GH20, CBM32 |
| PUL0107 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 27 | 1 | GH1 |
| PUL0108 | sequence homology analysis | host glycan | Bacteroides uniformis | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 27 | 2 | GH2, GH3 |
| PUL0109 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 28 | 1 | GH2 |
| PUL0110 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 28 | 1 | GH2 |
| PUL0111 | enzyme activity assay, Northern Blot, transport assay | melibiose | Escherichia coli | 9642246 Conversion of temperature-sensitive to -resistant gene expression due to mutations in the promoter region of the melibiose operon in Escherichia coli. J Biol Chem. 1998 Jul 3;273(27):16860-4. doi: 10.1074/jbc.273.27.16860. |
1998 Jul 3 | degradation | 3 | 1 | GH4 |
| PUL0112 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 25 | 4 | GH2, GH20, CBM32 |
| PUL0113 | sequence homology analysis | host glycan | Faecalibacterium prausnitzii | 31275257 Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019. |
2019 | degradation | 23 | 1 | GH1 |
| PUL0114 | recombinant protein expression, enzyme activity assay | arabinan | Ruminiclostridium cellulolyticum | 31198441 The xyl-doc gene cluster of Ruminiclostridium cellulolyticum encodes GH43- and GH62-alpha-l-arabinofuranosidases with complementary modes of action. Biotechnol Biofuels. 2019 Jun 10;12:144. doi: 10.1186/s13068-019-1483-y. eCollection 2019. |
2019 | degradation | 14 | 14 | CE1, CBM6, GH10, CBM6, GH146, CBM22, GH27, CBM6, GH2, CBM6, GH30_8, CBM6, GH43_10, CBM91, CBM6, GH43_16, CBM6, GH43_29, CBM6, GH59, CBM6, GH62, CBM6, GH62, CBM6, CE6, GH95, CBM32, CBM6 |
| PUL0115 | expression of recombinant proteins, RNA-seq, differential gene expression | host glycan | Bacteroides thetaiotaomicron | 31160824 Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. |
2019 Sep | degradation | 7 | 7 | CBM93, GH33, CE3, CE20, GH2, GH20, GH20, CBM32 |
| PUL0116 | expression of recombinant proteins, RNA-seq, differential gene expression | host glycan | Bacteroides thetaiotaomicron | 31160824 Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. |
2019 Sep | degradation | 2 | 1 | GH20 |
| PUL0117 | expression of recombinant proteins, RNA-seq, differential gene expression, enzyme specificity assay, enzyme activity assay | host glycan | Bacteroides thetaiotaomicron | 31160824 Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Discovery of beta-1,4-D-mannosyl-N-acetyl-D-glucosamine phosphorylase involved in the metabolism of N-glycans. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. J Biol Chem. 2013 Sep 20;288(38):27366-27374. doi: 10.1074/jbc.M113.469080. Epub 2013 Aug 13. |
2019 Sep,2013 Sep 20 | degradation | 22 | 7 | GH130_2, GH163, GH18, GH20, GH92 |
| PUL0118 | qRT-PCR, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | beta-glucan | Bacteroides uniformis | 32265336 Synergy between Cell Surface Glycosidases and Glycan-Binding Proteins Dictates the Utilization of Specific Beta(1,3)-Glucans by Human Gut Bacteroides. mBio. 2020 Apr 7;11(2):e00095-20. doi: 10.1128/mBio.00095-20. |
2020 Apr 7 | degradation | 7 | 3 | GH158, GH16_3, GH3 |
| PUL0120 | expression of recombinant proteins, RNA-seq, differential gene expression | host glycan | Bacteroides thetaiotaomicron | 31160824 Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. |
2019 Sep | degradation | 6 | 1 | GH18 |
| PUL0122 | enzyme activity assay | alpha-galactan | Thermotoga maritima | 9741105 Properties of an alpha-galactosidase, and structure of its gene galA, within an alpha-and beta-galactoside utilization gene cluster of the hyperthermophilic bacterium Thermotoga maritima. Syst Appl Microbiol. 1998 Mar;21(1):1-11. doi: 10.1016/s0723-2020(98)80002-7. |
1998 Mar | degradation | 6 | 3 | GH2, GH36, GH42 |
| PUL0126 | growth assay, sequence homology analysis | alginate | Alteromonas sp. 76-1 | 30936857 Adaptations of Alteromonas sp. 76-1 to Polysaccharide Degradation: A CAZyme Plasmid for Ulvan Degradation and Two Alginolytic Systems. Front Microbiol. 2019 Mar 18;10:504. doi: 10.3389/fmicb.2019.00504. eCollection 2019. |
2019 | degradation | 8 | 2 | PL6, PL6_1, PL7_5 |
| PUL0127 | growth assay, sequence homology analysis | alginate | Alteromonas sp. 76-1 | 30936857 Adaptations of Alteromonas sp. 76-1 to Polysaccharide Degradation: A CAZyme Plasmid for Ulvan Degradation and Two Alginolytic Systems. Front Microbiol. 2019 Mar 18;10:504. doi: 10.3389/fmicb.2019.00504. eCollection 2019. |
2019 | degradation | 12 | 4 | CBM32, PL7_5, PL6_3, PL6, PL6_1, PL7_5 |
| PUL0129 | enzyme activity assay | beta-mannan | gut metagenome | 30356154 Interspecies cross-feeding orchestrates carbon degradation in the rumen ecosystem. Nat Microbiol. 2018 Nov;3(11):1274-1284. doi: 10.1038/s41564-018-0225-4. Epub 2018 Oct 24. |
2018 Nov | degradation | 12 | 6 | CE7, GH130_1, GH26, GH5_4 |
| PUL0132 | enzyme activity assay, microarray | beta-glucan | Zobellia galactanivorans | 30341165 The laterally acquired GH5 ZgEngA(GH5_4) from the marine bacterium Zobellia galactanivorans is dedicated to hemicellulose hydrolysis. Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Biochem J. 2018 Nov 28;475(22):3609-3628. doi: 10.1042/BCJ20180486. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. |
2018 Nov 28,2017 | degradation | 8 | 2 | CBM4, GH5_4 |
| PUL0135 | enzyme activity assay, carbohydrate binding assay | pectin | Pseudoalteromonas sp. | 30341080 Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1):e02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1. |
2019 Jan 1 | degradation | 21 | 7 | CE12, CE8, GH105, GH28, GH43_10, CBM91, PL1_2 |
| PUL0136 | sequence homology analysis | pectin | Pseudoalteromonas haloplanktis | 30341080 Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1):e02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1. |
2019 Jan 1 | degradation | 26 | 6 | CE12, CE8, PL1_5, GH105, GH28, PL1_2 |
| PUL0137 | sequence homology analysis | galactan | Bifidobacterium animalis subsp. animalis | 30306201 Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10. |
2018 Dec | degradation | 3 | 1 | GH2 |
| PUL0138 | sequence homology analysis | raffinose | Bifidobacterium animalis subsp. animalis | 30306201 Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10. |
2018 Dec | degradation | 7 | 2 | GH36 |
| PUL0139 | sequence homology analysis | arabinan | Bifidobacterium animalis subsp. animalis | 30306201 Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10. |
2018 Dec | degradation | 12 | 1 | GH51_1 |
| PUL0140 | sequence homology analysis | xylan | Bifidobacterium animalis subsp. animalis | 30306201 Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10. |
2018 Dec | degradation | 11 | 4 | CE20, CE20, GH43_10, CBM91, GH43_11, CBM91, GH43_12 |
| PUL0141 | sequence homology analysis | starch | Bifidobacterium animalis subsp. animalis | 30306201 Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10. |
2018 Dec | degradation | 4 | 1 | GH13_18 |
| PUL0142 | sequence homology analysis | starch | Bifidobacterium animalis subsp. animalis | 30306201 Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10. |
2018 Dec | degradation | 5 | 1 | GH13_30 |
| PUL0144 | enzyme activity assay, Western Blot | chitin | Thermococcus kodakarensis | 16199574 Characterization of a novel glucosamine-6-phosphate deaminase from a hyperthermophilic archaeon. J Bacteriol. 2005 Oct;187(20):7038-44. doi: 10.1128/JB.187.20.7038-7044.2005. |
2005 Oct | degradation | 12 | 4 | CE14, GH1, GH18, GH35 |
| PUL0146 | sequence homology analysis | carrageenan | Pseudoalteromonas atlantica | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. |
2018 | degradation | 23 | 3 | GH16_13, GH167, GH82 |
| PUL0147 | sequence homology analysis | carrageenan | Pseudoalteromonas carrageenovora | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. |
2018 | degradation | 30 | 6 | GH150, GH16_13, GH16_17, GH167, GH82 |
| PUL0148 | sequence homology analysis | carrageenan | Zobellia galactanivorans | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. |
2018 | degradation | 15 | 4 | GH127, GH129 |
| PUL0149 | sequence homology analysis | carrageenan | Zobellia galactanivorans | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. |
2018 | degradation | 10 | 2 | GH110 |
| PUL0150 | sequence homology analysis | alginate | Pseudoalteromonas carrageenovora | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. |
2018 | degradation | 14 | 3 | PL17_2, PL17, PL6_3, PL6, PL6_1 |
| PUL0151 | sequence homology analysis, Northern Blot, RT-qPCR, electrophoretic mobility shift assay, clone and expression, gene deletion mutant and growth assay | alginate | Zobellia galactanivorans | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Regulation of alginate catabolism involves a GntR family repressor in the marine flavobacterium Zobellia galactanivorans DsijT. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. Nucleic Acids Res. 2020 Aug 20;48(14):7786-7800. doi: 10.1093/nar/gkaa533. |
2018,2020 Aug 20 | degradation | 12 | 2 | PL17_2, PL17, PL7 |
| PUL0152 | sequence homology analysis | alginate | Pseudoalteromonas atlantica | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. |
2018 | degradation | 8 | 1 | PL6, PL6_1 |
| PUL0153 | RNA-seq | human milk oligosaccharide | Lactobacillus rhamnosus | 30332787 Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10):1517. doi: 10.3390/nu10101517. |
2018 Oct 16 | degradation | 3 | 1 | GH1 |
| PUL0154 | RNA-seq, differential gene expression | human milk oligosaccharide | Lactobacillus rhamnosus | 30332787 Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10):1517. doi: 10.3390/nu10101517. |
2018 Oct 16 | degradation | 3 | 1 | GH1 |
| PUL0155 | enzyme activity assay | alginate | Agrobacterium fabrum | 16545947 A biosystem for alginate metabolism in Agrobacterium tumefaciens strain C58: molecular identification of Atu3025 as an exotype family PL-15 alginate lyase. Res Microbiol. 2006 Sep;157(7):642-9. doi: 10.1016/j.resmic.2006.02.006. Epub 2006 Mar 2. |
2006 Sep | degradation | 8 | 1 | PL15_1 |
| PUL0156 | RNA-seq, differential gene expression | human milk oligosaccharide | Lactobacillus rhamnosus | 30332787 Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10):1517. doi: 10.3390/nu10101517. |
2018 Oct 16 | degradation | 2 | 1 | GH2 |
| PUL0157 | RNA-seq, differential gene expression | human milk oligosaccharide | Lactobacillus rhamnosus | 30332787 Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10):1517. doi: 10.3390/nu10101517. |
2018 Oct 16 | degradation | 4 | 1 | GH1 |
| PUL0158 | RNA-seq, differential gene expression | human milk oligosaccharide | Lactobacillus rhamnosus | 30332787 Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10):1517. doi: 10.3390/nu10101517. |
2018 Oct 16 | degradation | 4 | 1 | GH1 |
| PUL0159 | RNA-seq, differential gene expression | human milk oligosaccharide | Lactobacillus rhamnosus | 30332787 Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10):1517. doi: 10.3390/nu10101517. |
2018 Oct 16 | degradation | 2 | 1 | GH2 |
| PUL0160 | mass spectrometry, sequence homology analysis | alpha-mannan | Salegentibacter sp. Hel_I_6 | 30246424 Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. |
2018 Nov | degradation | 35 | 12 | AA3, CBM32, GH125, GH2, GH43_34, GH76, GH92 |
| PUL0161 | mass spectrometry, sequence homology analysis, gene deletion mutant and growth assay, microarray, qPCR | alpha-mannan | Bacteroides thetaiotaomicron | 30246424 Alpha- and beta-mannan utilization by marine Bacteroidetes. Human gut Bacteroidetes can utilize yeast mannan through a selfish mechanism. Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. Nature. 2015 Jan 8;517(7533):165-169. doi: 10.1038/nature13995. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2018 Nov,2015 Jan 8,2008 Nov 13 | degradation | 26 | 6 | GH125, GH67, GH76, GH92, GH97 |
| PUL0162 | mass spectrometry, sequence homology analysis | alpha-mannan | Bacteroides thetaiotaomicron | 30246424 Alpha- and beta-mannan utilization by marine Bacteroidetes. Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2018 Nov,2008 Nov 13 | degradation | 13 | 2 | GH92, GH99 |
| PUL0163 | mass spectrometry, sequence homology analysis, microarray, qPCR | alpha-mannan | Bacteroides thetaiotaomicron | 30246424 Alpha- and beta-mannan utilization by marine Bacteroidetes. Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2018 Nov,2008 Nov 13 | degradation | 21 | 9 | GH125, GH130_3, GH38, CBM32, GH76, GH92, GT32 |
| PUL0164 | mass spectrometry, sequence homology analysis, differential gene expression | beta-mannan | Leeuwenhoekiella sp. MAR_2009_132 | 30246424 Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. |
2018 Nov | degradation | 19 | 12 | CBM8, CE2, CE20, GH130_1, GH26, GH27, GH3, GH5_2, GH5_7, GH9 |
| PUL0165 | mass spectrometry, sequence homology analysis, differential gene expression | beta-mannan | Salegentibacter sp. Hel_I_6 | 30246424 Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. |
2018 Nov | degradation | 16 | 8 | CE20, GH130_1, GH26, GH27, GH30, GH5_2, GH9 |
| PUL0166 | enzyme activity assay, RT-PCR | starch | Bacteroides fragilis | 16788175 Characterization of the primary starch utilization operon in the obligate anaerobe Bacteroides fragilis: Regulation by carbon source and oxygen. J Bacteriol. 2006 Jul;188(13):4663-72. doi: 10.1128/JB.00125-06. |
2006 Jul | degradation | 5 | 1 | GH13_10 |
| PUL0167 | mass spectrometry, sequence homology analysis | beta-mannan | Bacteroides ovatus | 30246424 Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. |
2018 Nov | degradation | 12 | 4 | GH130_1, GH26, GH36 |
| PUL0168 | gene deletion mutant and growth assay | galactose | Lactococcus lactis subsp. lactis | 30099846 GlaR (YugA)-a novel RpiR-family transcription activator of the Leloir pathway of galactose utilization in Lactococcus lactis IL1403. Microbiologyopen. 2019 May;8(5):e00714. doi: 10.1002/mbo3.714. Epub 2018 Aug 11. |
2019 May | degradation | 9 | 1 | GH2 |
| PUL0169 | enzyme activity assay, qRT-PCR | arabinan | Xanthomonas euvesicatoria | 30092047 Functional characterization of unique enzymes in Xanthomonas euvesicatoria related to degradation of arabinofurano-oligosaccharides on hydroxyproline-rich glycoproteins. PLoS One. 2018 Aug 9;13(8):e0201982. doi: 10.1371/journal.pone.0201982. eCollection 2018. |
2018 | degradation | 9 | 3 | GH121, GH146, GH43_29 |
| PUL0171 | qRT-PCR, RNA-seq | host glycan | Bacteroides fragilis | 27353652 cis-Encoded Small RNAs, a Conserved Mechanism for Repression of Polysaccharide Utilization in Bacteroides. J Bacteriol. 2016 Aug 25;198(18):2410-8. doi: 10.1128/JB.00381-16. Print 2016 Sep 15. |
2016 Sep 15 | degradation | 7 | 1 | GH18 |
| PUL0174 | RT-PCR, enzyme activity assay, enzymatic product analysis | starch | Kribbella flavida | 27302067 Two Novel Glycoside Hydrolases Responsible for the Catabolism of Cyclobis-(1-->6)-alpha-nigerosyl. J Biol Chem. 2016 Aug 5;291(32):16438-47. doi: 10.1074/jbc.M116.727305. Epub 2016 Jun 14. |
2016 Aug 5 | degradation | 3 | 2 | GH31_12, CBM20, GH31_7, CBM35 |
| PUL0175 | enzyme activity assay | galactomannan | Cellvibrio mixtus | 16842369 Galactomannan hydrolysis and mannose metabolism in Cellvibrio mixtus. FEMS Microbiol Lett. 2006 Aug;261(1):123-32. doi: 10.1111/j.1574-6968.2006.00342.x. |
2006 Aug | degradation | 4 | 3 | GH130_1, GH27, GH5_7 |
| PUL0176 | RT-PCR, enzyme activity assay, enzymatic product analysis | starch | Kribbella flavida | 27302067 Two Novel Glycoside Hydrolases Responsible for the Catabolism of Cyclobis-(1-->6)-alpha-nigerosyl. J Biol Chem. 2016 Aug 5;291(32):16438-47. doi: 10.1074/jbc.M116.727305. Epub 2016 Jun 14. |
2016 Aug 5 | degradation | 6 | 2 | GH15, GH31_7 |
| PUL0178 | enzyme activity assay, enzyme specificity assay, substrate specificity assay | galactomannan | Bacteroides ovatus | 27288925 A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2016 Jul,2011 Dec | degradation | 14 | 4 | GH130_1, GH26, GH36 |
| PUL0179 | enzyme activity assay, enzyme specificity assay, substrate specificity assay | galactomannan | Bacteroides ovatus | 27288925 A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28. |
2016 Jul | degradation | 15 | 4 | CE7, GH130_1, GH26 |
| PUL0180 | enzyme activity assay | galactomannan | Bacteroides fragilis | 27288925 A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. New microbial mannan catabolic pathway that involves a novel mannosylglucose phosphorylase. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28. Biochem Biophys Res Commun. 2011 May 20;408(4):701-6. doi: 10.1016/j.bbrc.2011.04.095. Epub 2011 Apr 24. |
2016 Jul,2011 May 20 | degradation | 19 | 3 | GH29, GH36 |
| PUL0186 | gene deletion mutant and growth assay | cellobiose | Streptococcus pneumoniae | 17028271 The two-component regulatory system TCS08 is involved in cellobiose metabolism of Streptococcus pneumoniae R6. J Bacteriol. 2007 Feb;189(4):1342-50. doi: 10.1128/JB.01170-06. Epub 2006 Oct 6. |
2007 Feb | degradation | 7 | 1 | GH1 |
| PUL0187 | qRT-PCR, enzyme activity assay | beta-glucan | Paenibacillus sp. JDR-2 | 26746717 A 1,3-1,4-beta-Glucan Utilization Regulon in Paenibacillus sp. Strain JDR-2. Appl Environ Microbiol. 2016 Jan 8;82(6):1789-1798. doi: 10.1128/AEM.03526-15. |
2016 Jan 8 | degradation | 7 | 2 | GH16_21, SLH, CBM54, GH16_3, CBM4, CBM4, CBM6, CBM4, CBM4 |
| PUL0189 | RNA-seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 17 | 9 | CBM67, GH78, CBM67, GH78, GH33, CE19, GH140, GH28, GH43_18, GH92, GH95, PL1_2 |
| PUL0190 | RNA-seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 15 | 6 | GH146, GH43_29, GH43_4, GH51_1, GH51_2 |
| PUL0191 | RNA-seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 11 | 5 | CE12, CE8, CE8, GH105, PL1_2 |
| PUL0192 | RNA-seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 27 | 14 | CE12, CE12, CE12, GH105, GH106, GH2, GH28, GH42, GH43_18, GH43_34, CBM32, PL11, PL11_1, PL26 |
| PUL0193 | RNA-seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 30 | 8 | CE20, GH105, GH117, GH117, GH2, GH28, PL11 |
| PUL0194 | enzyme activity assay, gene deletion mutant and growth assay | host glycan | Streptococcus pneumoniae | 28056108 Molecular Characterization of N-glycan Degradation and Transport in Streptococcus pneumoniae and Its Contribution to Virulence. PLoS Pathog. 2017 Jan 5;13(1):e1006090. doi: 10.1371/journal.ppat.1006090. eCollection 2017 Jan. |
2017 Jan | degradation | 6 | 5 | GH125, GH20, GH29, GH38, GH92 |
| PUL0195 | RT-PCR | cellobiose | Clostridium acetobutylicum | 26691835 PTS regulation domain-containing transcriptional activator CelR and sigma factor sigma(54) control cellobiose utilization in Clostridium acetobutylicum. Mol Microbiol. 2016 Apr;100(2):289-302. doi: 10.1111/mmi.13316. Epub 2016 Feb 9. |
2016 Apr | degradation | 5 | 1 | GH1 |
| PUL0196 | enzyme activity assay | human milk oligosaccharide | Lactobacillus casei | 26546429 The Extracellular Wall-Bound beta-N-Acetylglucosaminidase from Lactobacillus casei Is Involved in the Metabolism of the Human Milk Oligosaccharide Lacto-N-Triose. Appl Environ Microbiol. 2015 Nov 6;82(2):570-7. doi: 10.1128/AEM.02888-15. Print 2016 Jan 15. |
2016 Jan 15 | degradation | 10 | 3 | CE9, GH20, GH35 |
| PUL0197 | gene deletion mutant and growth assay | starch | Streptococcus mutans | 17233733 Overlapping substrate specificity for sucrose and maltose of two binding protein-dependent sugar uptake systems in Streptococcus mutans. FEMS Microbiol Lett. 2007 Jan;266(2):218-23. doi: 10.1111/j.1574-6968.2006.00522.x. |
2007 Jan | degradation | 7 | 2 | GH77, GT35 |
| PUL0199 | enzyme activity assay, liquid chromatography and mass spectrometry | alginate | Saccharophagus degradans | 26458373 Putative Alginate Assimilation Process of the Marine Bacterium Saccharophagus degradans 2-40 Based on Quantitative Proteomic Analysis. Mar Biotechnol (NY). 2016 Feb;18(1):15-23. doi: 10.1007/s10126-015-9667-3. Epub 2015 Oct 12. |
2016 Feb | degradation | 17 | 6 | CBM16, CBM32, PL18, PL17_2, PL17, PL6, PL6, PL6_1, PL7_5 |
| PUL0204 | qPCR, thin-layer chromatography, substrate binding assay | starch | Bacteroides thetaiotaomicron | 25841008 Differential Metabolism of Exopolysaccharides from Probiotic Lactobacilli by the Human Gut Symbiont Bacteroides thetaiotaomicron. Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Appl Environ Microbiol. 2015 Jun 15;81(12):3973-83. doi: 10.1128/AEM.00149-15. Epub 2015 Apr 3. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2015 Jun 15,2008 Nov 13 | degradation | 7 | 3 | GH13_36, GH13_46, GH97 |
| PUL0205 | qPCR, thin-layer chromatography, substrate binding assay | dextran | Bacteroides thetaiotaomicron | 25841008 Differential Metabolism of Exopolysaccharides from Probiotic Lactobacilli by the Human Gut Symbiont Bacteroides thetaiotaomicron. Appl Environ Microbiol. 2015 Jun 15;81(12):3973-83. doi: 10.1128/AEM.00149-15. Epub 2015 Apr 3. |
2015 Jun 15 | degradation | 6 | 3 | GH31, GH31_14, GH66 |
| PUL0207 | enzyme activity assay, RT-PCR | host glycan | Streptococcus agalactiae NEM316 | 25605731 Metabolic fate of unsaturated glucuronic/iduronic acids from glycosaminoglycans: molecular identification and structure determination of streptococcal isomerase and dehydrogenase. Substrate specificity of streptococcal unsaturated glucuronyl hydrolases for sulfated glycosaminoglycan. J Biol Chem. 2015 Mar 6;290(10):6281-92. doi: 10.1074/jbc.M114.604546. Epub 2015 Jan 20. J Biol Chem. 2009 Jul 3;284(27):18059-69. doi: 10.1074/jbc.M109.005660. Epub 2009 May 5. |
2015 Mar 6,2009 Jul 3 | degradation | 7 | 2 | GH88, PL12_1 |
| PUL0208 | growth assay, clone and expression, enzyme activity assay | chitin | Pseudoalteromonas luteoviolacea | 31213521 Marine Chitinolytic Pseudoalteromonas Represents an Untapped Reservoir of Bioactive Potential. Multiple genes involved in chitin degradation from the marine bacterium Pseudoalteromonas sp. strain S91. mSystems. 2019 Jun 18;4(4):e00060-19. doi: 10.1128/mSystems.00060-19. Microbiology (Reading). 1999 Apr;145 ( Pt 4):925-934. doi: 10.1099/13500872-145-4-925. |
2019 Jun 18,1999 Apr | degradation | 3 | 3 | AA10, CBM5, CBM5, GH18, GH18, CBM5, CBM5 |
| PUL0209 | enzyme activity assay, gene deletion mutant and growth assay | galactan | Dickeya dadantii | 17644603 Characterization of the Erwinia chrysanthemi Gan locus, involved in galactan catabolism. J Bacteriol. 2007 Oct;189(19):7053-61. doi: 10.1128/JB.00845-07. Epub 2007 Jul 20. |
2007 Oct | degradation | 9 | 2 | GH42, GH53 |
| PUL0210 | enzyme activity assay | host glycan | Clostridium perfringens | 25605731 Metabolic fate of unsaturated glucuronic/iduronic acids from glycosaminoglycans: molecular identification and structure determination of streptococcal isomerase and dehydrogenase. J Biol Chem. 2015 Mar 6;290(10):6281-92. doi: 10.1074/jbc.M114.604546. Epub 2015 Jan 20. |
2015 Mar 6 | degradation | 13 | 3 | GH88, PL12_1, PL8 |
| PUL0211 | enzyme activity assay, gene deletion mutant and growth assay, thin-layer chromatography | host glycan | Xanthomonas campestris pv. campestris | 25586188 The N-Glycan cluster from Xanthomonas campestris pv. campestris: a toolbox for sequential plant N-glycan processing. The plant pathogen Xanthomonas campestris pv. campestris exploits N-acetylglucosamine during infection. J Biol Chem. 2015 Mar 6;290(10):6022-36. doi: 10.1074/jbc.M114.624593. Epub 2015 Jan 13. mBio. 2014 Sep 9;5(5):e01527-14. doi: 10.1128/mBio.01527-14. |
2015 Mar 6,2014 Sep 9 | degradation | 9 | 8 | GH125, GH18, GH2, GH20, GH29, GH3, GH35, GH92 |
| PUL0212 | qRT-PCR | galactooligosaccharide | Bifidobacterium adolescentis | 25483279 Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6. |
2015 | degradation | 8 | 2 | GH172, GH2 |
| PUL0213 | qRT-PCR | galactooligosaccharide | Bifidobacterium adolescentis | 25483279 Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6. |
2015 | degradation | 4 | 1 | GH2 |
| PUL0214 | qRT-PCR | galactooligosaccharide | Bifidobacterium adolescentis | 25483279 Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6. |
2015 | degradation | 9 | 2 | GH35, GH42 |
| PUL0215 | qPCR, enzyme activity assay | xyloglucan | Cellvibrio japonicus | 25171165 A complex gene locus enables xyloglucan utilization in the model saprophyte Cellvibrio japonicus. Mol Microbiol. 2014 Oct;94(2):418-33. doi: 10.1111/mmi.12776. Epub 2014 Sep 17. |
2014 Oct | degradation | 4 | 3 | GH31_4, GH35, GH95 |
| PUL0216 | Western Blot, enzyme activity assay, RT-PCR, microarray | alginate | Sphingomonas sp. | 24816607 Alginate-dependent gene expression mechanism in Sphingomonas sp. strain A1. J Bacteriol. 2014 Jul;196(14):2691-700. doi: 10.1128/JB.01666-14. Epub 2014 May 9. |
2014 Jul | degradation | 10 | 3 | AA2, PL15_1, PL5, PL7 |
| PUL0217 | RNA-seq | galactomannan | Caldanaerobius polysaccharolyticus | 25342756 Structural and biochemical basis for mannan utilization by Caldanaerobius polysaccharolyticus strain ATCC BAA-17. J Biol Chem. 2014 Dec 12;289(50):34965-77. doi: 10.1074/jbc.M114.579904. Epub 2014 Oct 23. |
2014 Dec 12 | degradation | 7 | 2 | GH130_2, GH5_36 |
| PUL0218 | enzyme activity assay | arabinan | termite gut metagenome | 25304507 Investigating the function of an arabinan utilization locus isolated from a termite gut community. Appl Environ Microbiol. 2015 Jan;81(1):31-9. doi: 10.1128/AEM.02257-14. Epub 2014 Oct 10. |
2015 Jan | degradation | 24 | 5 | GH146, GH97, GH43_4, GH51_1, GH51_2, GH43_29 |
| PUL0219 | sugar utilization assay, enzyme activity assay | fructan | Lactobacillus paracasei | 17644636 Functional analysis of the fructooligosaccharide utilization operon in Lactobacillus paracasei 1195. Appl Environ Microbiol. 2007 Sep;73(18):5716-24. doi: 10.1128/AEM.00805-07. Epub 2007 Jul 20. |
2007 Sep | degradation | 7 | 1 | GH32 |
| PUL0220 | mass spectrometry, target decoy database analysis | beta-glucan | Polaribacter sp. Hel1_33_49 | 25478683 Niches of two polysaccharide-degrading Polaribacter isolates from the North Sea during a spring diatom bloom. ISME J. 2015 Jun;9(6):1410-22. doi: 10.1038/ismej.2014.225. Epub 2014 Dec 5. |
2015 Jun | degradation | 11 | 5 | GH149, GH16_3, GH17, GH3, GH30_1 |
| PUL0221 | fosmid library screen | cellulose | uncultured bacterium Contig1529 | 24223817 Metagenomic insights into the carbohydrate-active enzymes carried by the microorganisms adhering to solid digesta in the rumen of cows. PLoS One. 2013 Nov 5;8(11):e78507. doi: 10.1371/journal.pone.0078507. eCollection 2013. |
2013 | degradation | 10 | 4 | GH105, GH3, GH35, GH5_4 |
| PUL0222 | fosmid library screen | cellulose | uncultured bacterium Contig196 | 24223817 Metagenomic insights into the carbohydrate-active enzymes carried by the microorganisms adhering to solid digesta in the rumen of cows. PLoS One. 2013 Nov 5;8(11):e78507. doi: 10.1371/journal.pone.0078507. eCollection 2013. |
2013 | degradation | 7 | 3 | GH26, GH5_4, GH5_7 |
| PUL0224 | RT-PCR, qRT-PCR, ion trap liquid chromatography, mass spectrometry, target decoy database analysis, high-performance anion-exchange chromatography | cellulose | Ruminiclostridium cellulolyticum | 23418511 A two-component system (XydS/R) controls the expression of genes encoding CBM6-containing proteins in response to straw in Clostridium cellulolyticum. Modulation of cellulosome composition in Clostridium cellulolyticum: adaptation to the polysaccharide environment revealed by proteomic and carbohydrate-active enzyme analyses. PLoS One. 2013;8(2):e56063. doi: 10.1371/journal.pone.0056063. Epub 2013 Feb 13. Proteomics. 2010 Feb;10(3):541-54. doi: 10.1002/pmic.200900311. |
2013,2010 Feb | degradation | 16 | 14 | CE1, CBM6, GH10, CBM6, GH146, CBM22, GH27, CBM6, GH2, CBM6, GH30_8, CBM6, GH43_10, CBM91, CBM6, GH43_16, CBM6, GH43_29, CBM6, GH59, CBM6, GH62, CBM6, GH62, CBM6, CE6, GH95, CBM32, CBM6 |
| PUL0225 | RT-PCR | agarose | Bacteroides plebeius | 23150581 Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-active enzyme updates from extrinsic microbes. Proc Natl Acad Sci U S A. 2012 Nov 27;109(48):19786-91. doi: 10.1073/pnas.1211002109. Epub 2012 Nov 12. |
2012 Nov 27 | degradation | 36 | 12 | GH105, GH154, GH117, GH117, GH16_12, GH16_14, GH16_16, GH2, GH29, GH50, GH86 |
| PUL0227 | enzyme activity assay, substrate binding assay | xylan | Caldanaerobius polysaccharolyticus | 22918832 Biochemical and structural insights into xylan utilization by the thermophilic bacterium Caldanaerobius polysaccharolyticus. J Biol Chem. 2012 Oct 12;287(42):34946-34960. doi: 10.1074/jbc.M112.391532. Epub 2012 Aug 22. |
2012 Oct 12 | degradation | 10 | 3 | CE4, GH3, GH67 |
| PUL0229 | RT-PCR | xylan | Paenibacillus sp. JDR-2 | 17921311 Structure, function, and regulation of the aldouronate utilization gene cluster from Paenibacillus sp. strain JDR-2. J Bacteriol. 2007 Dec;189(24):8863-70. doi: 10.1128/JB.01141-07. Epub 2007 Oct 5. |
2007 Dec | degradation | 8 | 3 | GH10, GH43_12, CBM91, GH67 |
| PUL0230 | RT-PCR, enzyme activity assay, clone, enzyme kinetic analysis, thin-layer chromatography, crystallization | starch | Lactobacillus acidophilus | 22685275 Enzymology and structure of the GH13_31 glucan 1,6-alpha-glucosidase that confers isomaltooligosaccharide utilization in the probiotic Lactobacillus acidophilus NCFM. An 1,4-alpha-Glucosyltransferase Defines a New Maltodextrin Catabolism Scheme in Lactobacillus acidophilus. J Bacteriol. 2012 Aug;194(16):4249-59. doi: 10.1128/JB.00622-12. Epub 2012 Jun 8. Appl Environ Microbiol. 2020 Jul 20;86(15):e00661-20. doi: 10.1128/AEM.00661-20. Print 2020 Jul 20. |
2012 Aug,2020 Jul 20 | degradation | 12 | 3 | CBM34, GH13_20, GH13_31, GH65 |
| PUL0231 | enzyme activity assay, cosmid library screening | beta-glucoside | Pectobacterium carotovorum subsp. carotovorum | 22502871 Cloning and biochemical analysis of beta-glucoside utilization (bgl) operon without phosphotransferase system in Pectobacterium carotovorum subsp. carotovorum LY34. Microbiol Res. 2012 Sep 6;167(8):461-9. doi: 10.1016/j.micres.2012.03.004. Epub 2012 Apr 12. |
2012 Sep 6 | degradation | 2 | 1 | GH1 |
| PUL0232 | microarray, electrophoretic mobility shift assay | raffinose | Bifidobacterium breve | 24705323 Transcription of two adjacent carbohydrate utilization gene clusters in Bifidobacterium breve UCC2003 is controlled by LacI- and repressor open reading frame kinase (ROK)-type regulators. Appl Environ Microbiol. 2014 Jun;80(12):3604-14. doi: 10.1128/AEM.00130-14. |
2014 Jun | degradation | 6 | 1 | GH36 |
| PUL0233 | microarray, electrophoretic mobility shift assay | melicitose | Bifidobacterium breve | 24705323 Transcription of two adjacent carbohydrate utilization gene clusters in Bifidobacterium breve UCC2003 is controlled by LacI- and repressor open reading frame kinase (ROK)-type regulators. Appl Environ Microbiol. 2014 Jun;80(12):3604-14. doi: 10.1128/AEM.00130-14. |
2014 Jun | degradation | 5 | 2 | GH13_30, GH36 |
| PUL0234 | proteome fractionation, mass spectrometry, target decoy database analysis | beta-glucan | Gramella forsetii | 24522261 Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803. ISME J. 2014 Jul;8(7):1492-502. doi: 10.1038/ismej.2014.4. Epub 2014 Feb 13. |
2014 Jul | degradation | 7 | 3 | GH16_3, GH3 |
| PUL0235 | proteome fractionation, mass spectrometry, target decoy database analysis | alginate | Gramella forsetii | 24522261 Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803. ISME J. 2014 Jul;8(7):1492-502. doi: 10.1038/ismej.2014.4. Epub 2014 Feb 13. |
2014 Jul | degradation | 20 | 6 | PL17_2, PL17, PL6, PL6_1, PL7, PL7_5 |
| PUL0236 | proteome fractionation, mass spectrometry, target decoy database analysis | alpha-glucan | Gramella forsetii | 24522261 Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803. ISME J. 2014 Jul;8(7):1492-502. doi: 10.1038/ismej.2014.4. Epub 2014 Feb 13. |
2014 Jul | degradation | 13 | 4 | GH13, GH13_46, GH13_7, GH65 |
| PUL0238 | Northern Blot | glucomannan | Bacillus subtilis | 18177310 Glucomannan utilization operon of Bacillus subtilis. FEMS Microbiol Lett. 2008 Feb;279(1):103-9. doi: 10.1111/j.1574-6968.2007.01018.x. |
2008 Feb | degradation | 8 | 2 | GH1, GH26 |
| PUL0239 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00026 | 24448980 Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 16 | 9 | CE20, CE7, GH130_1, GH26, GH26, GH5_4, GH3, GH36, GH5_7 |
| PUL0240 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00028 | 24448980 Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 10 | 3 | GH26, GH31_3, GH9 |
| PUL0241 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00033 | 24448980 Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 6 | 2 | GH36, GH5_4 |
| PUL0242 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00044 | 24448980 Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 9 | 3 | GH26, GH31_3, GH5_4 |
| PUL0243 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00066 | 24448980 Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 11 | 3 | GH36, GH5_38, GH94 |
| PUL0244 | gene deletion mutant and growth assay, complementation study, carbohydrate binding assay | host glycan | Tannerella forsythia | 24351045 Structural and functional characterization of NanU, a novel high-affinity sialic acid-inducible binding protein of oral and gut-dwelling Bacteroidetes species. Biochem J. 2014 Mar 15;458(3):499-511. doi: 10.1042/BJ20131415. |
2014 Mar 15 | degradation | 9 | 3 | CBM93, GH33, CE20, GH20 |
| PUL0245 | enzyme activity assay, gene deletion mutant and growth assay, Western Blot | fucose | Streptococcus pneumoniae | 24333485 Structural and functional analysis of fucose-processing enzymes from Streptococcus pneumoniae. J Mol Biol. 2014 Apr 3;426(7):1469-82. doi: 10.1016/j.jmb.2013.12.006. Epub 2013 Dec 12. |
2014 Apr 3 | degradation | 11 | 2 | GH95, GH98, CBM47, CBM47, CBM47 |
| PUL0246 | enzyme activity assay, gene deletion mutant and growth assay, Western Blot | fucose | Streptococcus pneumoniae | 24333485 Structural and functional analysis of fucose-processing enzymes from Streptococcus pneumoniae. J Mol Biol. 2014 Apr 3;426(7):1469-82. doi: 10.1016/j.jmb.2013.12.006. Epub 2013 Dec 12. |
2014 Apr 3 | degradation | 11 | 4 | CBM51, CBM51, GH98, GH29, GH36 |
| PUL0248 | sequence homology analysis | capsule polysaccharide degradation | Vibrio vulnificus | 24102883 Role of capsular polysaccharide (CPS) in biofilm formation and regulation of CPS production by quorum-sensing in Vibrio vulnificus. Mol Microbiol. 2013 Nov;90(4):841-57. doi: 10.1111/mmi.12401. Epub 2013 Oct 10. |
2013 Nov | degradation | 19 | 3 | GT4, PL12_3 |
| PUL0249 | microarray | pectin | Bacillus subtilis | 17449691 Plant cell wall degradation by saprophytic Bacillus subtilis strains: gene clusters responsible for rhamnogalacturonan depolymerization. Appl Environ Microbiol. 2007 Jun;73(12):3803-13. doi: 10.1128/AEM.00147-07. Epub 2007 Apr 20. |
2007 Jun | degradation | 12 | 6 | CE12, GH105, GH42, PL11 |
| PUL0251 | gene chips | host glycan | Bacteroides thetaiotaomicron | 23996813 Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30. |
2014 Jan | degradation | 7 | 1 | CBM32 |
| PUL0252 | gene chips | mucin | Bacteroides thetaiotaomicron | 23996813 Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30. |
2014 Jan | degradation | 6 | 2 | CBM32, GH29, CBM32 |
| PUL0262 | RNA-seq | xylan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 12 | 6 | CE1, CE6, GH95, GH10, GH5_21, GH8 |
| PUL0263 | RNA-seq | xylan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. Wood-Derived Dietary Fibers Promote Beneficial Human Gut Microbiota. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. mSphere. 2019 Jan 23;4(1):e00554-18. doi: 10.1128/mSphere.00554-18. |
2013,2019 Jan 23 | degradation | 5 | 1 | GH10 |
| PUL0264 | RNA-seq | carrageenan | Pseudoalteromonas distincta | 31886414 Insights into the kappa/iota-carrageenan metabolism pathway of some marine Pseudoalteromonas species. Commun Biol. 2019 Dec 19;2:474. doi: 10.1038/s42003-019-0721-y. eCollection 2019. |
2019 | degradation | 29 | 4 | GH16_13, GH16_17, GH167 |
| PUL0265 | enzyme activity assay, gene deletion mutant and growth assay | starch | Staphylococcus xylosus | 7730272 Characterization of a genetic locus essential for maltose-maltotriose utilization in Staphylococcus xylosus. J Bacteriol. 1995 May;177(9):2408-15. doi: 10.1128/jb.177.9.2408-2415.1995. |
1995 May | degradation | 2 | 1 | GH13_31 |
| PUL0266 | enzyme activity assay | human milk oligosaccharide | Halorubrum lacusprofundi | 23320757 Cloning, overexpression, purification, and characterization of a polyextremophilic beta-galactosidase from the Antarctic haloarchaeon Halorubrum lacusprofundi. BMC Biotechnol. 2013 Jan 16;13:3. doi: 10.1186/1472-6750-13-3. |
2013 Jan 16 | degradation | 15 | 2 | GH36, GH42 |
| PUL0267 | RT-qPCR | glycogen | Lactobacillus acidophilus | 23879596 A functional glycogen biosynthesis pathway in Lactobacillus acidophilus: expression and analysis of the glg operon. Mol Microbiol. 2013 Sep;89(6):1187-200. doi: 10.1111/mmi.12338. Epub 2013 Aug 16. |
2013 Sep | biosynthesis | 10 | 4 | CBM48, GH13_9, GH13_39, GT35, GT5 |
| PUL0268 | Northern Blot, promoter assay | starch | Geobacillus kaustophilus | 23793634 Polysaccharide-degrading thermophiles generated by heterologous gene expression in Geobacillus kaustophilus HTA426. Appl Environ Microbiol. 2013 Sep;79(17):5151-8. doi: 10.1128/AEM.01506-13. Epub 2013 Jun 21. |
2013 Sep | degradation | 5 | 1 | GH13_45 |
| PUL0269 | RT-PCR | chitin | Haloferax mediterranei | 23674154 Characterization of genes for chitin catabolism in Haloferax mediterranei. Appl Microbiol Biotechnol. 2014 Feb;98(3):1185-94. doi: 10.1007/s00253-013-4969-8. Epub 2013 May 15. |
2014 Feb | degradation | 16 | 6 | CBM5, CBM5, GH18, CE14, GH3 |
| PUL0271 | RT-qPCR | gentiobiose | Bifidobacterium animalis subsp. lactis | 23663691 Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312. |
2013 May 10 | degradation | 4 | 2 | GH30_1, GH42 |
| PUL0272 | RT-qPCR | beta-galactooligosaccharide | Bifidobacterium animalis subsp. lactis | 23663691 Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312. |
2013 May 10 | degradation | 3 | 1 | GH2 |
| PUL0273 | RT-qPCR | beta-galactooligosaccharide | Bifidobacterium animalis subsp. lactis | 23663691 Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312. |
2013 May 10 | degradation | 5 | 1 | GH42 |
| PUL0274 | RT-qPCR | xylan | Bifidobacterium animalis subsp. lactis | 23663691 Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312. |
2013 May 10 | degradation | 12 | 4 | CE20, CE20, GH43_10, CBM91, GH43_11, CBM91, GH43_12 |
| PUL0275 | RT-qPCR | starch | Bifidobacterium animalis subsp. lactis | 23663691 Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312. |
2013 May 10 | degradation | 8 | 3 | GH13_30, GH13_44, GH77 |
| PUL0276 | RT-qPCR | starch | Bifidobacterium animalis subsp. lactis | 23663691 Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312. |
2013 May 10 | degradation | 9 | 3 | GH13_31, GH36 |
| PUL0277 | gene deletion mutant and growth assay, qRT-PCR | fructan | Streptococcus pneumoniae | 23264576 The ABC transporter encoded at the pneumococcal fructooligosaccharide utilization locus determines the ability to utilize long- and short-chain fructooligosaccharides. J Bacteriol. 2013 Mar;195(5):1031-41. doi: 10.1128/JB.01560-12. Epub 2012 Dec 21. |
2013 Mar | degradation | 5 | 1 | GH32 |
| PUL0278 | gene deletion mutant and growth assay, qRT-PCR | fructan | Streptococcus pneumoniae | 23264576 The ABC transporter encoded at the pneumococcal fructooligosaccharide utilization locus determines the ability to utilize long- and short-chain fructooligosaccharides. J Bacteriol. 2013 Mar;195(5):1031-41. doi: 10.1128/JB.01560-12. Epub 2012 Dec 21. |
2013 Mar | degradation | 6 | 1 | GH32 |
| PUL0279 | gene deletion mutant and growth assay, qRT-PCR | fructan | Streptococcus pneumoniae | 23264576 The ABC transporter encoded at the pneumococcal fructooligosaccharide utilization locus determines the ability to utilize long- and short-chain fructooligosaccharides. J Bacteriol. 2013 Mar;195(5):1031-41. doi: 10.1128/JB.01560-12. Epub 2012 Dec 21. |
2013 Mar | degradation | 6 | 1 | GH32 |
| PUL0282 | enzyme activity assay | galactan | Geobacillus stearothermophilus | 23216604 Functional characterization of the galactan utilization system of Geobacillus stearothermophilus. FEBS J. 2013 Feb;280(3):950-64. doi: 10.1111/febs.12089. Epub 2013 Jan 7. |
2013 Feb | degradation | 7 | 2 | CBM61, GH53, CBM61, GH42 |
| PUL0283 | microarray, high-performance anion-exchange chromatography, liquid chromatography and mass spectrometry | galactooligosaccharide | Bifidobacterium breve | 23199239 Transcriptional and functional characterization of genetic elements involved in galacto-oligosaccharide utilization by Bifidobacterium breve UCC2003. Microb Biotechnol. 2013 Jan;6(1):67-79. doi: 10.1111/1751-7915.12011. Epub 2012 Dec 2. |
2013 Jan | degradation | 6 | 2 | GH42, GH53, CBM61 |
| PUL0284 | microarray, high-performance anion-exchange chromatography, liquid chromatography and mass spectrometry | galactan | Bifidobacterium breve | 23199239 Transcriptional and functional characterization of genetic elements involved in galacto-oligosaccharide utilization by Bifidobacterium breve UCC2003. Microb Biotechnol. 2013 Jan;6(1):67-79. doi: 10.1111/1751-7915.12011. Epub 2012 Dec 2. |
2013 Jan | degradation | 3 | 1 | GH2 |
| PUL0285 | microarray, high-performance anion-exchange chromatography, liquid chromatography and mass spectrometry | galactooligosaccharide | Bifidobacterium breve | 23199239 Transcriptional and functional characterization of genetic elements involved in galacto-oligosaccharide utilization by Bifidobacterium breve UCC2003. Microb Biotechnol. 2013 Jan;6(1):67-79. doi: 10.1111/1751-7915.12011. Epub 2012 Dec 2. |
2013 Jan | degradation | 6 | 1 | GH42 |
| PUL0289 | enzyme activity assay | xylan | Flavobacterium johnsoniae | 29588659 A novel acetyl xylan esterase enabling complete deacetylation of substituted xylans. Biotechnol Biofuels. 2018 Mar 22;11:74. doi: 10.1186/s13068-018-1074-3. eCollection 2018. |
2018 | degradation | 12 | 7 | CE6, CE1, GH115, GH146, GH3, GH43_10, CBM91, GH43_12, CBM91, GH97 |
| PUL0291 | electrophoretic mobility shift assay, qPCR | human milk oligosaccharide | Escherichia coli | 29453395 The genes of the sulphoquinovose catabolism in Escherichia coli are also associated with a previously unknown pathway of lactose degradation. Sci Rep. 2018 Feb 16;8(1):3177. doi: 10.1038/s41598-018-21534-3. |
2018 Feb 16 | degradation | 10 | 1 | GH31_13 |
| PUL0292 | enzyme activity assay | chitin | Collimonas fungivorans | 18671744 Identification and characterization of genes underlying chitinolysis in Collimonas fungivorans Ter331. FEMS Microbiol Ecol. 2008 Oct;66(1):123-35. doi: 10.1111/j.1574-6941.2008.00547.x. Epub 2008 Jul 30. |
2008 Oct | degradation | 11 | 2 | GH16, GH3 |
| PUL0294 | gene trait matching exercise | xylan | Bifidobacterium longum | 29310579 Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9. |
2018 Jan 8 | degradation | 12 | 3 | GH120, GH43_11, CBM91, GH43_12 |
| PUL0295 | gene trait matching exercise | arabinan | Bifidobacterium longum | 29310579 Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9. |
2018 Jan 8 | degradation | 9 | 5 | GH43_22, GH43_22, GH43_26, GH43_22, GH43_34, GH43_27 |
| PUL0296 | gene trait matching exercise | arabinan | Bifidobacterium longum | 29310579 Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9. |
2018 Jan 8 | degradation | 4 | 1 | GH43_22 |
| PUL0297 | gene trait matching exercise | galactan | Bifidobacterium longum | 29310579 Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9. |
2018 Jan 8 | degradation | 9 | 2 | GH42, GH53, CBM61 |
| PUL0298 | gene trait matching exercise | galactan | Bifidobacterium longum | 29310579 Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9. |
2018 Jan 8 | degradation | 10 | 1 | GH42 |
| PUL0299 | gene trait matching exercise | human milk oligosaccharide | Bifidobacterium longum | 29310579 Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9. |
2018 Jan 8 | degradation | 13 | 2 | GH29, GH95 |
| PUL0300 | gene trait matching exercise | arabinoxylan | Bifidobacterium longum | 29310579 Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9. |
2018 Jan 8 | degradation | 14 | 5 | GH43_26, GH43_27, GH43_4, GH51_2 |
| PUL0302 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay, high-performance anion-exchange chromatography | arabinan | Bacteroides thetaiotaomicron | 29255254 Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Prioritization of a plant polysaccharide over a mucus carbohydrate is enforced by a Bacteroides hybrid two-component system. The structure and function of an arabinan-specific alpha-1,2-arabinofuranosidase identified from screening the activities of bacterial GH43 glycoside hydrolases. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18. Mol Microbiol. 2012 Aug;85(3):478-91. doi: 10.1111/j.1365-2958.2012.08123.x. Epub 2012 Jul 5. J Biol Chem. 2011 Apr 29;286(17):15483-95. doi: 10.1074/jbc.M110.215962. Epub 2011 Feb 21. |
2018 Feb,2012 Aug,2011 Apr 29 | degradation | 22 | 6 | GH146, GH43_29, GH43_4, GH51_1, GH51_2 |
| PUL0303 | enzyme activity assay | chitin | Collimonas fungivorans | 18671744 Identification and characterization of genes underlying chitinolysis in Collimonas fungivorans Ter331. FEMS Microbiol Ecol. 2008 Oct;66(1):123-35. doi: 10.1111/j.1574-6941.2008.00547.x. Epub 2008 Jul 30. |
2008 Oct | degradation | 7 | 1 | CE9 |
| PUL0304 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | galactan | Bacteroides thetaiotaomicron | 29255254 Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18. |
2018 Feb | degradation | 7 | 2 | GH2, GH53 |
| PUL0305 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | pectin | Bacteroides thetaiotaomicron | 29255254 Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18. |
2018 Feb | degradation | 17 | 7 | CE12, CE8, CE8, GH105, GH28, PL1_2 |
| PUL0306 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | pectin | Bacteroides ovatus | 29255254 Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18. |
2018 Feb | degradation | 7 | 3 | GH147, GH2, GH53 |
| PUL0307 | enzyme activity assay | chitin | Serratia marcescens subsp. marcescens | 29229757 Structure and activity of ChiX: a peptidoglycan hydrolase required for chitinase secretion by Serratia marcescens. Comparative studies of chitinases A and B from Serratia marcescens. Biochem J. 2018 Jan 23;475(2):415-428. doi: 10.1042/BCJ20170633. Microbiology (Reading). 1996 Jul;142 ( Pt 7):1581-9. doi: 10.1099/13500872-142-7-1581. |
2018 Jan 23,1996 Jul | degradation | 6 | 2 | AA10, GH18 |
| PUL0309 | enzyme activity assay, substrate binding assay, isothermal titration calorimetry (ITC) | arabinan | Caldanaerobius polysaccharolyticus | 28710263 Enzymatic Mechanism for Arabinan Degradation and Transport in the Thermophilic Bacterium Caldanaerobius polysaccharolyticus. Appl Environ Microbiol. 2017 Aug 31;83(18):e00794-17. doi: 10.1128/AEM.00794-17. Print 2017 Sep 15. |
2017 Sep 15 | degradation | 12 | 6 | GH127, GH146, GH27, GH43_4, GH51_1 |
| PUL0311 | enzyme activity assay | cellulose | Escherichia coli | 31455320 Identification and characterization of an Endo-glucanase secreted from cellulolytic Escherichia coli ZH-4. BMC Biotechnol. 2019 Aug 27;19(1):63. doi: 10.1186/s12896-019-0556-0. |
2019 Aug 27 | degradation | 4 | 2 | GH8, GT2 |
| PUL0312 | RT-PCR | starch | Gluconacetobacter diazotrophicus | 19139238 Transcriptional regulation and signal-peptide-dependent secretion of exolevanase (LsdB) in the endophyte Gluconacetobacter diazotrophicus. Appl Environ Microbiol. 2009 Mar;75(6):1782-5. doi: 10.1128/AEM.01887-08. Epub 2009 Jan 9. |
2009 Mar | degradation | 2 | 2 | GH32, GH68 |
| PUL0313 | microarray, Northern Blot, RT-qPCR, electrophoretic mobility shift assay, clone and expression, gene deletion mutant and growth assay | alginate | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Regulation of alginate catabolism involves a GntR family repressor in the marine flavobacterium Zobellia galactanivorans DsijT. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. Nucleic Acids Res. 2020 Aug 20;48(14):7786-7800. doi: 10.1093/nar/gkaa533. |
2017,2020 Aug 20 | degradation | 3 | 3 | PL6, PL6_1, PL7_5 |
| PUL0314 | microarray | beta-glucan | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. |
2017 | degradation | 6 | 3 | GH5_42, GT2, GT4 |
| PUL0315 | microarray | agarose | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. |
2017 | degradation | 4 | 1 | GH16_16 |
| PUL0316 | microarray | agarose | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. |
2017 | degradation | 15 | 2 | GH117, GH117, GH2 |
| PUL0317 | microarray | agarose | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. |
2017 | degradation | 3 | 1 | GH16_16 |
| PUL0318 | microarray | carrageenan | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. |
2017 | degradation | 3 | 1 | GH16_17, CBM16 |
| PUL0319 | microarray | carrageenan | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. |
2017 | degradation | 4 | 1 | GH5_42 |
| PUL0320 | liquid chromatography and mass spectrometry, mass spectrometry, target decoy database analysis | cellulose | Caldicellulosiruptor bescii | 29475869 Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses. The diversity and specificity of the extracellular proteome in the cellulolytic bacterium Caldicellulosiruptor bescii is driven by the nature of the cellulosic growth substrate. Insights into plant biomass conversion from the genome of the anaerobic thermophilic bacterium Caldicellulosiruptor bescii DSM 6725. Appl Environ Microbiol. 2018 Apr 16;84(9):e02694-17. doi: 10.1128/AEM.02694-17. Print 2018 May 1. Biotechnol Biofuels. 2018 Mar 23;11:80. doi: 10.1186/s13068-018-1076-1. eCollection 2018. Nucleic Acids Res. 2011 Apr;39(8):3240-54. doi: 10.1093/nar/gkq1281. Epub 2011 Jan 11. |
2018 May 1,2018,2011 Apr | degradation | 19 | 10 | CBM66, PL3_1, CBM66, PL9_1, GH10, CBM3, CBM3, GH48, GH5_8, CBM3, CBM3, CBM3, GH5_1, GH5_8, CBM3, CBM3, GH44, GH74, GH74, GH74, GH74, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH5_8, GT39, PL11, CBM3 |
| PUL0321 | enzyme activity assay, transposon mutagenesis | beta-glucoside | Escherichia coli | 19233952 Characterization of a beta-glucoside operon (bgc) prevalent in septicemic and uropathogenic Escherichia coli strains. Appl Environ Microbiol. 2009 Apr;75(8):2284-93. doi: 10.1128/AEM.02621-08. Epub 2009 Feb 20. |
2009 Apr | degradation | 6 | 1 | GH1 |
| PUL0322 | liquid chromatography and mass spectrometry | cellulose | Caldicellulosiruptor danielii | 29475869 Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses. Appl Environ Microbiol. 2018 Apr 16;84(9):e02694-17. doi: 10.1128/AEM.02694-17. Print 2018 May 1. |
2018 May 1 | degradation | 19 | 12 | CBM22, CBM22, GH10, CBM3, CBM3, GH5_1, CBM66, PL3_1, CBM66, PL9_1, GH10, CBM3, GH12, GH48, GH5_8, CBM3, CBM3, GH44, GH74, GH74, GH74, GH74, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH5_8, GT39, PL11, CBM3 |
| PUL0323 | fitness contribution assay, insertion sequencing | galactan | Bacillus subtilis subsp. subtilis | 28617843 Characterization of the regulation of a plant polysaccharide utilization operon and its role in biofilm formation in Bacillus subtilis. PLoS One. 2017 Jun 15;12(6):e0179761. doi: 10.1371/journal.pone.0179761. eCollection 2017. |
2017 | degradation | 6 | 2 | GH42, GH53 |
| PUL0325 | RT-PCR, enzyme activity assay | beta-glucan | Bacteroides thetaiotaomicron | 28461332 A Bacteroidetes locus dedicated to fungal 1,6-beta-glucan degradation: Unique substrate conformation drives specificity of the key endo-1,6-beta-glucanase. J Biol Chem. 2017 Jun 23;292(25):10639-10650. doi: 10.1074/jbc.M117.787606. Epub 2017 May 1. |
2017 Jun 23 | degradation | 6 | 2 | GH3, GH30_3 |
| PUL0326 | gene deletion mutant and growth assay, enzyme activity assay, thin-layer chromatography | beta-glucan | Bacteroides ovatus | 28461332 A Bacteroidetes locus dedicated to fungal 1,6-beta-glucan degradation: Unique substrate conformation drives specificity of the key endo-1,6-beta-glucanase. J Biol Chem. 2017 Jun 23;292(25):10639-10650. doi: 10.1074/jbc.M117.787606. Epub 2017 May 1. |
2017 Jun 23 | degradation | 13 | 1 | GH73 |
| PUL0327 | microarray, gas chromatography, mass spectrometry, gene deletion mutant and growth assay, complementation study | starch | Enterococcus faecalis | 28455338 Enzymes Required for Maltodextrin Catabolism in Enterococcus faecalis Exhibit Novel Activities. Enterococcus faecalis Maltodextrin Gene Regulation by Combined Action of Maltose Gene Regulator MalR and Pleiotropic Regulator CcpA. Appl Environ Microbiol. 2017 Jun 16;83(13):e00038-17. doi: 10.1128/AEM.00038-17. Print 2017 Jul 1. Appl Environ Microbiol. 2020 Sep 1;86(18):e01147-20. doi: 10.1128/AEM.01147-20. Print 2020 Sep 1. |
2017 Jul 1,2020 Sep 1 | degradation | 6 | 2 | CBM34, GH13_20, GH13_31 |
| PUL0328 | microarray, gas chromatography, mass spectrometry | xylan | Gramella flava | 28261179 Characterization of Potential Polysaccharide Utilization Systems in the Marine Bacteroidetes Gramella Flava JLT2011 Using a Multi-Omics Approach. Front Microbiol. 2017 Feb 14;8:220. doi: 10.3389/fmicb.2017.00220. eCollection 2017. |
2017 | degradation | 10 | 5 | GH127, GH2, GH43, GH43_26, GH5_13 |
| PUL0329 | microarray, gas chromatography, mass spectrometry | xylan | Gramella flava | 28261179 Characterization of Potential Polysaccharide Utilization Systems in the Marine Bacteroidetes Gramella Flava JLT2011 Using a Multi-Omics Approach. Front Microbiol. 2017 Feb 14;8:220. doi: 10.3389/fmicb.2017.00220. eCollection 2017. |
2017 | degradation | 25 | 9 | CE15, CE20, CE20, GH10, GH115, GH3, GH43_1, GH43_10, CBM91, GH43_12, CBM91, GH67 |
| PUL0330 | fosmid library screen, enzyme activity assay, thin-layer chromatography | pectin | Gramella flava | 28261179 Characterization of Potential Polysaccharide Utilization Systems in the Marine Bacteroidetes Gramella Flava JLT2011 Using a Multi-Omics Approach. Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Front Microbiol. 2017 Feb 14;8:220. doi: 10.3389/fmicb.2017.00220. eCollection 2017. Appl Environ Microbiol. 2018 Dec 13;85(1):e02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1. |
2017,2019 Jan 1 | degradation | 28 | 10 | CE12, CE8, GH105, GH28, GH28, PL9_1, GH43_10, CBM91, PL10_1, PL9_1 |
| PUL0331 | carbon utilization assay | cellobiose | Aliivibrio fischeri | 18487409 Identification of a cellobiose utilization gene cluster with cryptic beta-galactosidase activity in Vibrio fischeri. Appl Environ Microbiol. 2008 Jul;74(13):4059-69. doi: 10.1128/AEM.00190-08. Epub 2008 May 16. |
2008 Jul | degradation | 6 | 1 | GH1 |
| PUL0332 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 19 | 8 | CE7, GH127, GH2, GH5_2, GH5_7, GH94, GH97 |
| PUL0333 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 22 | 4 | GH30, GH31_3, GH9 |
| PUL0334 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 23 | 7 | CE20, CE4, GH30, GH31_3, GH9 |
| PUL0335 | fosmid library screen, enzyme activity assay, thin-layer chromatography | xylan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 31 | 5 | GH13_46, GH158, GH16_3, GH3, GH97 |
| PUL0336 | fosmid library screen, enzyme activity assay, thin-layer chromatography | xylan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 25 | 4 | GH158, GH16_3, GH3, GT2 |
| PUL0337 | fosmid library screen, enzyme activity assay, thin-layer chromatography | xylan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 29 | 4 | GH158, GH16_3, GH3, GT2 |
| PUL0338 | fosmid library screen, enzyme activity assay, thin-layer chromatography | xylan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 34 | 5 | GH158, GH16_3, GH3, GH97, GT2 |
| PUL0339 | fosmid library screen, enzyme activity assay, thin-layer chromatography | xylan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 24 | 4 | GH16_3, GH20, GH3, GH97 |
| PUL0340 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 37 | 1 | GH5_2 |
| PUL0341 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 43 | 3 | GH32, GH5_2, GH91 |
| PUL0342 | enzyme activity assay, gene deletion mutant and growth assay | xylan | Prevotella ruminicola | 19304844 Biochemical analysis of a beta-D-xylosidase and a bifunctional xylanase-ferulic acid esterase from a xylanolytic gene cluster in Prevotella ruminicola 23. J Bacteriol. 2009 May;191(10):3328-38. doi: 10.1128/JB.01628-08. Epub 2009 Mar 20. |
2009 May | degradation | 5 | 3 | GH10, CE1, GH3, GH95 |
| PUL0343 | gene deletion mutant and growth assay, enzyme activity assay, Western Blot, isothermal titration calorimetry (ITC) | beta-glucan | uncultured bacterium | 28091525 A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 39 | 1 | GH5_2 |
| PUL0344 | gene deletion mutant and growth assay, protein structure characterization | chitin | Flavobacterium johnsoniae | 27933102 A polysaccharide utilization locus from Flavobacterium johnsoniae enables conversion of recalcitrant chitin. Structural insights of the enzymes from the chitin utilization locus of Flavobacterium johnsoniae. Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Biotechnol Biofuels. 2016 Nov 28;9:260. doi: 10.1186/s13068-016-0674-z. eCollection 2016. Sci Rep. 2020 Aug 13;10(1):13775. doi: 10.1038/s41598-020-70749-w. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2016,2020 Aug 13,2009 Nov | degradation | 11 | 3 | GH18, GH18, GH18, GH20 |
| PUL0345 | qRT-PCR, enzyme activity assay | xylan | Bacteroides intestinalis | 27681607 Bacteroides intestinalis DSM 17393, a member of the human colonic microbiome, upregulates multiple endoxylanases during growth on xylan. Sci Rep. 2016 Sep 29;6:34360. doi: 10.1038/srep34360. |
2016 Sep 29 | degradation | 31 | 13 | CE1, CE20, CE20, CE6, GH95, GH10, GH10, GH43_12, CBM91, GH115, GH35, GH43_1, GH5_21, GH67, GH8 |
| PUL0346 | gene deletion mutant and growth assay | xylan | uncultured bacterium | 24066026 Functional metagenomics reveals novel pathways of prebiotic breakdown by human gut bacteria. Functional characterization of a gene locus from an uncultured gut Bacteroides conferring xylo-oligosaccharides utilization to Escherichia coli. PLoS One. 2013 Sep 16;8(9):e72766. doi: 10.1371/journal.pone.0072766. eCollection 2013. Mol Microbiol. 2016 Nov;102(4):579-592. doi: 10.1111/mmi.13480. Epub 2016 Sep 14. |
2013,2016 Nov | degradation | 13 | 5 | GH10, GH16_3, GH43_1, GH43_12, CBM91, GH43_29 |
| PUL0347 | gene deletion mutant and growth assay, RT-PCR | starch | Bifidobacterium breve | 24581150 Comparative genomics of the Bifidobacterium breve taxon. BMC Genomics. 2014 Mar 1;15(1):170. doi: 10.1186/1471-2164-15-170. |
2014 Mar 1 | degradation | 13 | 1 | GH13_11 |
| PUL0348 | enzyme activity assay | host glycan | Bacteroides fragilis | 22449996 Characterization of a gene cluster for sialoglycoconjugate utilization in Bacteroides fragilis. J Med Invest. 2012;59(1-2):79-94. doi: 10.2152/jmi.59.79. |
2012 | degradation | 13 | 9 | CBM93, GH33, CE3, CE20, GH2, GH20, GH20, CBM32, GH92 |
| PUL0349 | microarray | starch | Leptotrichia buccalis | 22230464 Metabolism of sugars by genetically diverse species of oral Leptotrichia. Mol Oral Microbiol. 2012 Feb;27(1):34-44. doi: 10.1111/j.2041-1014.2011.00627.x. Epub 2011 Oct 4. |
2012 Feb | degradation | 3 | 1 | GH4 |
| PUL0351 | enzyme activity assay | starch | Escherichia coli | 1435727 Characterization of a chromosomally encoded, non-PTS metabolic pathway for sucrose utilization in Escherichia coli EC3132. Mol Gen Genet. 1992 Oct;235(1):22-32. doi: 10.1007/BF00286177. |
1992 Oct | degradation | 4 | 1 | GH32 |
| PUL0352 | microarray | host glycan | Bacteroides thetaiotaomicron | 16968696 Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. |
2006 Nov 24 | degradation | 6 | 1 | GH20 |
| PUL0354 | microarray | human milk oligosaccharide | Bacteroides thetaiotaomicron | 16968696 Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. |
2006 Nov 24 | degradation | 8 | 4 | GH182, GH43_31, GH93 |
| PUL0356 | microarray | human milk oligosaccharide | Bacteroides thetaiotaomicron | 16968696 Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. |
2006 Nov 24 | degradation | 9 | 1 | GH18 |
| PUL0357 | microarray | host glycan | Bacteroides thetaiotaomicron | 16968696 Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. |
2006 Nov 24 | degradation | 3 | 1 | CBM32 |
| PUL0361 | enzyme activity assay | starch | Thermotoga maritima | 10972187 Thermotoga maritima AglA, an extremely thermostable NAD+-, Mn2+-, and thiol-dependent alpha-glucosidase. Extremophiles. 2000 Aug;4(4):189-200. doi: 10.1007/pl00010711. |
2000 Aug | degradation | 6 | 3 | GH13_20, GH13_36, GH4 |
| PUL0362 | enzyme activity assay | starch | Xanthomonas campestris pv. campestris | 17311090 Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224. |
2007 Feb 21 | degradation | 4 | 1 | GH13_4 |
| PUL0363 | enzyme activity assay | pectin | Xanthomonas campestris pv. campestris | 17311090 Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224. |
2007 Feb 21 | degradation | 3 | 2 | CE8, PL10_1 |
| PUL0364 | enzyme activity assay | xylan | Xanthomonas campestris pv. campestris | 17311090 Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224. |
2007 Feb 21 | degradation | 8 | 4 | GH10, GH2, GH43_1 |
| PUL0365 | RT-PCR | starch | Xanthomonas campestris pv. campestris | 17311090 Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224. |
2007 Feb 21 | degradation | 8 | 4 | GH13_2, GH13_23, GH78, GH97 |
| PUL0366 | RT-PCR | glycosaminoglycan | Escherichia coli | 10931310 Pathways for the utilization of N-acetyl-galactosamine and galactosamine in Escherichia coli. Mol Microbiol. 2000 Jul;37(1):125-35. doi: 10.1046/j.1365-2958.2000.01969.x. |
2000 Jul | degradation | 13 | 1 | CE9 |
| PUL0367 | mass spectrometry | galactooligosaccharide | Bifidobacterium longum | 18539808 Differential transcriptional response of Bifidobacterium longum to human milk, formula milk, and galactooligosaccharide. Appl Environ Microbiol. 2008 Aug;74(15):4686-94. doi: 10.1128/AEM.00122-08. Epub 2008 Jun 6. |
2008 Aug | degradation | 3 | 1 | GH42 |
| PUL0368 | microarray, Western Blot | human milk oligosaccharide | Bifidobacterium longum subsp. infantis | 19033196 The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome. Proc Natl Acad Sci U S A. 2008 Dec 2;105(48):18964-9. doi: 10.1073/pnas.0809584105. Epub 2008 Nov 24. |
2008 Dec 2 | degradation | 30 | 5 | GH2, GH20, GH29, GH33, GH95 |
| PUL0370 | RT-PCR | beta-glucoside | Corynebacterium glutamicum | 19628558 Identification of a second beta-glucoside phosphoenolpyruvate: carbohydrate phosphotransferase system in Corynebacterium glutamicum R. Microbiology (Reading). 2009 Nov;155(Pt 11):3652-3660. doi: 10.1099/mic.0.029496-0. Epub 2009 Jul 23. |
2009 Nov | degradation | 5 | 1 | GH1 |
| PUL0371 | enzyme activity assay | starch | Thermococcus sp. B1001 | 11489857 Extracellular synthesis, specific recognition, and intracellular degradation of cyclomaltodextrins by the hyperthermophilic archaeon Thermococcus sp. strain B1001. J Bacteriol. 2001 Sep;183(17):5050-7. doi: 10.1128/JB.183.17.5050-5057.2001. |
2001 Sep | degradation | 5 | 2 | CBM34, GH13_20, GH13_2, CBM20 |
| PUL0372 | enzyme activity assay | beta-glucoside | Corynebacterium glutamicum | 19628558 Identification of a second beta-glucoside phosphoenolpyruvate: carbohydrate phosphotransferase system in Corynebacterium glutamicum R. Microbiology (Reading). 2009 Nov;155(Pt 11):3652-3660. doi: 10.1099/mic.0.029496-0. Epub 2009 Jul 23. |
2009 Nov | degradation | 3 | 1 | GH1 |
| PUL0373 | enzyme activity assay | starch | Dickeya dadantii | 19734309 Catabolism of raffinose, sucrose, and melibiose in Erwinia chrysanthemi 3937. J Bacteriol. 2009 Nov;191(22):6960-7. doi: 10.1128/JB.00594-09. Epub 2009 Sep 4. |
2009 Nov | degradation | 5 | 1 | GH32 |
| PUL0374 | microarray, qPCR | melibiose | Dickeya dadantii | 19734309 Catabolism of raffinose, sucrose, and melibiose in Erwinia chrysanthemi 3937. J Bacteriol. 2009 Nov;191(22):6960-7. doi: 10.1128/JB.00594-09. Epub 2009 Sep 4. |
2009 Nov | degradation | 3 | 1 | GH36 |
| PUL0376 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 9 | 2 | GH16_3, GH18 |
| PUL0377 | microarray, qPCR, enzyme activity assay | glycosaminoglycan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. The human gut microbe Bacteroides thetaiotaomicron encodes the founding member of a novel glycosaminoglycan-degrading polysaccharide lyase family PL29. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. J Biol Chem. 2018 Nov 16;293(46):17906-17916. doi: 10.1074/jbc.RA118.004510. Epub 2018 Sep 27. |
2008 Nov 13,2018 Nov 16 | degradation | 27 | 5 | GH2, GH88, PL29, PL8_2 |
| PUL0380 | microarray, qPCR, microarray, enzyme activity assay, strcutural analysis, clone and expression | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. Structural basis of mammalian high-mannose N-glycan processing by human gut Bacteroides. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. Nat Commun. 2020 Feb 14;11(1):899. doi: 10.1038/s41467-020-14754-7. |
2008 Nov 13,2006 Nov 24,2020 Feb 14 | degradation | 12 | 4 | GH18, GH92 |
| PUL0381 | microarray, gene deletion mutant and growth assay | chitin | Vibrio cholerae | 14983042 The Vibrio cholerae chitin utilization program. Proc Natl Acad Sci U S A. 2004 Feb 24;101(8):2524-9. doi: 10.1073/pnas.0308707101. |
2004 Feb 24 | degradation | 6 | 2 | CE4, GH4 |
| PUL0382 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 11 | 4 | CBM32, GH109, GH2 |
| PUL0383 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 5 | 1 | GH89 |
| PUL0384 | microarray, qPCR | glycosaminoglycan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 12 | 4 | GH88, PL12_2, PL15_2 |
| PUL0385 | ion trap liquid chromatography, mass spectrometry, target decoy database analysis, high-performance anion-exchange chromatography | cellulose | Ruminiclostridium cellulolyticum | 20013800 Modulation of cellulosome composition in Clostridium cellulolyticum: adaptation to the polysaccharide environment revealed by proteomic and carbohydrate-active enzyme analyses. Molecular study and overexpression of the Clostridium cellulolyticum celF cellulase gene in Escherichia coli. Proteomics. 2010 Feb;10(3):541-54. doi: 10.1002/pmic.200900311. Microbiology (Reading). 1996 Apr;142 ( Pt 4):1013-1023. doi: 10.1099/00221287-142-4-1013. |
2010 Feb,1996 Apr | degradation | 12 | 10 | CBM4, GH9, GH48, GH5_1, GH5_17, GH8, GH9, GH9, CBM3, PL11 |
| PUL0387 | gene deletion mutant and growth assay, qRT-PCR, GlcNAc phosphorylation assays | glycosaminoglycan | Xanthomonas campestris pv. campestris | 20081036 Identification and regulation of the N-acetylglucosamine utilization pathway of the plant pathogenic bacterium Xanthomonas campestris pv. campestris. J Bacteriol. 2010 Mar;192(6):1487-97. doi: 10.1128/JB.01418-09. Epub 2010 Jan 15. |
2010 Mar | degradation | 7 | 1 | CE9 |
| PUL0390 | enzyme activity assay | xylan | Thermotoga maritima | 21255309 Hyperthermostable acetyl xylan esterase. Microb Biotechnol. 2010 Jan;3(1):84-92. doi: 10.1111/j.1751-7915.2009.00150.x. Epub 2009 Sep 18. |
2010 Jan | degradation | 24 | 6 | CBM22, CBM22, CBM22, GH10, CBM9, CBM9, CE7, GH10, GH3, GH67 |
| PUL0392 | RT-PCR, qPCR | xylan | Bacteroides xylanisolvens | 27142817 Xylan degradation by the human gut Bacteroides xylanisolvens XB1A(T) involves two distinct gene clusters that are linked at the transcriptional level. BMC Genomics. 2016 May 4;17:326. doi: 10.1186/s12864-016-2680-8. |
2016 May 4 | degradation | 8 | 3 | CE20, CE20, GH13_14, GH67 |
| PUL0393 | enzyme activity assay, analysis of reaction products | galactan | Microbulbifer thermotolerans | 20686828 Hyper-production and characterization of the iota-carrageenase useful for iota-carrageenan oligosaccharide production from a deep-sea bacterium, Microbulbifer thermotolerans JAMB-A94T, and insight into the unusual catalytic mechanism. Mar Biotechnol (NY). 2011 Jun;13(3):411-22. doi: 10.1007/s10126-010-9312-0. Epub 2010 Aug 5. |
2011 Jun | degradation | 5 | 2 | CBM6, CBM6, GH86, GH86, GH16_16, CBM6 |
| PUL0394 | microarray | fructan | Roseburia inulinivorans | 20679207 Substrate-driven gene expression in Roseburia inulinivorans: importance of inducible enzymes in the utilization of inulin and starch. Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1(Suppl 1):4672-9. doi: 10.1073/pnas.1000091107. Epub 2010 Aug 2. |
2011 Mar 15 | degradation | 6 | 1 | GH32 |
| PUL0395 | isothermal calorimetric titration, electrophoretic mobility shift assay, Northern Blot | arabinan | Geobacillus stearothermophilus | 21460081 The L-Arabinan utilization system of Geobacillus stearothermophilus. J Bacteriol. 2011 Jun;193(11):2838-50. doi: 10.1128/JB.00222-11. Epub 2011 Apr 1. |
2011 Jun | degradation | 25 | 5 | GH127, GH43_4, GH43_5, GH51_1 |
| PUL0396 | gene deletion mutant and growth assay | glycosaminoglycan | Cupriavidus necator | 21478317 Effects of homologous phosphoenolpyruvate-carbohydrate phosphotransferase system proteins on carbohydrate uptake and poly(3-Hydroxybutyrate) accumulation in Ralstonia eutropha H16. Appl Environ Microbiol. 2011 Jun;77(11):3582-90. doi: 10.1128/AEM.00218-11. Epub 2011 Apr 8. |
2011 Jun | degradation | 7 | 1 | CE9 |
| PUL0397 | gene deletion mutant and growth assay | glycosaminoglycan | Capnocytophaga canimorsus | 21762219 The genome and surface proteome of Capnocytophaga canimorsus reveal a key role of glycan foraging systems in host glycoproteins deglycosylation. Mol Microbiol. 2011 Aug;81(4):1050-60. doi: 10.1111/j.1365-2958.2011.07750.x. Epub 2011 Jul 18. |
2011 Aug | degradation | 5 | 1 | GH18 |
| PUL0398 | gene deletion mutant and growth assay | mucin | Capnocytophaga canimorsus | 21762219 The genome and surface proteome of Capnocytophaga canimorsus reveal a key role of glycan foraging systems in host glycoproteins deglycosylation. Glycan-foraging systems reveal the adaptation of Capnocytophaga canimorsus to the dog mouth. Mol Microbiol. 2011 Aug;81(4):1050-60. doi: 10.1111/j.1365-2958.2011.07750.x. Epub 2011 Jul 18. mBio. 2015 Mar 3;6(2):e02507. doi: 10.1128/mBio.02507-14. |
2011 Aug,2015 Mar 3 | degradation | 9 | 3 | CBM32, GH2 |
| PUL0399 | microarray | beta-galactooligosaccharide | Lactobacillus acidophilus | 22006318 Transcriptional and functional analysis of galactooligosaccharide uptake by lacS in Lactobacillus acidophilus. Proc Natl Acad Sci U S A. 2011 Oct 25;108(43):17785-90. doi: 10.1073/pnas.1114152108. Epub 2011 Oct 17. |
2011 Oct 25 | degradation | 12 | 2 | GH2, GH42 |
| PUL0400 | RT-qPCR, RNA-seq | alginate | Alteromonas macleodii | 25847866 Different utilization of alginate and other algal polysaccharides by marine Alteromonas macleodii ecotypes. Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. Environ Microbiol. 2015 Oct;17(10):3857-68. doi: 10.1111/1462-2920.12862. Epub 2015 May 8. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16. |
2015 Oct,2019 Jan | degradation | 14 | 5 | CBM32, PL7_5, PL17_2, PL17, PL6_3, PL6, PL6_1, PL7_5 |
| PUL0401 | RNA-seq | beta-glucan | Alteromonas macleodii | 30116038 Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16. |
2019 Jan | degradation | 9 | 3 | GH1, GH16_3, GH3 |
| PUL0402 | Northern Blot, enzyme activity assay | xylan | Lactococcus lactis subsp. lactis IO-1 | 11282589 Genetic evidence for a defective xylan degradation pathway in Lactococcus lactis. Appl Environ Microbiol. 2001 Apr;67(4):1445-52. doi: 10.1128/AEM.67.4.1445-1452.2001. |
2001 Apr | degradation | 6 | 1 | GH43_11, CBM91 |
| PUL0403 | RNA-seq | beta-glucan | Alteromonas macleodii | 30116038 Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16. |
2019 Jan | degradation | 4 | 1 | GH1 |
| PUL0404 | RNA-seq | pectin | Alteromonas macleodii | 30116038 Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16. |
2019 Jan | degradation | 18 | 4 | CE12, CE8, GH105, GH28 |
| PUL0405 | RNA-seq | pectin | Alteromonas macleodii | 30116038 Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16. |
2019 Jan | degradation | 4 | 2 | PL1_2, PL1_5, PL1_5 |
| PUL0406 | high-performance anion-exchange chromatography | beta-glucan | Coprothermobacter proteolyticus | 30315317 From proteins to polysaccharides: lifestyle and genetic evolution of Coprothermobacter proteolyticus. ISME J. 2019 Mar;13(3):603-617. doi: 10.1038/s41396-018-0290-y. Epub 2018 Oct 12. |
2019 Mar | degradation | 21 | 3 | GH16_3, GH18, GH3 |
| PUL0407 | primer extension analysis, enzyme activity assay | human milk oligosaccharide | Lactobacillus casei | 9066115 Establishing a model to study the regulation of the lactose operon in Lactobacillus casei. FEMS Microbiol Lett. 1997 Mar 1;148(1):83-9. doi: 10.1111/j.1574-6968.1997.tb10271.x. |
1997 Mar 1 | degradation | 4 | 1 | GH1 |
| PUL0408 | enzyme activity assay, thin-layer chromatography | beta-mannan | Bacteroides fragilis | 24217874 The mannobiose-forming exo-mannanase involved in a new mannan catabolic pathway in Bacteroides fragilis. Arch Microbiol. 2014 Jan;196(1):17-23. doi: 10.1007/s00203-013-0938-y. Epub 2013 Nov 12. |
2014 Jan | degradation | 4 | 2 | GH130_1, GH26 |
| PUL0410 | RT-qPCR | host glycan | Escherichia coli | 21545489 Growth temperature regulation of some genes that define the superficial capsular carbohydrate composition of Escherichia coli K92. FEMS Microbiol Lett. 2011 Jul;320(2):135-41. doi: 10.1111/j.1574-6968.2011.02300.x. Epub 2011 May 31. |
2011 Jul | degradation | 7 | 0 | NA |
| PUL0411 | enzyme activity assay | xylan | Prevotella bryantii | 7487028 A xylan hydrolase gene cluster in Prevotella ruminicola B(1)4: sequence relationships, synergistic interactions, and oxygen sensitivity of a novel enzyme with exoxylanase and beta-(1,4)-xylosidase activities. Appl Environ Microbiol. 1995 Aug;61(8):2958-64. doi: 10.1128/aem.61.8.2958-2964.1995. |
1995 Aug | degradation | 2 | 2 | GH10, GH43_1 |
| PUL0412 | clone and expression, enzyme activity assay | pectin | Ralstonia solanacearum | 12795379 Characterization of a Ralstonia solanacearum operon required for polygalacturonate degradation and uptake of galacturonic acid. Mol Plant Microbe Interact. 2003 Jun;16(6):536-44. doi: 10.1094/MPMI.2003.16.6.536. |
2003 Jun | degradation | 2 | 1 | GH28 |
| PUL0413 | enzyme activity assay, reducing-sugar assay | cellobiose | uncultured bacterium contig00059 | 30116044 Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite. ISME J. 2019 Jan;13(1):104-117. doi: 10.1038/s41396-018-0255-1. Epub 2018 Aug 16. |
2019 Jan | degradation | 31 | 2 | GH1, GH44 |
| PUL0414 | enzyme activity assay, thin-layer chromatography | xylan | uncultured bacterium 35A20 | 30116044 Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite. ISME J. 2019 Jan;13(1):104-117. doi: 10.1038/s41396-018-0255-1. Epub 2018 Aug 16. |
2019 Jan | degradation | 25 | 4 | GH1, GH10 |
| PUL0415 | microarray | xylan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 4 | 2 | GH20, GH20, CBM32 |
| PUL0416 | microarray | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 12 | 1 | CE20 |
| PUL0417 | microarray | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 13 | 1 | CE20 |
| PUL0418 | microarray | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 9 | 2 | CE1 |
| PUL0419 | microarray | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 11 | 7 | CBM67, GH78, GH130_1, GH140, GH2, GH5_2, GH5_5 |
| PUL0420 | microarray | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 4 | 2 | GH144, GH3 |
| PUL0421 | microarray | starch | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 7 | 3 | GH13_10, GH13_46, GH97 |
| PUL0422 | microarray | host glycan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 4 | 1 | GH18 |
| PUL0423 | clone and expression, enzyme activity assay | cellobiose | Thermotoga neapolitana | 10960102 Cloning and characterization of the glucooligosaccharide catabolic pathway beta-glucan glucohydrolase and cellobiose phosphorylase in the marine hyperthermophile Thermotoga neapolitana. J Bacteriol. 2000 Sep;182(18):5172-9. doi: 10.1128/JB.182.18.5172-5179.2000. |
2000 Sep | degradation | 3 | 2 | GH1, GH94 |
| PUL0424 | microarray | host glycan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 18 | 5 | GH130_2, GH163, GH18, GH92 |
| PUL0425 | microarray | fructan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 11 | 4 | GH32, GH91 |
| PUL0426 | microarray | mucin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 13 | 4 | GH18, GH92 |
| PUL0427 | microarray | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 6 | 2 | GH147, GH53 |
| PUL0434 | SDS-PAGE, Western Blot | beta-mannan | Clostridium cellulovorans | 10613891 The engL gene cluster of Clostridium cellulovorans contains a gene for cellulosomal manA. J Bacteriol. 2000 Jan;182(1):244-7. doi: 10.1128/JB.182.1.244-247.2000. |
2000 Jan | degradation | 8 | 5 | CBM4, CBM4, GH9, GH5_17, GH9 |
| PUL0435 | mass spectrometry, high-performance anion-exchange chromatography | beta-glucan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 13 | 4 | GH16_3, GH30_1, GH30_3, GH43_34 |
| PUL0436 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 8 | 3 | CBM32, CBM32, GH13_46, GH65 |
| PUL0437 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 6 | 1 | GH51_5 |
| PUL0438 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 7 | 4 | CE1, GH158, GH89, GT2, GH26, GH158 |
| PUL0439 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 4 | 1 | GH33 |
| PUL0440 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 5 | 2 | GH2, GH76 |
| PUL0441 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 6 | 2 | GH130_3, GH43_26, CBM13 |
| PUL0442 | mass spectrometry, high-performance anion-exchange chromatography, SDS-PAGE, recombinant protein expression, enzyme activity assay, substrate binding assay | glucomannan/chitin | Chitinophaga pinensis DSM 2588 | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. A polysaccharide utilization locus from Chitinophaga pinensis simultaneously targets chitin and beta-glucans found in fungal cell walls. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. mSphere. 2023 Aug 24;8(4):e0024423. doi: 10.1128/msphere.00244-23. Epub 2023 Jul 26. |
2017 Mar 6,2023 Aug 24 | degradation | 9 | 3 | GH16_3, CBM6, GH18, CBM6, GH18, GH18, CBM5 |
| PUL0443 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 9 | 3 | CBM6, CBM6, GH16_3, CBM32, GH16_3, CBM92 |
| PUL0444 | mass spectrometry, high-performance anion-exchange chromatography | glucomannan | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 6 | 2 | GH19_2, GH31_4 |
| PUL0445 | recombinant protein expression, thin-layer chromatography, enzyme activity assay | alginate | Sphingomonas sp. | 10913091 Molecular identification of oligoalginate lyase of Sphingomonas sp. strain A1 as one of the enzymes required for complete depolymerization of alginate. J Bacteriol. 2000 Aug;182(16):4572-7. doi: 10.1128/JB.182.16.4572-4577.2000. |
2000 Aug | degradation | 8 | 2 | PL15_1, PL5, PL7 |
| PUL0454 | SDS-PAGE, protein fingerprinting (MALDI-TOF PMF) | alpha-glucan | Actinoplanes sp. SE50/110 | 22944206 The cytosolic and extracellular proteomes of Actinoplanes sp. SE50/110 led to the identification of gene products involved in acarbose metabolism. J Biotechnol. 2013 Aug 20;167(2):178-89. doi: 10.1016/j.jbiotec.2012.08.011. Epub 2012 Aug 31. |
2013 Aug 20 | biosynthesis | 22 | 6 | GH13_13, CBM41, CBM41, GH13_2, CBM20, GH77, GT5 |
| PUL0455 | clone and expression, genes induced in presence of substrate, enzyme activity assay | starch | Bifidobacterium animalis | 12513973 Induction of sucrose utilization genes from Bifidobacterium lactis by sucrose and raffinose. Appl Environ Microbiol. 2003 Jan;69(1):24-32. doi: 10.1128/AEM.69.1.24-32.2003. |
2003 Jan | degradation | 3 | 1 | GH13_18 |
| PUL0456 | microarray, RNA-seq | xylan | Prevotella bryantii | 20622018 Transcriptomic analyses of xylan degradation by Prevotella bryantii and insights into energy acquisition by xylanolytic bacteroidetes. J Biol Chem. 2010 Sep 24;285(39):30261-73. doi: 10.1074/jbc.M110.141788. Epub 2010 Jul 9. |
2010 Sep 24 | degradation | 12 | 4 | GH43_10, GH43_1, GH67, GH10 |
| PUL0457 | high-performance anion-exchange chromatography, enzyme activity assay, RNA-seq | xylan | Lactobacillus rossiae | 27142164 Cloning, expression and characterization of a beta-D-xylosidase from Lactobacillus rossiae DSM 15814(T). Microb Cell Fact. 2016 May 3;15:72. doi: 10.1186/s12934-016-0473-z. |
2016 May 3 | degradation | 7 | 1 | GH43_11, CBM91 |
| PUL0458 | RNA-seq, analysis of reaction products, enzyme activity assay | carrageenan | Colwellia echini | 31915221 A Multifunctional Polysaccharide Utilization Gene Cluster in Colwellia echini Encodes Enzymes for the Complete Degradation of kappa-Carrageenan, iota-Carrageenan, and Hybrid beta/kappa-Carrageenan. mSphere. 2020 Jan 8;5(1):e00792-19. doi: 10.1128/mSphere.00792-19. |
2020 Jan 8 | degradation | 46 | 9 | GH16_13, GH16_13, CBM16, CBM16, GH16_17, GH16_3, GH167, GH82 |
| PUL0459 | RNA-seq, analysis of reaction products, enzyme activity assay, thin-layer chromatography, liquid chromatography, mass spectrometry | agarose | Colwellia echini A3 | 31915221 A Multifunctional Polysaccharide Utilization Gene Cluster in Colwellia echini Encodes Enzymes for the Complete Degradation of kappa-Carrageenan, iota-Carrageenan, and Hybrid beta/kappa-Carrageenan. A Novel Auxiliary Agarolytic Pathway Expands Metabolic Versatility in the Agar-Degrading Marine Bacterium Colwellia echini A3(T). mSphere. 2020 Jan 8;5(1):e00792-19. doi: 10.1128/mSphere.00792-19. Appl Environ Microbiol. 2021 May 26;87(12):e0023021. doi: 10.1128/AEM.00230-21. Epub 2021 May 26. |
2020 Jan 8,2021 May 26 | degradation | 45 | 9 | GH117, GH117, GH2, GH29, GH50, GH86, GH96 |
| PUL0460 | recombinant protein expression, RT-PCR, enzyme activity assay | agar | Paraglaciecola hydrolytica S66 | 29774012 A Novel Enzyme Portfolio for Red Algal Polysaccharide Degradation in the Marine Bacterium Paraglaciecola hydrolytica S66(T) Encoded in a Sizeable Polysaccharide Utilization Locus. Front Microbiol. 2018 May 3;9:839. doi: 10.3389/fmicb.2018.00839. eCollection 2018. |
2018 | degradation | 23 | 6 | CE2, GH2, GH29, GH50, GH63, GH86, GH86, CBM6 |
| PUL0463 | microarray, qPCR | host glycan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 13 | 2 | CE2, GH89 |
| PUL0464 | microarray, qPCR | host glycan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 16 | 8 | CBM93, GH33, CE20, GH2, GH20, GH20, CBM32 |
| PUL0465 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 8 | 2 | GH18 |
| PUL0466 | clone and expression, enzyme activity assay, Northern Blot | arabinan | Bacillus subtilis | 14973026 Transcriptional regulation of genes encoding arabinan-degrading enzymes in Bacillus subtilis. J Bacteriol. 2004 Mar;186(5):1287-96. doi: 10.1128/JB.186.5.1287-1296.2004. |
2004 Mar | degradation | 9 | 1 | GH51_1 |
| PUL0467 | microarray, qPCR, expression of recombinant proteins, RNA-seq, differential gene expression | host glycan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. |
2008 Nov 13,2019 Sep | degradation | 14 | 4 | GH18, GH2, GH20, GH29, CBM32 |
| PUL0468 | microarray, qPCR | host glycan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 47 | 4 | GH109, GH177, GH43_26, GH76 |
| PUL0470 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 7 | 1 | GH18 |
| PUL0471 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 9 | 4 | CBM32, GH92 |
| PUL0472 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 28 | 10 | CBM67, GH78, CE1, CE20, CE20, GH130_3, GH2, GH38, GH43_8, GH92 |
| PUL0473 | growth assay | alpha-glucan | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 8 | 3 | GH13, GH13, CBM26, GH97 |
| PUL0474 | growth assay | xylan | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 9 | 5 | GH3, GH30_1, GH30_3 |
| PUL0475 | clone and expression, gene deletion mutant and growth assay | beta-glucan | Streptomyces reticuli | 10347054 Characterization of the binding protein-dependent cellobiose and cellotriose transport system of the cellulose degrader Streptomyces reticuli. Appl Environ Microbiol. 1999 Jun;65(6):2636-43. doi: 10.1128/AEM.65.6.2636-2643.1999. |
1999 Jun | degradation | 7 | 2 | CBM2, GH18, GH1 |
| PUL0476 | growth assay | pectin | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 11 | 6 | GH2, GH29, CBM32, CBM32, GH43_18, GH43_26, GH43_31, GH5_13 |
| PUL0477 | growth assay | beta-glucan | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 6 | 2 | GH16_3 |
| PUL0478 | growth assay | alpha-mannan | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 8 | 4 | GH125, GH2, GH92 |
| PUL0479 | growth assay | pectin | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 20 | 11 | GH2, GH27, GH28, GH43_19, GH43_34, GH51_2, GH89, GH92, GH95 |
| PUL0480 | growth assay | xylan | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 9 | 4 | GH10, GH16, GH3, GH8 |
| PUL0482 | growth assay | pectin | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 27 | 21 | CBM67, GH78, CE19, CE20, CE8, GH106, GH127, GH137, GH139, GH140, GH142, GH143, GH2, GH28, GH43_18, GH78, GH95, PL1_2, PL29 |
| PUL0483 | growth assay | pectin | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 12 | 7 | CE12, CE12, CE20, GH105, GH106, GH117, GH2, GH28 |
| PUL0484 | growth assay | pectin | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 12 | 8 | CE12, GH105, GH28, GH43_10, CBM91, PL10_1, CE8 |
| PUL0485 | growth assay, qRT-PCR, enzyme activity assay, affinity gel electrophoresis, crystallization, recombinant protein expression | starch | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Bacteroidota polysaccharide utilization system for branched dextran exopolysaccharides from lactic acid bacteria. Structural insights into alpha-(1-->6)-linkage preference of GH97 glucodextranase from Flavobacterium johnsoniae. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. J Biol Chem. 2023 Jul;299(7):104885. doi: 10.1016/j.jbc.2023.104885. Epub 2023 Jun 2. FEBS J. 2024 Jul;291(14):3267-3282. doi: 10.1111/febs.17139. Epub 2024 Apr 25. |
2009 Nov,2023 Jul,2024 Jul | degradation | 9 | 5 | GH27, CBM13, GH31, GH65, GH66, GH97 |
| PUL0486 | RT-PCR, sugar utilization assay | raffinose | Streptococcus pneumoniae | 10613841 Regulation of the alpha-galactosidase activity in Streptococcus pneumoniae: characterization of the raffinose utilization system. Genome Res. 1999 Dec;9(12):1189-97. doi: 10.1101/gr.9.12.1189. |
1999 Dec | degradation | 8 | 2 | GH13_18, GH36 |
| PUL0488 | growth assay | beta-mannan | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 14 | 7 | GH130_1, GH26, GH27, GH5_2, GH5_7, GH97 |
| PUL0497 | clone and expression, enzyme activity assay | chitin | Pseudoalteromonas piscicida | 11772635 Identification and characterization of the gene cluster involved in chitin degradation in a marine bacterium, Alteromonas sp. strain O-7. Appl Environ Microbiol. 2002 Jan;68(1):263-70. doi: 10.1128/AEM.68.1.263-270.2002. |
2002 Jan | degradation | 3 | 3 | AA10, CBM5, GH18, GH18, CBM5 |
| PUL0508 | clone and expression, enzyme activity assay | xylan | Streptomyces thermoviolaceus | 14761997 Molecular characterization of a high-affinity xylobiose transporter of Streptomyces thermoviolaceus OPC-520 and its transcriptional regulation. J Bacteriol. 2004 Feb;186(4):1029-37. doi: 10.1128/JB.186.4.1029-1037.2004. |
2004 Feb | degradation | 5 | 1 | GH3 |
| PUL0519 | gene deletion mutant and growth assay | starch | Streptococcus pneumoniae | 8244973 Characterization of the Streptococcus pneumoniae maltosaccharide regulator MalR, a member of the LacI-GalR family of repressors displaying distinctive genetic features. J Biol Chem. 1993 Dec 5;268(34):25402-8. |
1993 Dec 5 | degradation | 7 | 2 | GH77, GT35 |
| PUL0520 | clone and expression, enzyme activity assay | xylan | Klebsiella oxytoca | 14532050 Cloning, characterization, and functional expression of the Klebsiella oxytoca xylodextrin utilization operon (xynTB) in Escherichia coli. Appl Environ Microbiol. 2003 Oct;69(10):5957-67. doi: 10.1128/AEM.69.10.5957-5967.2003. |
2003 Oct | degradation | 2 | 1 | GH43_11, CBM91 |
| PUL0526 | microarray, qPCR | beta-glucan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 6 | 2 | GH3, GH30_3 |
| PUL0527 | microarray, qPCR | xyloglucan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 16 | 8 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH9 |
| PUL0528 | microarray, qPCR | beta-glucan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 7 | 3 | GH16_3, GH3 |
| PUL0529 | microarray, qPCR, RNA-seq, reducing-sugar assay, growth assay | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2011 Dec,2025 May 1 | degradation | 27 | 13 | CE12, CE8, CE8, GH105, GH28, GH3, GH43_10, CBM91, PL1_2 |
| PUL0531 | clone and expression, enzyme activity assay | chitin | Serratia marcescens | 12618440 Uptake of N,N'-diacetylchitobiose [(GlcNAc)2] via the phosphotransferase system is essential for chitinase production by Serratia marcescens 2170. J Bacteriol. 2003 Mar;185(6):1776-82. doi: 10.1128/JB.185.6.1776-1782.2003. |
2003 Mar | degradation | 5 | 1 | GH1 |
| PUL0532 | RNA-seq | arabinan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 17 | 5 | GH146, GH43_4, GH51_1, GH51_2 |
| PUL0533 | RNA-seq | xylan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 9 | 3 | GH10, GH115, GH30_8 |
| PUL0534 | RNA-seq | pectin | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 9 | 5 | GH13_10, GH133, GH147, GH2, GH53 |
| PUL0535 | RNA-seq | arabinogalactan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 9 | 3 | CBM32, GH16_3, GH43_24, GH16_3 |
| PUL0536 | RNA-seq | glycosaminoglycan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 6 | 1 | GH2 |
| PUL0537 | RNA-seq | beta-glucan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 7 | 3 | GH157, GH3 |
| PUL0538 | RNA-seq | galactomannan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 15 | 7 | CE7, GH130_1, GH26, GH26, GH26, GH3, GH5_2, GH5_7 |
| PUL0539 | RNA-seq | pectin | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 16 | 7 | CE20, GH105, GH105, GH106, GH28, PL11, PL1_2 |
| PUL0540 | RNA-seq | starch | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 6 | 3 | GH13, GH97 |
| PUL0541 | RNA-seq | glycosaminoglycan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 5 | 1 | PL8_2 |
| PUL0542 | binding assay | xylan | Geobacillus stearothermophilus | 10368143 The glucuronic acid utilization gene cluster from Bacillus stearothermophilus T-6. J Bacteriol. 1999 Jun;181(12):3695-704. doi: 10.1128/JB.181.12.3695-3704.1999. |
1999 Jun | degradation | 29 | 7 | CE4, GH10, GH39, GH43_11, CBM91, GH52, GH67 |
| PUL0543 | RNA-seq | beta-glucan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 6 | 3 | GH2, CBM57, GH30_3, PL38, GH88 |
| PUL0545 | RNA-seq | arabinoxylan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 10 | 6 | CE1, GH3, GH43_17, GH43_2, CBM6, GH43_7, GH43_7, GH9 |
| PUL0546 | RNA-seq | arabinogalactan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 9 | 5 | CBM13, CBM32, GH2, GH30_4, GH51_2 |
| PUL0547 | RNA-seq | beta-mannan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 11 | 6 | GH130_5, GH173, GH2, GH26, GH3 |
| PUL0548 | RNA-seq | pectin | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 7 | 3 | GH28, GH92 |
| PUL0549 | RNA-seq | pectin | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 6 | 1 | GH140 |
| PUL0550 | RNA-seq | glycosaminoglycan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 7 | 3 | CE8, GH3, PL1_2 |
| PUL0551 | RNA-seq | beta-glucan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 6 | 2 | GH16_3, GH3 |
| PUL0552 | RNA-seq | arabinan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 7 | 4 | CBM67, GH78, GH143, GH142, GH43_18, PL1_2 |
| PUL0553 | RT-PCR, qPCR | xylan | Bacteroides xylanisolvens | 27142817 Xylan degradation by the human gut Bacteroides xylanisolvens XB1A(T) involves two distinct gene clusters that are linked at the transcriptional level. BMC Genomics. 2016 May 4;17:326. doi: 10.1186/s12864-016-2680-8. |
2016 May 4 | degradation | 22 | 13 | CE6, CE1, GH10, GH115, GH3, GH31_4, GH43_10, CBM91, GH43_12, CBM91, GH43_29, CBM6, GH5_21, GH95, GH97 |
| PUL0554 | RNA-seq | starch | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 6 | 3 | GH31, GH66, GH97 |
| PUL0555 | gene deletion mutant and growth assay, qRT-PCR, microarray, enzyme activity assay | host glycan | Bacteroides fragilis | 25139987 Efficient utilization of complex N-linked glycans is a selective advantage for Bacteroides fragilis in extraintestinal infections. Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12901-6. doi: 10.1073/pnas.1407344111. Epub 2014 Aug 19. |
2014 Sep 2 | degradation | 9 | 5 | GH154, GH2, GH20, GH88, PL33_1 |
| PUL0556 | gene deletion mutant and growth assay, qRT-PCR, microarray, enzyme activity assay | host glycan | Bacteroides fragilis | 25139987 Efficient utilization of complex N-linked glycans is a selective advantage for Bacteroides fragilis in extraintestinal infections. Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12901-6. doi: 10.1073/pnas.1407344111. Epub 2014 Aug 19. |
2014 Sep 2 | degradation | 8 | 2 | GH18, GH97 |
| PUL0558 | gene deletion mutant and growth assay, growth assay, enzyme activity assay | pectin | Bacteroides thetaiotaomicron | 28329766 Complex pectin metabolism by gut bacteria reveals novel catalytic functions. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Nature. 2017 Apr 6;544(7648):65-70. doi: 10.1038/nature21725. Epub 2017 Mar 22. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2017 Apr 6,2011 Dec | degradation | 50 | 21 | CBM67, GH78, CBM67, GH78, GH33, CE19, CE20, GH105, GH106, GH127, GH137, GH2, CBM57, CBM97, GH138, GH139, GH140, GH141, GH143, GH142, GH2, GH28, GH43_18, GH78, GH95, PL1_2 |
| PUL0559 | gene deletion mutant and growth assay, growth assay, enzyme activity assay, microarray, qPCR | pectin | Bacteroides thetaiotaomicron | 28329766 Complex pectin metabolism by gut bacteria reveals novel catalytic functions. Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. Nature. 2017 Apr 6;544(7648):65-70. doi: 10.1038/nature21725. Epub 2017 Mar 22. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. |
2017 Apr 6,2008 Nov 13,2011 Dec,2006 Nov 24 | degradation | 12 | 4 | GH29, GH43_10, CBM91, GH43_34, CBM32, GH97 |
| PUL0560 | microarray, qPCR | arabinogalactan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2008 Nov 13,2011 Dec | degradation | 30 | 4 | GH35, GH43_24, PL27 |
| PUL0561 | clone and expression, enzyme activity assay | alpha-galactan | Lactobacillus plantarum | 12406739 Characterization of the melA locus for alpha-galactosidase in Lactobacillus plantarum. Appl Environ Microbiol. 2002 Nov;68(11):5464-71. doi: 10.1128/AEM.68.11.5464-5471.2002. |
2002 Nov | degradation | 5 | 2 | GH2, GH36 |
| PUL0563 | microarray, qPCR | arabinogalactan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2008 Nov 13,2011 Dec | degradation | 15 | 7 | GH105, GH127, GH154, GH16_3, GH43_24, GH43_24, GH43_34, PL42 |
| PUL0564 | microarray, qPCR, UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2008 Nov 13,2011 Dec,2021 Nov 15 | degradation | 39 | 22 | CE12, CE12, CE12, CE4, CE6, GH105, GH106, GH2, GH27, GH28, GH35, GH43_18, GH42, PL11_1, PL26, PL9, PL9_1 |
| PUL0565 | microarray, qPCR | galactomannan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Galactomannan Catabolism Conferred by a Polysaccharide Utilization Locus of Bacteroides ovatus: ENZYME SYNERGY AND CRYSTAL STRUCTURE OF A beta-MANNANASE. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. J Biol Chem. 2017 Jan 6;292(1):229-243. doi: 10.1074/jbc.M116.746438. Epub 2016 Nov 21. |
2011 Dec,2017 Jan 6 | degradation | 10 | 4 | GH130_1, GH26, GH36 |
| PUL0566 | microarray, qPCR | pectin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18. |
2011 Dec,2018 Feb | degradation | 7 | 3 | GH147, GH2, GH53 |
| PUL0568 | clone and expression, enzyme activity assay, Northern Blot | starch | Clostridium beijerinckii | 10411273 The genes controlling sucrose utilization in Clostridium beijerinckii NCIMB 8052 constitute an operon. Microbiology (Reading). 1999 Jun;145 ( Pt 6):1461-1472. doi: 10.1099/13500872-145-6-1461. |
1999 Jun | degradation | 4 | 1 | GH32 |
| PUL0569 | clone and expression, enzyme activity assay, Northern Blot | fructan | Bacillus subtilis | 11739774 yveB, Encoding endolevanase LevB, is part of the sacB-yveB-yveA levansucrase tricistronic operon in Bacillus subtilis. Microbiology (Reading). 2001 Dec;147(Pt 12):3413-9. doi: 10.1099/00221287-147-12-3413. |
2001 Dec | degradation | 4 | 2 | GH32, GH68_1 |
| PUL0570 | clone and expression, enzyme activity assay | cellobiose | Corynebacterium glutamicum | 12777497 A single V317A or V317M substitution in Enzyme II of a newly identified beta-glucoside phosphotransferase and utilization system of Corynebacterium glutamicum R extends its specificity towards cellobiose. Microbiology (Reading). 2003 Jun;149(Pt 6):1569-1580. doi: 10.1099/mic.0.26053-0. |
2003 Jun | degradation | 3 | 1 | GH1 |
| PUL0571 | Northern Blot | chitin | Salmonella enterica | 19638370 Caught at its own game: regulatory small RNA inactivated by an inducible transcript mimicking its target. Genes Dev. 2009 Sep 1;23(17):2004-15. doi: 10.1101/gad.541609. Epub 2009 Jul 28. |
2009 Sep 1 | degradation | 8 | 1 | GH4 |
| PUL0572 | enzyme activity assay | alginate | Pseudomonas aeruginosa | 8335634 Characterization of the Pseudomonas aeruginosa alginate lyase gene (algL): cloning, sequencing, and expression in Escherichia coli. J Bacteriol. 1993 Aug;175(15):4780-9. doi: 10.1128/jb.175.15.4780-4789.1993. |
1993 Aug | biosynthesis | 12 | 2 | GT2, PL5_1 |
| PUL0573 | enzyme activity assay, electrophoretic mobility shift assay, RT-PCR, qRT-PCR | beta-glucan | Streptomyces griseus | 19648249 CebR as a master regulator for cellulose/cellooligosaccharide catabolism affects morphological development in Streptomyces griseus. J Bacteriol. 2009 Oct;191(19):5930-40. doi: 10.1128/JB.00703-09. Epub 2009 Jul 31. |
2009 Oct | degradation | 5 | 1 | GH1 |
| PUL0574 | enzyme activity assay | alpha-mannan | Streptococcus pyogenes | 16822234 Functional analysis of a group A streptococcal glycoside hydrolase Spy1600 from family 84 reveals it is a beta-N-acetylglucosaminidase and not a hyaluronidase. Biochem J. 2006 Oct 15;399(2):241-7. doi: 10.1042/BJ20060307. |
2006 Oct 15 | degradation | 8 | 4 | GH1, GH125, GH38, GH84 |
| PUL0575 | microarray, growth assay, gene deletion mutant and growth assay | raffinose | Enterococcus faecium | 20946531 A genetic element present on megaplasmids allows Enterococcus faecium to use raffinose as carbon source. Environ Microbiol. 2011 Feb;13(2):518-28. doi: 10.1111/j.1462-2920.2010.02355.x. Epub 2010 Oct 15. |
2011 Feb | degradation | 11 | 4 | GH13_18, GH13_31, GH36, GH4 |
| PUL0576 | growth assay | mucin | Bifidobacterium bifidum | 20974960 Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging. Proc Natl Acad Sci U S A. 2010 Nov 9;107(45):19514-9. doi: 10.1073/pnas.1011100107. Epub 2010 Oct 25. |
2010 Nov 9 | degradation | 9 | 1 | GH112 |
| PUL0577 | SDS-PAGE, enzyme activity assay | chitin | Photobacterium profundum | 21098515 Elucidation of exo-beta-D-glucosaminidase activity of a family 9 glycoside hydrolase (PBPRA0520) from Photobacterium profundum SS9. Glycobiology. 2011 Apr;21(4):503-11. doi: 10.1093/glycob/cwq191. Epub 2010 Nov 22. |
2011 Apr | degradation | 11 | 3 | GH20, GH9, GH94 |
| PUL0578 | qRT-PCR, enzyme activity assay, electrophoretic mobility shift assay | beta-glucan | Bifidobacterium breve | 21216899 Cellodextrin utilization by bifidobacterium breve UCC2003. Appl Environ Microbiol. 2011 Mar;77(5):1681-90. doi: 10.1128/AEM.01786-10. Epub 2011 Jan 7. |
2011 Mar | degradation | 5 | 1 | GH1 |
| PUL0579 | microarray, qRT-PCR, Western Blot, immunoprecipitation | glycosaminoglycan | Vibrio cholerae | 21488982 Two gene clusters co-ordinate for a functional N-acetylglucosamine catabolic pathway in Vibrio cholerae. Mol Microbiol. 2011 Jun;80(6):1549-60. doi: 10.1111/j.1365-2958.2011.07664.x. Epub 2011 May 5. |
2011 Jun | degradation | 3 | 1 | CE9 |
| PUL0580 | microarray, qRT-PCR, Western Blot, immunoprecipitation | glycosaminoglycan | Vibrio cholerae | 21488982 Two gene clusters co-ordinate for a functional N-acetylglucosamine catabolic pathway in Vibrio cholerae. Mol Microbiol. 2011 Jun;80(6):1549-60. doi: 10.1111/j.1365-2958.2011.07664.x. Epub 2011 May 5. |
2011 Jun | degradation | 3 | 1 | CE9 |
| PUL0581 | SDS-PAGE, enzyme activity assay | fructan | Microbulbifer sp. JAM-3301 | 22286980 Cloning and sequencing of inulinase and beta-fructofuranosidase genes of a deep-sea Microbulbifer species and properties of recombinant enzymes. Appl Environ Microbiol. 2012 Apr;78(7):2493-5. doi: 10.1128/AEM.07442-11. Epub 2012 Jan 27. |
2012 Apr | degradation | 3 | 2 | GH32 |
| PUL0582 | NMR, microarray, enzyme activity assay, gene deletion mutant and growth assay | human milk oligosaccharide | Lactococcus lactis | 22660716 A specific mutation in the promoter region of the silent cel cluster accounts for the appearance of lactose-utilizing Lactococcus lactis MG1363. Appl Environ Microbiol. 2012 Aug;78(16):5612-21. doi: 10.1128/AEM.00455-12. Epub 2012 Jun 1. |
2012 Aug | degradation | 5 | 2 | GH1, GH170 |
| PUL0583 | enzyme activity assay, gene deletion mutant and growth assay | cellobiose | Geobacillus stearothermophilus | 8407820 Cloning and sequencing of a cellobiose phosphotransferase system operon from Bacillus stearothermophilus XL-65-6 and functional expression in Escherichia coli. J Bacteriol. 1993 Oct;175(20):6441-50. doi: 10.1128/jb.175.20.6441-6450.1993. |
1993 Oct | degradation | 5 | 0 | NA |
| PUL0584 | microarray | melibiose | Lactococcus lactis | 23530958 Genotype-phenotype matching analysis of 38 Lactococcus lactis strains using random forest methods. BMC Microbiol. 2013 Mar 26;13:68. doi: 10.1186/1471-2180-13-68. |
2013 Mar 26 | degradation | 11 | 2 | GH13_18, GH36 |
| PUL0585 | microarray, gene deletion mutant and growth assay, beta-galactosidase assays | cellobiose | Streptococcus pneumoniae | 21778207 CelR-mediated activation of the cellobiose-utilization gene cluster in Streptococcus pneumoniae. Microbiology (Reading). 2011 Oct;157(Pt 10):2854-2861. doi: 10.1099/mic.0.051359-0. Epub 2011 Jul 21. |
2011 Oct | degradation | 7 | 1 | GH1 |
| PUL0586 | enzyme activity assay | chitin | Serratia marcescens | 23047109 Regulation of chitinase production by the 5'-untranslated region of the ybfM in Serratia marcescens 2170. Biosci Biotechnol Biochem. 2012;76(10):1920-4. doi: 10.1271/bbb.120403. Epub 2012 Oct 7. |
2012 | degradation | 3 | 1 | GH20 |
| PUL0587 | RT-PCR, enzyme activity assay | fructan | Prevotella intermedia | 23266804 Identification and functional analysis of the gene cluster for fructan utilization in Prevotella intermedia. Gene. 2013 Feb 25;515(2):291-7. doi: 10.1016/j.gene.2012.12.023. Epub 2012 Dec 22. |
2013 Feb 25 | degradation | 3 | 1 | GH32 |
| PUL0588 | enzyme activity assay, RT-PCR | chitin | Streptomyces coelicolor | 23278377 Enzymatic and genetic characterization of the DasD protein possessing N-acetyl-beta-d-glucosaminidase activity in Streptomyces coelicolor A3(2). FEMS Microbiol Lett. 2013 Mar;340(1):33-40. doi: 10.1111/1574-6968.12069. Epub 2013 Jan 16. |
2013 Mar | degradation | 4 | 1 | GH3 |
| PUL0589 | Western Blot, enzyme activity assay, thin-layer chromatography | starch | Streptococcus mutans | 23930155 The malQ gene is essential for starch metabolism in Streptococcus mutans. J Oral Microbiol. 2013 Aug 6;5. doi: 10.3402/jom.v5i0.21285. Print 2013. |
2013 | degradation | 3 | 2 | GH77, GT35 |
| PUL0590 | qRT-PCR, gene deletion mutant and growth assay, microarray | starch | Enterococcus faecium | 23951303 A LacI-family regulator activates maltodextrin metabolism of Enterococcus faecium. PLoS One. 2013 Aug 7;8(8):e72285. doi: 10.1371/journal.pone.0072285. eCollection 2013. |
2013 | degradation | 5 | 1 | CBM34, GH13_20 |
| PUL0591 | growth assay, Northern Blot | glycosaminoglycan | Bacillus subtilis | 23667565 The use of amino sugars by Bacillus subtilis: presence of a unique operon for the catabolism of glucosamine. PLoS One. 2013 May 8;8(5):e63025. doi: 10.1371/journal.pone.0063025. Print 2013. |
2013 | degradation | 4 | 1 | CE9 |
| PUL0592 | qRT-PCR | xylan | Paenibacillus sp. JDR-2 | 25063665 GH51 arabinofuranosidase and its role in the methylglucuronoarabinoxylan utilization system in Paenibacillus sp. strain JDR-2. Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25. |
2014 Oct | degradation | 8 | 3 | GH10, GH43_12, CBM91, GH67 |
| PUL0593 | Northern Blot | starch | Thermoanaerobacterium thermosulfurigenes | 8576036 Molecular analysis of the amy gene locus of Thermoanaerobacterium thermosulfurigenes EM1 encoding starch-degrading enzymes and a binding protein-dependent maltose transport system. J Bacteriol. 1996 Feb;178(4):1039-46. doi: 10.1128/jb.178.4.1039-1046.1996. |
1996 Feb | degradation | 6 | 2 | CBM34, GH13_39, CBM20, GH13_2, CBM20 |
| PUL0594 | qRT-PCR | xylan | Paenibacillus sp. JDR-2 | 25063665 GH51 arabinofuranosidase and its role in the methylglucuronoarabinoxylan utilization system in Paenibacillus sp. strain JDR-2. Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25. |
2014 Oct | degradation | 5 | 1 | GH51_1 |
| PUL0595 | enzyme activity assay, qPCR, crystallization | starch | [Eubacterium] rectale | 25388295 Molecular details of a starch utilization pathway in the human gut symbiont Eubacterium rectale. Mol Microbiol. 2015 Jan;95(2):209-30. doi: 10.1111/mmi.12859. Epub 2014 Dec 19. |
2015 Jan | degradation | 4 | 1 | CBM82, CBM83, GH13_41 |
| PUL0596 | enzyme activity assay, qPCR, crystallization | starch | [Eubacterium] rectale | 25388295 Molecular details of a starch utilization pathway in the human gut symbiont Eubacterium rectale. Mol Microbiol. 2015 Jan;95(2):209-30. doi: 10.1111/mmi.12859. Epub 2014 Dec 19. |
2015 Jan | degradation | 4 | 1 | GH13_36 |
| PUL0597 | enzyme activity assay, enzyme kinetic analysis | arabinoxylan | Corynebacterium alkanolyticum | 25862223 Functional Characterization of Corynebacterium alkanolyticum beta-Xylosidase and Xyloside ABC Transporter in Corynebacterium glutamicum. Appl Environ Microbiol. 2015 Jun 15;81(12):4173-83. doi: 10.1128/AEM.00792-15. Epub 2015 Apr 10. |
2015 Jun 15 | degradation | 5 | 1 | GH3 |
| PUL0598 | liquid chromatography and mass spectrometry, differential gene expression | xylan | Clostridium cellulovorans 743B | 26020016 Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015. |
2015 | degradation | 4 | 1 | GH95 |
| PUL0599 | liquid chromatography and mass spectrometry, differential gene expression | xylan | Clostridium cellulovorans | 26020016 Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015. |
2015 | degradation | 7 | 1 | GH43_11, CBM91 |
| PUL0600 | liquid chromatography and mass spectrometry, differential gene expression | galactomannan | Clostridium cellulovorans | 26020016 Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015. |
2015 | degradation | 12 | 3 | GH130_1, GH130_2, GH2 |
| PUL0601 | liquid chromatography and mass spectrometry, differential gene expression | pectin | Clostridium cellulovorans | 26020016 Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015. |
2015 | degradation | 15 | 3 | CE4, GH105, GH28 |
| PUL0602 | sequence homology analysis | xylan | Parageobacillus thermoglucosidasius | 26442136 Complete genome sequence of Geobacillus thermoglucosidasius C56-YS93, a novel biomass degrader isolated from obsidian hot spring in Yellowstone National Park. Stand Genomic Sci. 2015 Oct 5;10:73. doi: 10.1186/s40793-015-0031-z. eCollection 2015. |
2015 | degradation | 26 | 6 | CE4, GH10, GH39, GH52, GH67 |
| PUL0603 | microarray, qRT-PCR, culureing methods | galactomannan | Lactobacillus plantarum WCFS1 | 31703861 Transcriptional analysis of galactomannooligosaccharides utilization by Lactobacillus plantarum WCFS1. Food Microbiol. 2020 Apr;86:103336. doi: 10.1016/j.fm.2019.103336. Epub 2019 Sep 14. |
2020 Apr | degradation | 3 | 1 | GH1 |
| PUL0604 | microarray, qRT-PCR, culureing methods | galactomannan | Lactobacillus plantarum WCFS1 | 31703861 Transcriptional analysis of galactomannooligosaccharides utilization by Lactobacillus plantarum WCFS1. Food Microbiol. 2020 Apr;86:103336. doi: 10.1016/j.fm.2019.103336. Epub 2019 Sep 14. |
2020 Apr | degradation | 5 | 2 | GH13_31, GH32 |
| PUL0605 | RT-PCR, gene deletion mutant and growth assay | glycogen | Escherichia coli | 33101261 Glycogen Metabolism Impairment via Single Gene Mutation in the glgBXCAP Operon Alters the Survival Rate of Escherichia coli Under Various Environmental Stresses. Escherichia coli glycogen genes are organized in a single glgBXCAP transcriptional unit possessing an alternative suboperonic promoter within glgC that directs glgAP expression. Front Microbiol. 2020 Sep 25;11:588099. doi: 10.3389/fmicb.2020.588099. eCollection 2020. Biochem J. 2011 Jan 1;433(1):107-17. doi: 10.1042/BJ20101186. |
2020,2011 Jan 1 | biosynthesis | 5 | 4 | CBM48, GH13_11, CBM48, GH13_9, GT35, GT5 |
| PUL0606 | enzyme activity assay, clone and expression | beta-galactooligosaccharide | Bifidobacterium breve UCC2003 | 32385941 Biochemical analysis of cross-feeding behaviour between two common gut commensals when cultivated on plant-derived arabinogalactan. Microb Biotechnol. 2020 Nov;13(6):1733-1747. doi: 10.1111/1751-7915.13577. Epub 2020 May 9. |
2020 Nov | degradation | 3 | 1 | GH2 |
| PUL0607 | enzyme activity assay, clone and expression, liquid chromatography and mass spectrometry | agarose | Wenyingzhuangia fucanilytica strain CZ1127 | 32520542 Characterization of a Novel Porphyranase Accommodating Methyl-galactoses at Its Subsites. J Agric Food Chem. 2020 Jul 1;68(26):7032-7039. doi: 10.1021/acs.jafc.0c02404. Epub 2020 Jun 22. |
2020 Jul 1 | degradation | 22 | 8 | GH105, GH154, GH117, GH141, GH16_11, GH16_14, GH2, GH29 |
| PUL0608 | enzyme activity assay, clone and expression, liquid chromatography and mass spectrometry, thin-layer chromatography, MALDI-TOF/MS | human milk oligosaccharide | Roseburia hominis DSM 16839 | 32620774 Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways. Nat Commun. 2020 Jul 3;11(1):3285. doi: 10.1038/s41467-020-17075-x. |
2020 Jul 3 | degradation | 9 | 2 | GH112, GH136 |
| PUL0609 | enzyme activity assay, clone and expression, liquid chromatography and mass spectrometry, thin-layer chromatography, MALDI-TOF/MS | human milk oligosaccharide | Roseburia inulinivorans DSM 16841 | 32620774 Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways. Nat Commun. 2020 Jul 3;11(1):3285. doi: 10.1038/s41467-020-17075-x. |
2020 Jul 3 | degradation | 11 | 4 | GH112, GH136, CBM32, GH95 |
| PUL0610 | enzyme activity assay, strcutural analysis | xylan | Rhodothermus marinus | 31992772 Characterization and diversity of the complete set of GH family 3 enzymes from Rhodothermus marinus DSM 4253. Sci Rep. 2020 Jan 28;10(1):1329. doi: 10.1038/s41598-020-58015-5. |
2020 Jan 28 | degradation | 15 | 6 | CBM4, CBM4, GH10, GH10, GH3, GH43_15, CBM91, CBM6, GH67 |
| PUL0611 | liquid chromatography and mass spectrometry | alpha-glucan | Winogradskyella sp. isolate Bin3 | 32071270 Metagenomic and Metaproteomic Insights into Photoautotrophic and Heterotrophic Interactions in a Synechococcus Culture. mBio. 2020 Feb 18;11(1):e03261-19. doi: 10.1128/mBio.03261-19. |
2020 Feb 18 | degradation | 14 | 7 | CE1, GH13_19, GH13_38, GH13_46, GH31, GH65, GH97 |
| PUL0612 | liquid chromatography and mass spectrometry | alpha-glucan | Muricauda sp. isolate Bin2 | 32071270 Metagenomic and Metaproteomic Insights into Photoautotrophic and Heterotrophic Interactions in a Synechococcus Culture. mBio. 2020 Feb 18;11(1):e03261-19. doi: 10.1128/mBio.03261-19. |
2020 Feb 18 | degradation | 11 | 2 | GH13_38, GH65 |
| PUL0613 | RNA-seq | host glycan | Prevotella sp. PINT | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 5 | 2 | GH2, CBM57, PL38, GH88 |
| PUL0614 | RNA-seq | pectin | Prevotella sp. PINT | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 3 | 1 | PL1_2 |
| PUL0615 | RNA-seq | pectin | Prevotella sp. PINT | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 7 | 1 | GH28 |
| PUL0616 | RNA-seq | pectin | Prevotella sp. PINT | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 9 | 1 | PL1_2 |
| PUL0617 | RNA-seq | xylan | Prevotella sp. PINT | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 14 | 6 | GH10, GH43_1, GH43_35, GH5_21, GH67 |
| PUL0618 | RNA-seq | pectin | Prevotella sp. PINT | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 6 | 2 | GH36, PL1 |
| PUL0619 | RNA-seq | xylan | Prevotella sp. PROD | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 5 | 1 | GH35 |
| PUL0620 | RNA-seq | xylan | Prevotella sp. PROD | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 10 | 2 | GH128, GH51_2, GH43_19 |
| PUL0621 | RNA-seq | pectin | Prevotella sp. PROD | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 8 | 4 | GH133, GH3, GH57, GT4 |
| PUL0622 | RNA-seq | xylan | Prevotella sp. PROD | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 15 | 6 | CE2, GH2, GH3, GH43_7, GH43_7, PL11_1 |
| PUL0623 | RNA-seq | pectin | Prevotella sp. PMUR | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 15 | 1 | GH3 |
| PUL0624 | RNA-seq | xylan | Prevotella sp. PMUR | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 11 | 3 | GH128, GH43_24, GH51_2, GH43_19 |
| PUL0625 | RNA-seq | xylan | Prevotella sp. PMUR | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 18 | 10 | CE1, CE1, CE1, GH115, GH30_8, GH43_10, CBM91, GH43_12, CBM91, GH43_29, CBM6, GH95, GH97 |
| PUL0626 | high-performance anion-exchange chromatography | arabinan | Lactobacillus crispatus DSM29598 | 33119797 Characterization of two extracellular arabinanases in Lactobacillus crispatus. Appl Microbiol Biotechnol. 2020 Dec;104(23):10091-10103. doi: 10.1007/s00253-020-10979-0. Epub 2020 Oct 29. |
2020 Dec | degradation | 24 | 8 | GH127, GH2, GH27, GH43_26, GH43_4, GH51_1 |
| PUL0630 | enzyme activity assay, affinity gel electrophoresis | xylan | termite gut metagenome | 33187992 Multimodularity of a GH10 Xylanase Found in the Termite Gut Metagenome. Appl Environ Microbiol. 2021 Jan 15;87(3):e01714-20. doi: 10.1128/AEM.01714-20. Print 2021 Jan 15. |
2021 Jan 15 | degradation | 9 | 5 | CE20, CE20, GH11, GH10, GH115, GH43_1 |
| PUL0631 | growth assay, sequence homology analysis | alginate | Pseudooceanicola algae Lw-13e | 33310406 Pseudooceanicola algae sp. nov., isolated from the marine macroalga Fucus spiralis, shows genomic and physiological adaptations for an algae-associated lifestyle. Syst Appl Microbiol. 2021 Jan;44(1):126166. doi: 10.1016/j.syapm.2020.126166. Epub 2020 Nov 27. |
2021 Jan | degradation | 8 | 1 | PL15_1 |
| PUL0632 | recombinant protein expression | fructan | Roseburia inulinivorans DSM 16841 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 5 | 1 | GH32 |
| PUL0633 | recombinant protein expression | fructan | Roseburia faecis M72 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 5 | 1 | GH32 |
| PUL0634 | recombinant protein expression | fructan | Eubacterium rectale ATCC 33656 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 6 | 1 | GH32 |
| PUL0635 | recombinant protein expression | fructan | Coprococcus eutactus JCM 31265 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 7 | 1 | GH32 |
| PUL0636 | recombinant protein expression | fructan | Coprococcus eutactus JCM 31265 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 9 | 1 | GH32 |
| PUL0637 | recombinant protein expression | fructan | Faecalibacterium prausnitzii A2165 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 5 | 1 | GH32 |
| PUL0638 | recombinant protein expression | fructan | Anaerostipes hadrus DSM 3319 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 5 | 1 | GH32 |
| PUL0639 | recombinant protein expression | fructan | Anaerostipes hadrus DSM 3319 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 4 | 2 | GH32 |
| PUL0640 | recombinant protein expression | fructan | Anaerostipes hadrus DSM 3319 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 10 | 1 | CBM66, GH32, CBM66 |
| PUL0641 | recombinant protein expression | fructan | Anaerostipes caccae L1-92 DSM 14662 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 10 | 1 | GH32 |
| PUL0642 | recombinant protein expression | starch | Roseburia intestinalis L1-82 | 33439065 Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 11 | 6 | CBM61, GH53, CBM86, CBM22, GH10, CBM9, GH13_18, GH13_31, GH32, GH36 |
| PUL0643 | enzyme activity assay, liquid chromatography, high-performance anion-exchange chromatography, qRT-PCR, crystallization | arabinoxylan | Bacteroides intestinalis DSM 17393 | 33469030 Degradation of complex arabinoxylans by human colonic Bacteroidetes. Nat Commun. 2021 Jan 19;12(1):459. doi: 10.1038/s41467-020-20737-5. |
2021 Jan 19 | degradation | 12 | 7 | CE1, CE6, CE1, GH3, GH43_17, GH43_2, CBM6, GH43_7, GH43_7 |
| PUL0644 | enzyme activity assay, liquid chromatography, high-performance anion-exchange chromatography, qRT-PCR, crystallization | arabinoxylan | Bacteroides cellulosilyticus DSM 14838 | 33469030 Degradation of complex arabinoxylans by human colonic Bacteroidetes. Nat Commun. 2021 Jan 19;12(1):459. doi: 10.1038/s41467-020-20737-5. |
2021 Jan 19 | degradation | 12 | 8 | CE1, GH3, GH43_17, GH43_2, CBM6, GH43_7, GH43_7, GH9 |
| PUL0645 | enzyme activity assay, liquid chromatography, high-performance anion-exchange chromatography, qRT-PCR, crystallization | arabinoxylan | Bacteroides oleiciplenus YIT 12058 | 33469030 Degradation of complex arabinoxylans by human colonic Bacteroidetes. Nat Commun. 2021 Jan 19;12(1):459. doi: 10.1038/s41467-020-20737-5. |
2021 Jan 19 | degradation | 10 | 5 | CE1, GH3, GH43_17, GH43_2, CBM6, GH43_7, GH43_7 |
| PUL0646 | recombinant protein expression, crystallization, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | beta-glucan | Bacteroides fluxus YIT 12057 | 33587952 Distinct protein architectures mediate species-specific beta-glucan binding and metabolism in the human gut microbiota. J Biol Chem. 2021 Jan-Jun;296:100415. doi: 10.1016/j.jbc.2021.100415. Epub 2021 Feb 13. |
2021 Jan-Jun | degradation | 6 | 2 | GH158, GH3 |
| PUL0647 | qPCR | starch | Streptococcus mutans UA159 | 33603728 The Route of Sucrose Utilization by Streptococcus mutans Affects Intracellular Polysaccharide Metabolism. Front Microbiol. 2021 Feb 2;12:636684. doi: 10.3389/fmicb.2021.636684. eCollection 2021. |
2021 | biosynthesis | 5 | 3 | CBM48, GH13_9, GT35, GT5 |
| PUL0648 | high-performance anion-exchange chromatography, substrate binding assay, thin-layer chromatography, NMR, mass spectrometry, crystallization | xylan | Dysgonomonas mossii DSM 22836 | 33667545 A polysaccharide utilization locus from the gut bacterium Dysgonomonas mossii encodes functionally distinct carbohydrate esterases. J Biol Chem. 2021 Jan-Jun;296:100500. doi: 10.1016/j.jbc.2021.100500. Epub 2021 Mar 2. |
2021 Jan-Jun | degradation | 37 | 21 | CE1, CE1, CE1, CE20, CE20, CE6, GH10, GH115, GH146, GH31_4, GH43_1, GH43_10, CBM91, GH43_12, CBM91, GH43_29, GH43_29, CBM6, GH51_2, GH67, GH8, GH97 |
| PUL0650 | enzyme activity assay, high-performance anion-exchange chromatography, recombinant protein expression, NMR, gene deletion mutant and growth assay | arabinogalactan | Bifidobacterium longum JCM 7052 | 33674431 Novel 3-O-alpha-d-Galactosyl-alpha-l-Arabinofuranosidase for the Assimilation of Gum Arabic Arabinogalactan Protein in Bifidobacterium longum subsp. longum. Appl Environ Microbiol. 2021 Apr 27;87(10):e02690-20. doi: 10.1128/AEM.02690-20. Print 2021 Apr 27. |
2021 Apr 27 | degradation | 7 | 2 | GH36, GH39, CBM35 |
| PUL0651 | enzyme activity assay, NMR | agarose | Gilvimarinus chinensis DSM 19667 | 33691998 Agarase cocktail from agar polysaccharide utilization loci converts homogenized Gelidium amansii into neoagarooligosaccharides. Food Chem. 2021 Aug 1;352:128685. doi: 10.1016/j.foodchem.2020.128685. Epub 2020 Nov 19. |
2021 Aug 1 | degradation | 63 | 15 | CBM6, CBM6, CBM6, GH86, GH86, CE1, GH117, GH127, GH16_16, CBM13, GH16_16, CBM6, CBM6, GH16_3, GH167, GH2, GH50, GH86 |
| PUL0653 | gene deletion mutant and growth assay, complementation study, enzyme activity assay, RNA-seq, electrophoretic mobility shift assay | agarose | Streptomyces coelicolor A3(2) | 33889146 LacI-Family Transcriptional Regulator DagR Acts as a Repressor of the Agarolytic Pathway Genes in Streptomyces coelicolor A3(2). Front Microbiol. 2021 Apr 6;12:658657. doi: 10.3389/fmicb.2021.658657. eCollection 2021. |
2021 | degradation | 17 | 4 | GH117, GH117, GH16_16, GH2, GH50 |
| PUL0654 | sequence homology analysis | alginate | Maribacter dokdonensis 62-1 | 33912144 CAZymes in Maribacter dokdonensis 62-1 From the Patagonian Shelf: Genomics and Physiology Compared to Related Flavobacteria and a Co-occurring Alteromonas Strain. Front Microbiol. 2021 Apr 12;12:628055. doi: 10.3389/fmicb.2021.628055. eCollection 2021. |
2021 | degradation | 38 | 7 | GH144, GH3, PL12, PL17_2, PL17, PL6, PL6_1 |
| PUL0655 | sequence homology analysis | alginate | Maribacter dokdonensis 62-1 | 33912144 CAZymes in Maribacter dokdonensis 62-1 From the Patagonian Shelf: Genomics and Physiology Compared to Related Flavobacteria and a Co-occurring Alteromonas Strain. Front Microbiol. 2021 Apr 12;12:628055. doi: 10.3389/fmicb.2021.628055. eCollection 2021. |
2021 | degradation | 10 | 2 | PL7 |
| PUL0657 | recombinant protein expression, NMR | levoglucosan | Bacillus smithii S-2701M | 33208778 Conversion of levoglucosan into glucose by the coordination of four enzymes through oxidation, elimination, hydration, and reduction. Sci Rep. 2020 Nov 18;10(1):20066. doi: 10.1038/s41598-020-77133-8. |
2020 Nov 18 | degradation | 5 | 2 | GH109, GH179 |
| PUL0658 | qPCR, growth assay | beta-mannooligosaccharide | Faecalibacterium prausnitzii SL3/3 | 34061597 Human Gut Faecalibacterium prausnitzii Deploys a Highly Efficient Conserved System To Cross-Feed on beta-Mannan-Derived Oligosaccharides. mBio. 2021 Jun 29;12(3):e0362820. doi: 10.1128/mBio.03628-20. Epub 2021 Jun 1. |
2021 Jun 29 | degradation | 14 | 6 | CE17, CBM35inCE17, CBM35inCE17, CE2, GH113, GH130_1, GH130_2, GH36 |
| PUL0659 | qPCR, growth assay | beta-mannooligosaccharide | Faecalibacterium prausnitzii SL3/3 | 34061597 Human Gut Faecalibacterium prausnitzii Deploys a Highly Efficient Conserved System To Cross-Feed on beta-Mannan-Derived Oligosaccharides. mBio. 2021 Jun 29;12(3):e0362820. doi: 10.1128/mBio.03628-20. Epub 2021 Jun 1. |
2021 Jun 29 | degradation | 2 | 2 | GH3 |
| PUL0662 | thin-layer chromatography, liquid chromatography and mass spectrometry, qPCR, clone and expression | beta-mannan | Phocaeicola dorei DSM 17855 | 34339781 BdPUL12 depolymerizes beta-mannan-like glycans into mannooligosaccharides and mannose, which serve as carbon sources for Bacteroides dorei and gut probiotics. Int J Biol Macromol. 2021 Sep 30;187:664-674. doi: 10.1016/j.ijbiomac.2021.07.172. Epub 2021 Jul 31. |
2021 Sep 30 | degradation | 8 | 4 | CE7, GH130_1, GH26, GH5_7 |
| PUL0663 | thin-layer chromatography, clone and expression, recombinant protein expression | arabinogalactan | Bacteroides plebeius DSM17135 | 34340552 Sulfation of Arabinogalactan Proteins Confers Privileged Nutrient Status to Bacteroides plebeius. mBio. 2021 Aug 31;12(4):e0136821. doi: 10.1128/mBio.01368-21. Epub 2021 Aug 3. |
2021 Aug 31 | degradation | 7 | 4 | GH154, GH43_17, GH43_24, PL42 |
| PUL0664 | thin-layer chromatography, clone and expression, recombinant protein expression | arabinogalactan | Bacteroides plebeius DSM17135 | 34340552 Sulfation of Arabinogalactan Proteins Confers Privileged Nutrient Status to Bacteroides plebeius. mBio. 2021 Aug 31;12(4):e0136821. doi: 10.1128/mBio.01368-21. Epub 2021 Aug 3. |
2021 Aug 31 | degradation | 16 | 8 | GH2, GH27, GH36, GH43, GH49 |
| PUL0665 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 8 | 2 | GH18, GH30_4 |
| PUL0666 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 4 | 4 | GH35, GH43_19, GH43_9, CBM91, GH43_19, GH51_2 |
| PUL0667 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 4 | 0 | NA |
| PUL0669 | clone, high-performance anion-exchange chromatography, enzymatic product analysis | xylan | Bacteroides eggerthii 1_2_48FAA | 34480044 Characterization of a novel multidomain CE15-GH8 enzyme encoded by a polysaccharide utilization locus in the human gut bacterium Bacteroides eggerthii. Sci Rep. 2021 Sep 3;11(1):17662. doi: 10.1038/s41598-021-96659-z. |
2021 Sep 3 | degradation | 26 | 15 | CE1, CE15, GH8, CE20, CE20, CE6, GH10, GH115, GH31_4, GH35, GH43_1, GH43_10, CBM91, GH43_12, CBM91, GH5_21, GH67, GH95, GH97 |
| PUL0671 | gene deletion mutant and growth assay, enzyme activity assay, Western Blot, qPCR | cellulose | Cytophaga hutchinsonii ATCC 33406 | 34731049 A Type IX Secretion System Substrate Involved in Crystalline Cellulose Degradation by Affecting Crucial Cellulose Binding Proteins in Cytophaga hutchinsonii. Appl Environ Microbiol. 2022 Jan 25;88(2):e0183721. doi: 10.1128/AEM.01837-21. Epub 2021 Nov 3. |
2022 Jan 25 | degradation | 6 | 0 | NA |
| PUL0673 | NMR, substrate binding assay, liquid chromatography and mass spectrometry | human milk oligosaccharide | Bifidobacterium pseudocatenulatum DSM20438 | 34757822 Fucosylated Human Milk Oligosaccharide Foraging within the Species Bifidobacterium pseudocatenulatum Is Driven by Glycosyl Hydrolase Content and Specificity. Appl Environ Microbiol. 2022 Jan 25;88(2):e0170721. doi: 10.1128/AEM.01707-21. Epub 2021 Nov 10. |
2022 Jan 25 | degradation | 8 | 1 | GH95 |
| PUL0674 | microarray, enzyme activity assay, high-performance anion-exchange chromatography, mass spectrometry, RNA-seq, affinity gel electrophoresis, carbohydrate binding assay, microscale thermophoresis | beta-glucan | Bacteroides ovatus ATCC 8483 | 34817219 Mapping Molecular Recognition of beta1,3-1,4-Glucans by a Surface Glycan-Binding Protein from the Human Gut Symbiont Bacteroides ovatus. Molecular Mechanism by which Prominent Human Gut Bacteroidetes Utilize Mixed-Linkage Beta-Glucans, Major Health-Promoting Cereal Polysaccharides. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Sharing a beta-Glucan Meal: Transcriptomic Eavesdropping on a Bacteroides ovatus-Subdoligranulum variabile-Hungatella hathewayi Consortium. Surface glycan-binding proteins are essential for cereal beta-glucan utilization by the human gut symbiont Bacteroides ovatus. Microbiol Spectr. 2021 Dec 22;9(3):e0182621. doi: 10.1128/Spectrum.01826-21. Epub 2021 Nov 24. Cell Rep. 2017 Oct 10;21(2):417-430. doi: 10.1016/j.celrep.2017.09.049. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. Appl Environ Microbiol. 2020 Oct 1;86(20):e01651-20. doi: 10.1128/AEM.01651-20. Print 2020 Oct 1. Cell Mol Life Sci. 2019 Nov;76(21):4319-4340. doi: 10.1007/s00018-019-03115-3. Epub 2019 May 6. |
2021 Dec 22,2017 Oct 10,2011 Dec,2020 Oct 1,2019 Nov | degradation | 8 | 3 | GH16_3, GH3 |
| PUL0675 | recombinant protein expression, enzyme activity assay, liquid chromatography, growth assay | levoglucosan | Klebsiella pneumoniae MEC097 | 34910566 Isolation and Characterization of Levoglucosan-Metabolizing Bacteria. Appl Environ Microbiol. 2022 Feb 22;88(4):e0186821. doi: 10.1128/AEM.01868-21. Epub 2021 Dec 15. |
2022 Feb 22 | degradation | 5 | 1 | GH179 |
| PUL0676 | recombinant protein expression, enzyme activity assay, liquid chromatography | levoglucosan | Microbacterium MEC084 | 34910566 Isolation and Characterization of Levoglucosan-Metabolizing Bacteria. Appl Environ Microbiol. 2022 Feb 22;88(4):e0186821. doi: 10.1128/AEM.01868-21. Epub 2021 Dec 15. |
2022 Feb 22 | degradation | 6 | 1 | GH179 |
| PUL0677 | recombinant protein expression, enzyme activity assay, liquid chromatography | levoglucosan | Shinella sumterensis MEC087 | 34910566 Isolation and Characterization of Levoglucosan-Metabolizing Bacteria. Appl Environ Microbiol. 2022 Feb 22;88(4):e0186821. doi: 10.1128/AEM.01868-21. Epub 2021 Dec 15. |
2022 Feb 22 | degradation | 5 | 1 | GH179 |
| PUL0678 | RNA-seq, thin-layer chromatography, growth assay | inulin | Lactiplantibacillus plantarum QS7T | 34980384 Global genome and comparative transcriptomic analysis reveal the inulin consumption strategy of Lactiplantibacillus plantarum QS7T. Food Res Int. 2022 Jan;151:110846. doi: 10.1016/j.foodres.2021.110846. Epub 2021 Dec 2. |
2022 Jan | degradation | 5 | 2 | GH32, GH36 |
| PUL0679 | RNA-seq, thin-layer chromatography, growth assay | inulin | Lactiplantibacillus plantarum QS7T | 34980384 Global genome and comparative transcriptomic analysis reveal the inulin consumption strategy of Lactiplantibacillus plantarum QS7T. Food Res Int. 2022 Jan;151:110846. doi: 10.1016/j.foodres.2021.110846. Epub 2021 Dec 2. |
2022 Jan | degradation | 7 | 1 | GH32 |
| PUL0680 | gene deletion mutant and growth assay, clone and expression, qRT-PCR, high-performance anion-exchange chromatography, crystallization, recombinant protein expression | xyloglucan | Bacteroides uniformis ATCC 8492 | 34995484 Polysaccharide utilization loci in Bacteroides determine population fitness and community-level interactions. Cell Surface Xyloglucan Recognition and Hydrolysis by the Human Gut Commensal Bacteroides uniformis. Cell Host Microbe. 2022 Feb 9;30(2):200-215.e12. doi: 10.1016/j.chom.2021.12.006. Epub 2022 Jan 6. Appl Environ Microbiol. 2022 Jan 11;88(1):e0156621. doi: 10.1128/AEM.01566-21. Epub 2021 Nov 3. |
2022 Feb 9,2022 Jan 11 | degradation | 15 | 10 | CE20, GH43_16, CBM6, GH2, GH29, GH2, GH2, GH31_4, GH42, GH43_33, GH5_4, GH97 |
| PUL0681 | enzyme activity assay, NMR | pectic polysaccharide | Bacteroidaceae bacterium | 35110564 Gut microbiome of the largest living rodent harbors unprecedented enzymatic systems to degrade plant polysaccharides. Nat Commun. 2022 Feb 2;13(1):629. doi: 10.1038/s41467-022-28310-y. |
2022 Feb 2 | degradation | 10 | 5 | GH173, GH2, GH5_57, GH78 |
| PUL0682 | enzyme activity assay, affinity gel electrophoresis | xylan | Bacteroidaceae bacterium | 35110564 Gut microbiome of the largest living rodent harbors unprecedented enzymatic systems to degrade plant polysaccharides. Nat Commun. 2022 Feb 2;13(1):629. doi: 10.1038/s41467-022-28310-y. |
2022 Feb 2 | degradation | 3 | 3 | CBM89, GH10, GH43_12, CBM91, GH97 |
| PUL0683 | enzyme activity assay, recombinant protein expression | nigerooligosaccharide | Lactococcus cremoris subsp. cremoris MG1363 | 35293315 Structural basis of the strict specificity of a bacterial GH31 alpha-1,3-glucosidase for nigerooligosaccharides. J Biol Chem. 2022 May;298(5):101827. doi: 10.1016/j.jbc.2022.101827. Epub 2022 Mar 12. |
2022 May | degradation | 5 | 1 | GH31_15 |
| PUL0684 | proteomic analysis | beta-glucan | Levilactobacillus brevis TMW 1.2112 | 35328813 Proteomic Analysis Reveals Enzymes for beta-D-Glucan Formation and Degradation in Levilactobacillus brevis TMW 1.2112. Int J Mol Sci. 2022 Mar 21;23(6):3393. doi: 10.3390/ijms23063393. |
2022 Mar 21 | degradation | 2 | 0 | NA |
| PUL0686 | enzyme activity assay, liquid chromatography and mass spectrometry, substrate degradation assay, assimilation assay | hyaluronan | Granulicatella adiacens ATCC 49175 | 35768476 Enhanced propagation of Granulicatella adiacens from human oral microbiota by hyaluronan. Sci Rep. 2022 Jun 29;12(1):10948. doi: 10.1038/s41598-022-14857-9. |
2022 Jun 29 | degradation | 17 | 2 | CBM70, PL8_1, PL12_1 |
| PUL0687 | growth assay, RNA-seq | xylooligosaccharide | Bacteroides vulgatus ATCC 8482 | 36043703 Structural and Biochemical Characterization of a Nonbinding SusD-Like Protein Involved in Xylooligosaccharide Utilization by an Uncultured Human Gut Bacteroides Strain. Functional characterization of a gene locus from an uncultured gut Bacteroides conferring xylo-oligosaccharides utilization to Escherichia coli. mSphere. 2022 Oct 26;7(5):e0024422. doi: 10.1128/msphere.00244-22. Epub 2022 Aug 31. Mol Microbiol. 2016 Nov;102(4):579-592. doi: 10.1111/mmi.13480. Epub 2016 Sep 14. |
2022 Oct 26,2016 Nov | degradation | 7 | 3 | GH10, GH43_1, GH43_12, CBM91 |
| PUL0688 | clone and expression, crystallization, recombinant protein expression, thin-layer chromatography | galactooligosaccharide | Bacteroides thetaiotaomicron VPI-5482 | 34149636 Analysis of Two SusE-Like Enzymes From Bacteroides thetaiotaomicron Reveals a Potential Degradative Capacity for This Protein Family. Front Microbiol. 2021 Jun 4;12:645765. doi: 10.3389/fmicb.2021.645765. eCollection 2021. |
2021 | degradation | 5 | 1 | GH95 |
| PUL0689 | clone and expression, crystallization, recombinant protein expression, thin-layer chromatography | galactooligosaccharide | Bacteroides thetaiotaomicron VPI-5482 | 34149636 Analysis of Two SusE-Like Enzymes From Bacteroides thetaiotaomicron Reveals a Potential Degradative Capacity for This Protein Family. Dynamic genetic adaptation of Bacteroides thetaiotaomicron during murine gut colonization. Front Microbiol. 2021 Jun 4;12:645765. doi: 10.3389/fmicb.2021.645765. eCollection 2021. Cell Rep. 2023 Aug 29;42(8):113009. doi: 10.1016/j.celrep.2023.113009. Epub 2023 Aug 21. |
2021,2023 Aug 29 | degradation | 10 | 4 | GH2, CBM32, GH3, GH36, GH43_10, CBM91 |
| PUL0690 | electrophoretic mobility shift assay, qRT-PCR, gene deletion mutant and growth assay | raffinose family oligosaccharides | Bacteroides thetaiotaomicron VPI-5482 | 34251866 A Novel Family of RNA-Binding Proteins Regulate Polysaccharide Metabolism in Bacteroides thetaiotaomicron. Dynamic genetic adaptation of Bacteroides thetaiotaomicron during murine gut colonization. Determinants of raffinose family oligosaccharide use in Bacteroides species. J Bacteriol. 2021 Oct 12;203(21):e0021721. doi: 10.1128/JB.00217-21. Epub 2021 Jul 12. Cell Rep. 2023 Aug 29;42(8):113009. doi: 10.1016/j.celrep.2023.113009. Epub 2023 Aug 21. J Bacteriol. 2024 Oct 24;206(10):e0023524. doi: 10.1128/jb.00235-24. Epub 2024 Sep 27. |
2021 Oct 12,2023 Aug 29,2024 Oct 24 | degradation | 8 | 4 | GH3, GH43_17, GH92, GH97 |
| PUL0691 | recombinant protein expression, qRT-PCR | alginate | Vibrio pelagius WXL662 | 36409133 Characterization of Multiple Alginate Lyases in a Highly Efficient Alginate-Degrading Vibrio Strain and Its Degradation Strategy. Appl Environ Microbiol. 2022 Dec 13;88(23):e0138922. doi: 10.1128/aem.01389-22. Epub 2022 Nov 21. |
2022 Dec 13 | degradation | 12 | 2 | CBM32, PL7_5, PL7, PL7 |
| PUL0692 | recombinant protein expression, qRT-PCR | alginate | Vibrio pelagius WXL662 | 36409133 Characterization of Multiple Alginate Lyases in a Highly Efficient Alginate-Degrading Vibrio Strain and Its Degradation Strategy. Appl Environ Microbiol. 2022 Dec 13;88(23):e0138922. doi: 10.1128/aem.01389-22. Epub 2022 Nov 21. |
2022 Dec 13 | degradation | 26 | 2 | PL17_2, PL17 |
| PUL0693 | recombinant protein expression, qRT-PCR | alginate | Vibrio pelagius WXL662 | 36409133 Characterization of Multiple Alginate Lyases in a Highly Efficient Alginate-Degrading Vibrio Strain and Its Degradation Strategy. Appl Environ Microbiol. 2022 Dec 13;88(23):e0138922. doi: 10.1128/aem.01389-22. Epub 2022 Nov 21. |
2022 Dec 13 | degradation | 17 | 2 | PL17_1, PL38 |
| PUL0694 | recombinant protein expression, SDS-PAGE, HPLC | xylan | Caldicellulosiruptor bescii DSM 6725 | 36218355 Biochemical and Regulatory Analyses of Xylanolytic Regulons in Caldicellulosiruptor bescii Reveal Genus-Wide Features of Hemicellulose Utilization. Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme Thermophile Caldicellulosiruptor bescii. Appl Environ Microbiol. 2022 Nov 8;88(21):e0130222. doi: 10.1128/aem.01302-22. Epub 2022 Oct 11. mSystems. 2021 Jun 29;6(3):e0134520. doi: 10.1128/mSystems.01345-20. Epub 2021 Jun 1. |
2022 Nov 8,2021 Jun 29 | degradation | 14 | 6 | CBM22, CBM22, GH10, CE1, GH10, GH39, GH43_10, CBM22, CBM91, GH43_16, CBM6 |
| PUL0695 | recombinant protein expression, SDS-PAGE, HPLC | xylan | Caldicellulosiruptor bescii DSM 6725 | 36218355 Biochemical and Regulatory Analyses of Xylanolytic Regulons in Caldicellulosiruptor bescii Reveal Genus-Wide Features of Hemicellulose Utilization. Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme Thermophile Caldicellulosiruptor bescii. Appl Environ Microbiol. 2022 Nov 8;88(21):e0130222. doi: 10.1128/aem.01302-22. Epub 2022 Oct 11. mSystems. 2021 Jun 29;6(3):e0134520. doi: 10.1128/mSystems.01345-20. Epub 2021 Jun 1. |
2022 Nov 8,2021 Jun 29 | degradation | 5 | 1 | CBM22, CBM22, GH10 |
| PUL0696 | recombinant protein expression, SDS-PAGE, HPLC | xylan | Caldicellulosiruptor bescii DSM 6725 | 36218355 Biochemical and Regulatory Analyses of Xylanolytic Regulons in Caldicellulosiruptor bescii Reveal Genus-Wide Features of Hemicellulose Utilization. Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme Thermophile Caldicellulosiruptor bescii. Appl Environ Microbiol. 2022 Nov 8;88(21):e0130222. doi: 10.1128/aem.01302-22. Epub 2022 Oct 11. mSystems. 2021 Jun 29;6(3):e0134520. doi: 10.1128/mSystems.01345-20. Epub 2021 Jun 1. |
2022 Nov 8,2021 Jun 29 | degradation | 11 | 2 | GH2, GH67 |
| PUL0697 | recombinant protein expression, SDS-PAGE, HPLC | xylan | Caldicellulosiruptor bescii DSM 6725 | 36218355 Biochemical and Regulatory Analyses of Xylanolytic Regulons in Caldicellulosiruptor bescii Reveal Genus-Wide Features of Hemicellulose Utilization. Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme Thermophile Caldicellulosiruptor bescii. Appl Environ Microbiol. 2022 Nov 8;88(21):e0130222. doi: 10.1128/aem.01302-22. Epub 2022 Oct 11. mSystems. 2021 Jun 29;6(3):e0134520. doi: 10.1128/mSystems.01345-20. Epub 2021 Jun 1. |
2022 Nov 8,2021 Jun 29 | degradation | 3 | 3 | CE20, CE20, CE4, GH10 |
| PUL0698 | clone and expression, high-performance anion-exchange chromatography, crystallization | beta-mannan | Muricauda sp. MAR_2010_75 | 36411326 Marine bacteroidetes use a conserved enzymatic cascade to digest diatom beta-mannan. ISME J. 2023 Feb;17(2):276-285. doi: 10.1038/s41396-022-01342-4. Epub 2022 Nov 21. |
2023 Feb | degradation | 22 | 8 | CE2, GH130_1, GH26, GH27, GH5_26, GH9 |
| PUL0699 | RT-qPCR, high-performance anion-exchange chromatography | beta-mannan | Roseburia hominis A2-183 | 36557749 Cross-Feeding and Enzymatic Catabolism for Mannan-Oligosaccharide Utilization by the Butyrate-Producing Gut Bacterium Roseburia hominis A2-183. Microorganisms. 2022 Dec 16;10(12):2496. doi: 10.3390/microorganisms10122496. |
2022 Dec 16 | degradation | 14 | 7 | CE17, CBM35inCE17, CE2, GH1, GH130_1, GH130_2, GH3, GH36 |
| PUL0700 | Enzymatic activity assay, Fluorophore-assisted carbohydrate electrophoresis, Recombinant expression | glycosaminoglycan | Tannerella forsythia 92A2 | 36112631 Degradation of chondroitin sulfate A by a PUL-like operon in Tannerella forsythia. PLoS One. 2022 Sep 16;17(9):e0272904. doi: 10.1371/journal.pone.0272904. eCollection 2022. |
2022 | degradation | 11 | 2 | GH88, PL33_1 |
| PUL0701 | qRT-PCR, enzyme activity assay | xyloglucan | Xanthomonas citri pv. citri str. 306 | 25595763 Xylan utilization regulon in Xanthomonas citri pv. citri Strain 306: gene expression and utilization of oligoxylosides. Appl Environ Microbiol. 2015 Mar;81(6):2163-72. doi: 10.1128/AEM.03091-14. Epub 2015 Jan 16. |
2015 Mar | degradation | 31 | 8 | CE20, CE20, GH10, GH2, GH3, GH43_1, GH43_12, CBM91, GH67 |
| PUL0702 | enzyme activity assay, gene deletion mutant and growth assay | xyloglucan | Xanthomonas citri pv. citri str. 306 | 34193873 Xyloglucan processing machinery in Xanthomonas pathogens and its role in the transcriptional activation of virulence factors. Nat Commun. 2021 Jun 30;12(1):4049. doi: 10.1038/s41467-021-24277-4. |
2021 Jun 30 | degradation | 8 | 5 | CE20, CE20, GH31_4, GH35, GH74, GH95 |
| PUL0703 | enzyme activity assay, recombinant protein expression, thin-layer chromatography | agarose | Aquimarina sp. ERC-38 | 37002465 Agarolytic Pathway in the Newly Isolated Aquimarina sp. Bacterial Strain ERC-38 and Characterization of a Putative beta-agarase. Mar Biotechnol (NY). 2023 Apr;25(2):314-327. doi: 10.1007/s10126-023-10206-7. Epub 2023 Apr 1. |
2023 Apr | degradation | 36 | 10 | CE1, GH117, GH117, GH16_15, GH16_16, GH16_16, CBM6, GH2, GH82, GH86, GH86, GH86, CBM6 |
| PUL0704 | fluorophore-assisted carbohydrate electrophoresis (FACE), dinitrosalicylic acid-assay (DNS-assay), HPLC, clone and expression | xylan | Flavimarina sp. Hel_I_48 | 37121608 Marine Bacteroidetes enzymatically digest xylans from terrestrial plants. Environ Microbiol. 2023 Sep;25(9):1713-1727. doi: 10.1111/1462-2920.16390. Epub 2023 Apr 30. |
2023 Sep | degradation | 18 | 7 | CE15, CBM9, CE20, CE20, GH10, GH115, GH115, GH43_1, GH67 |
| PUL0705 | fluorophore-assisted carbohydrate electrophoresis (FACE), dinitrosalicylic acid-assay (DNS-assay), HPLC, clone and expression | xylan | Flavimarina sp. Hel_I_48 | 37121608 Marine Bacteroidetes enzymatically digest xylans from terrestrial plants. Environ Microbiol. 2023 Sep;25(9):1713-1727. doi: 10.1111/1462-2920.16390. Epub 2023 Apr 30. |
2023 Sep | degradation | 14 | 8 | CE6, CE1, CE1, GH10, GH43_10, CBM91, GH43_12, CBM91, GH8, GH95, GH97 |
| PUL0706 | RNA-seq, growth assay | agar | Pseudoalteromonas atlantica T6c | 37265394 Constructing Marine Bacterial Metabolic Chassis for Potential Biorefinery of Red Algal Biomass and Agaropectin Wastes. ACS Synth Biol. 2023 Jun 16;12(6):1782-1793. doi: 10.1021/acssynbio.3c00063. Epub 2023 Jun 2. |
2023 Jun 16 | degradation | 43 | 15 | CE20, CE20, GH117, GH117, GH140, GH16_12, GH16_14, GH2, GH29, GH3, GH43_12, CBM91, GH43_2, CBM6, GH86 |
| PUL0707 | RNA-seq, growth assay | agar | Pseudoalteromonas atlantica T6c | 37265394 Constructing Marine Bacterial Metabolic Chassis for Potential Biorefinery of Red Algal Biomass and Agaropectin Wastes. ACS Synth Biol. 2023 Jun 16;12(6):1782-1793. doi: 10.1021/acssynbio.3c00063. Epub 2023 Jun 2. |
2023 Jun 16 | degradation | 46 | 4 | AA2, GH117, GH117, GH13_13, GH50 |
| PUL0708 | RNA-seq, growth assay | agar | Pseudoalteromonas atlantica T6c | 37265394 Constructing Marine Bacterial Metabolic Chassis for Potential Biorefinery of Red Algal Biomass and Agaropectin Wastes. ACS Synth Biol. 2023 Jun 16;12(6):1782-1793. doi: 10.1021/acssynbio.3c00063. Epub 2023 Jun 2. |
2023 Jun 16 | degradation | 41 | 5 | CE1, GH13_38, GH31, GH86 |
| PUL0709 | RNA-seq, growth assay | agar | Pseudoalteromonas atlantica T6c | 37265394 Constructing Marine Bacterial Metabolic Chassis for Potential Biorefinery of Red Algal Biomass and Agaropectin Wastes. ACS Synth Biol. 2023 Jun 16;12(6):1782-1793. doi: 10.1021/acssynbio.3c00063. Epub 2023 Jun 2. |
2023 Jun 16 | degradation | 29 | 0 | NA |
| PUL0710 | RNA-seq, growth assay, liquid chromatography and mass spectrometry, gene mutant, mice colonization with mutant | mucin | Akkermansia muciniphila ATCC BAA-835 | 37337046 A genetic system for Akkermansia muciniphila reveals a role for mucin foraging in gut colonization and host sterol biosynthesis gene expression. Nat Microbiol. 2023 Aug;8(8):1450-1467. doi: 10.1038/s41564-023-01407-w. Epub 2023 Jun 19. |
2023 Aug | degradation | 8 | 0 | NA |
| PUL0711 | RNA-seq, growth assay, liquid chromatography and mass spectrometry, gene mutant, mice colonization with mutant | mucin | Akkermansia muciniphila ATCC BAA-835 | 37337046 A genetic system for Akkermansia muciniphila reveals a role for mucin foraging in gut colonization and host sterol biosynthesis gene expression. Nat Microbiol. 2023 Aug;8(8):1450-1467. doi: 10.1038/s41564-023-01407-w. Epub 2023 Jun 19. |
2023 Aug | degradation | 5 | 0 | NA |
| PUL0712 | growth assay, RNA-seq, qPCR | pectic polysaccharide | Bacteroides thetaiotaomicron VPI-5482 | 37451376 A pectic polysaccharide isolated from Achyranthes bidentata is metabolized by human gut Bacteroides spp. Int J Biol Macromol. 2023 Sep 1;248:125785. doi: 10.1016/j.ijbiomac.2023.125785. Epub 2023 Jul 13. |
2023 Sep 1 | degradation | 10 | 0 | NA |
| PUL0713 | growth assay, RNA-seq, qPCR | pectic polysaccharide | Bacteroides thetaiotaomicron VPI-5482 | 37451376 A pectic polysaccharide isolated from Achyranthes bidentata is metabolized by human gut Bacteroides spp. Int J Biol Macromol. 2023 Sep 1;248:125785. doi: 10.1016/j.ijbiomac.2023.125785. Epub 2023 Jul 13. |
2023 Sep 1 | degradation | 4 | 0 | NA |
| PUL0714 | clone and expression, crystallization, isothermal titration calorimetry (ITC), thin-layer chromatography, Western Blot, gene mutant | starch | Bacteroides ovatus strain ATCC 8483Â | 37500984 BoGH13A(Sus) from Bacteroides ovatus represents a novel alpha-amylase used for Bacteroides starch breakdown in the human gut. Cell Mol Life Sci. 2023 Jul 28;80(8):232. doi: 10.1007/s00018-023-04812-w. |
2023 Jul 28 | degradation | 8 | 3 | GH13_10, GH13_46, GH97 |
| PUL0715 | clone and expression, enzyme activity assay, ultra-performance liquid chromatography–mass spectrometry(UPLC-MS) | alginate | Wenyingzhuangia fucanilytica CZ1127 | 37540808 A repertoire of alginate lyases in the alginate polysaccharide utilization loci of marine bacterium Wenyingzhuangia fucanilytica: biochemical properties and action pattern. J Sci Food Agric. 2024 Jan 15;104(1):134-140. doi: 10.1002/jsfa.12898. Epub 2023 Aug 23. |
2024 Jan 15 | degradation | 12 | 4 | PL17_2, PL17, PL6, PL6_1, PL7 |
| PUL0716 | growth assay, RT-PCR | arabinan | Mesoflavibacter profundi MTRN7 | 37550707 Deep-sea Bacteroidetes from the Mariana Trench specialize in hemicellulose and pectin degradation typically associated with terrestrial systems. Microbiome. 2023 Aug 7;11(1):175. doi: 10.1186/s40168-023-01618-7. |
2023 Aug 7 | degradation | 16 | 8 | GH127, GH43_26, GH43_29, GH43_4, GH43_5, GH51_1, GH51_2, GH97 |
| PUL0717 | gene mutant, mice colonization with mutant | raffinose family oligosaccharides | Bacteroides thetaiotaomicron VPI-5482 | 37598339 Dynamic genetic adaptation of Bacteroides thetaiotaomicron during murine gut colonization. Cell Rep. 2023 Aug 29;42(8):113009. doi: 10.1016/j.celrep.2023.113009. Epub 2023 Aug 21. |
2023 Aug 29 | degradation | 5 | 4 | CE20, CE20, GH27, GH36, GH92 |
| PUL0718 | LC-ESI-MS, enzyme activity assay, recombinant protein expression, enzyme kinetic analysis | alginate | Bacteroides ovatus strain CP926 | 37791757 Three alginate lyases provide a new gut Bacteroides ovatus isolate with the ability to grow on alginate. Appl Environ Microbiol. 2023 Oct 31;89(10):e0118523. doi: 10.1128/aem.01185-23. Epub 2023 Oct 4. |
2023 Oct 31 | degradation | 12 | 3 | PL17_2, PL17, PL38, PL6, PL6_1 |
| PUL0719 | RNA-seq, growth assay | starch | Xanthomonas citri pv. citri str. 306 | 37855631 Plant structural and storage glucans trigger distinct transcriptional responses that modulate the motility of Xanthomonas pathogens. Microbiol Spectr. 2023 Dec 12;11(6):e0228023. doi: 10.1128/spectrum.02280-23. Epub 2023 Oct 19. |
2023 Dec 12 | degradation | 7 | 3 | GH13_2, GH13_23, GH97 |
| PUL0720 | HPAEC-PAD, enzyme kinetic analysis, thin-layer chromatography, recombinant protein expression, gene mutant | arabinan |  Bifidobacterium longum JCM 1217 | 24385433 Characterization of a novel beta-L-arabinofuranosidase in Bifidobacterium longum: functional elucidation of a DUF1680 protein family member. J Biol Chem. 2014 Feb 21;289(8):5240-9. doi: 10.1074/jbc.M113.528711. Epub 2014 Jan 2. |
2014 Feb 21 | degradation | 7 | 3 | GH121, GH127, GH43_29 |
| PUL0721 | RNA-seq, RT-qPCR, gene deletion mutant and growth assay | human milk oligosaccharide | Phocaeicola dorei strain DSM 17855 | 38167825 CRISPR-Cas-based identification of a sialylated human milk oligosaccharides utilization cluster in the infant gut commensal Bacteroides dorei. Nat Commun. 2024 Jan 2;15(1):105. doi: 10.1038/s41467-023-44437-y. |
2024 Jan 2 | degradation | 13 | 9 | CBM93, GH33, CE3, CE20, CE9, GH2, GH20, GH92 |
| PUL0722 | RNA-seq, mass spectrometry, SDS-PAGE, isothermal titration calorimetry (ITC), high-performance anion-exchange chromatography, enzyme kinetic analysis, thin-layer chromatography | xylan | Polaribacter sp. Q13 | 38169280 The catabolic specialization of the marine bacterium Polaribacter sp. Q13 to red algal beta1,3/1,4-mixed-linkage xylan. Appl Environ Microbiol. 2024 Jan 24;90(1):e0170423. doi: 10.1128/aem.01704-23. Epub 2024 Jan 3. |
2024 Jan 24 | degradation | 30 | 9 | CBM4, CBM4, GH10, GH26, GH3, GH43_1, GH43_12, CBM91 |
| PUL0723 | crystallization, high-performance anion-exchange chromatography, enzyme activity assay | pectin | Phocaeicola dorei DSM 17855 | 38179933 Polysaccharide utilization loci from Bacteroidota encode CE15 enzymes with possible roles in cleaving pectin-lignin bonds. Appl Environ Microbiol. 2024 Jan 24;90(1):e0176823. doi: 10.1128/aem.01768-23. Epub 2024 Jan 5. |
2024 Jan 24 | degradation | 17 | 12 | CE12, CE15, GH105, GH106, GH106, GH28, GH2, GH28, GH42, GH43_18, GH43_34, CBM32, GH78, PL11 |
| PUL0724 | crystallization, high-performance anion-exchange chromatography, enzyme activity assay | pectin | Phocaeicola vulgatus ATCC 8482 | 38179933 Polysaccharide utilization loci from Bacteroidota encode CE15 enzymes with possible roles in cleaving pectin-lignin bonds. Appl Environ Microbiol. 2024 Jan 24;90(1):e0176823. doi: 10.1128/aem.01768-23. Epub 2024 Jan 5. |
2024 Jan 24 | degradation | 16 | 12 | CE12, CE15, GH105, GH106, GH106, GH28, GH2, GH28, GH42, GH43_18, GH43_34, CBM32, GH78, PL11 |
| PUL0725 | NMR, clone and expression, enzyme kinetic analysis | alpha-glucan | Marinovum sp. | 38180643 A Broad-Spectrum alpha-Glucosidase of Glycoside Hydrolase Family 13 from Marinovum sp., a Member of the Roseobacter Clade. Appl Biochem Biotechnol. 2024 Sep;196(9):6059-6071. doi: 10.1007/s12010-023-04820-3. Epub 2024 Jan 5. |
2024 Sep | degradation | 9 | 1 | GH13_23 |
| PUL0726 | reducing-sugar assay, NMR, clone and expression, liquid chromatography and mass spectrometry, mass spectrometry | sulfosugar | Agrobacterium tumefaciens str. C58 | 35074914 Oxidative desulfurization pathway for complete catabolism of sulfoquinovose by bacteria. Proc Natl Acad Sci U S A. 2022 Jan 25;119(4):e2116022119. doi: 10.1073/pnas.2116022119. |
2022 Jan 25 | degradation | 9 | 1 | GH31_13 |
| PUL0727 | SDS-PAGE, NMR, enzyme activity assay, size-exclusion chromatography (SEC) | fucoidan | Wenyingzhuangia fucanilytica strain CZ1127 | 38203394 The Discovery of the Fucoidan-Active Endo-1-->4-alpha-L-Fucanase of the GH168 Family, Which Produces Fucoidan Derivatives with Regular Sulfation and Anticoagulant Activity. Int J Mol Sci. 2023 Dec 22;25(1):218. doi: 10.3390/ijms25010218. |
2023 Dec 22 | degradation | 30 | 16 | GH107, GH117, GH141, GH168, GH29, GH43_2, GH95 |
| PUL0728 | HPAEC-PAD, SDS-PAGE, clone and expression | human milk oligosaccharide | Akkermansia muciniphila CSUN-19 | 38299857 Mechanism of 2'-fucosyllactose degradation by human-associated Akkermansia. J Bacteriol. 2024 Feb 22;206(2):e0033423. doi: 10.1128/jb.00334-23. Epub 2024 Feb 1. |
2024 Feb 22 | degradation | 18 | 5 | CBM50, GH27, GH29, GH2, CBM32, GH33 |
| PUL0729 | RT-PCR, gene mutant, enzyme activity assay | cellobiose | Bacillus thuringiensis serovar kurstaki str. HD73 | 38357353 Transcriptional regulation of cellobiose utilization by PRD-domain containing Sigma54-dependent transcriptional activator (CelR) and catabolite control protein A (CcpA) in Bacillus thuringiensis. Front Microbiol. 2024 Jan 31;15:1160472. doi: 10.3389/fmicb.2024.1160472. eCollection 2024. |
2024 | degradation | 9 | 1 | GH4 |
| PUL0730 | enzyme activity assay, recombinant protein expression, NMR, HPLC, clone and expression | carrageenan | Cellulophaga algicola DSM 14237 | 38442258 Biocatalytic Conversion of Carrageenans for the Production of 3,6-Anhydro-D-galactose. J Agric Food Chem. 2024 Mar 20;72(11):5816-5827. doi: 10.1021/acs.jafc.3c08613. Epub 2024 Mar 5. |
2024 Mar 20 | degradation | 17 | 3 | GH127, GH16_13 |
| PUL0731 | enzyme activity assay, recombinant protein expression, NMR, HPLC, clone and expression | carrageenan | Saccharicrinis fermentans DSM 9555 | 38442258 Biocatalytic Conversion of Carrageenans for the Production of 3,6-Anhydro-D-galactose. J Agric Food Chem. 2024 Mar 20;72(11):5816-5827. doi: 10.1021/acs.jafc.3c08613. Epub 2024 Mar 5. |
2024 Mar 20 | degradation | 20 | 5 | GH110, GH127, GH167, GH2 |
| PUL0732 | enzyme activity assay, recombinant protein expression, NMR, HPLC, clone and expression | carrageenan | Cellulophaga baltica 18 | 38442258 Biocatalytic Conversion of Carrageenans for the Production of 3,6-Anhydro-D-galactose. J Agric Food Chem. 2024 Mar 20;72(11):5816-5827. doi: 10.1021/acs.jafc.3c08613. Epub 2024 Mar 5. |
2024 Mar 20 | degradation | 19 | 3 | GH127, GH16_13 |
| PUL0733 | enzyme activity assay, recombinant protein expression, NMR, HPLC, clone and expression | carrageenan | Echinicola pacifica DSM 19836 | 38442258 Biocatalytic Conversion of Carrageenans for the Production of 3,6-Anhydro-D-galactose. J Agric Food Chem. 2024 Mar 20;72(11):5816-5827. doi: 10.1021/acs.jafc.3c08613. Epub 2024 Mar 5. |
2024 Mar 20 | degradation | 16 | 2 | GH127, GH129 |
| PUL0734 | enzyme activity assay, recombinant protein expression, NMR, HPLC, clone and expression | carrageenan | Cellulophaga lytica DSM 7489 | 38442258 Biocatalytic Conversion of Carrageenans for the Production of 3,6-Anhydro-D-galactose. J Agric Food Chem. 2024 Mar 20;72(11):5816-5827. doi: 10.1021/acs.jafc.3c08613. Epub 2024 Mar 5. |
2024 Mar 20 | degradation | 20 | 3 | GH127, GH129, GH2 |
| PUL0735 | enzyme activity assay, clone and expression, reducing-sugar assay, thin-layer chromatography, SDS-PAGE | arabinan | Bifidobacterium longum subsp. suis DSM 20211 | 38542148 Functional Characterization of Endo- and Exo-Hydrolase Genes in Arabinan Degradation Gene Cluster of Bifidobacterium longum subsp. suis. Int J Mol Sci. 2024 Mar 9;25(6):3175. doi: 10.3390/ijms25063175. |
2024 Mar 9 | degradation | 17 | 7 | GH127, GH27, GH43_26, GH43_27, GH43_4, GH51_2 |
| PUL0736 | RNA-seq, RT-qPCR, enzyme activity assay, thin-layer chromatography, Western Blot, recombinant protein expression, DSS-induced mouse colitis model | alginate | Bacteroides clarus YIT 12056 | 38563787 Alginate oligosaccharide assimilation by gut microorganisms and the potential role in gut inflammation alleviation. Appl Environ Microbiol. 2024 May 21;90(5):e0004624. doi: 10.1128/aem.00046-24. Epub 2024 Apr 2. |
2024 May 21 | degradation | 10 | 3 | CE20, PL17_2, PL17, PL6, PL6_1 |
| PUL0737 | mass spectrometry, SDS-PAGE, growth assay | arabinogalactan | Maribacter sp. MAR_2009_72 | 38569650 Proteomic insight into arabinogalactan utilization by particle-associated Maribacter sp. MAR_2009_72. FEMS Microbiol Ecol. 2024 Apr 10;100(5):fiae045. doi: 10.1093/femsec/fiae045. |
2024 Apr 10 | degradation | 16 | 4 | CE20, CE20, GH10, GH43_1, GH67 |
| PUL0738 | mass spectrometry, SDS-PAGE, growth assay | arabinogalactan | Maribacter sp. MAR_2009_72 | 38569650 Proteomic insight into arabinogalactan utilization by particle-associated Maribacter sp. MAR_2009_72. FEMS Microbiol Ecol. 2024 Apr 10;100(5):fiae045. doi: 10.1093/femsec/fiae045. |
2024 Apr 10 | degradation | 50 | 14 | CBM67, GH78, CE12, CE12, CE12, GH105, GH106, GH115, GH179, GH2, GH28, GH29, GH31_9, GH33, GH43_18 |
| PUL0739 | mass spectrometry, SDS-PAGE, growth assay | arabinogalactan | Maribacter sp. MAR_2009_72 | 38569650 Proteomic insight into arabinogalactan utilization by particle-associated Maribacter sp. MAR_2009_72. FEMS Microbiol Ecol. 2024 Apr 10;100(5):fiae045. doi: 10.1093/femsec/fiae045. |
2024 Apr 10 | degradation | 56 | 12 | CE12, GH105, GH140, GH177, GH179, GH28, GH43_10, CBM91, GH43_19, GH43_34, GH51_1, PL10_1, CE8, PL1_2 |
| PUL0740 | RNA-seq, ion chromatography, HPLC, growth assay | human milk oligosaccharide | Bifidobacterium longum subsp. infantis ATCC 15697 | 32985563 Strain-specific strategies of 2'-fucosyllactose, 3-fucosyllactose, and difucosyllactose assimilation by Bifidobacterium longum subsp. infantis Bi-26 and ATCC 15697. Evolutionary adaptation in fucosyllactose uptake systems supports bifidobacteria-infant symbiosis. Sci Rep. 2020 Sep 28;10(1):15919. doi: 10.1038/s41598-020-72792-z. Sci Adv. 2019 Aug 28;5(8):eaaw7696. doi: 10.1126/sciadv.aaw7696. eCollection 2019 Aug. |
2020 Sep 28,2019 Aug | degradation | 3 | 0 | NA |
| PUL0741 | RNA-seq, ion chromatography, HPLC, growth assay | human milk oligosaccharide | Bifidobacterium longum subsp. infantis ATCC 15697 | 32985563 Strain-specific strategies of 2'-fucosyllactose, 3-fucosyllactose, and difucosyllactose assimilation by Bifidobacterium longum subsp. infantis Bi-26 and ATCC 15697. Sci Rep. 2020 Sep 28;10(1):15919. doi: 10.1038/s41598-020-72792-z. |
2020 Sep 28 | degradation | 7 | 0 | NA |
| PUL0742 | gene deletion and growth assay, recombinant protein expression, crystallization, isothermal titration calorimetry (ITC), RNA-seq, ion chromatography, HPLC, growth assay | human milk oligosaccharide | Bifidobacterium longum subsp. infantis ATCC 15697 | 32985563 Strain-specific strategies of 2'-fucosyllactose, 3-fucosyllactose, and difucosyllactose assimilation by Bifidobacterium longum subsp. infantis Bi-26 and ATCC 15697. Evolutionary adaptation in fucosyllactose uptake systems supports bifidobacteria-infant symbiosis. Sci Rep. 2020 Sep 28;10(1):15919. doi: 10.1038/s41598-020-72792-z. Sci Adv. 2019 Aug 28;5(8):eaaw7696. doi: 10.1126/sciadv.aaw7696. eCollection 2019 Aug. |
2020 Sep 28,2019 Aug | degradation | 5 | 1 | GH151 |
| PUL0743 | gene mutant, SDS-PAGE, Western Blot, recombinant protein expression, thermal shift assay (TSA), isothermal titration calorimetry (ITC), HPAEC-PAD, RT-qPCR, fluorescence measurements | xylan | Ruminiclostridium cellulolyticum H10 | 36403068 Selfish uptake versus extracellular arabinoxylan degradation in the primary degrader Ruminiclostridium cellulolyticum, a new string to its bow. Intracellular removal of acetyl, feruloyl and p-coumaroyl decorations on arabinoxylo-oligosaccharides imported from lignocellulosic biomass degradation by Ruminiclostridium cellulolyticum. Biotechnol Biofuels Bioprod. 2022 Nov 19;15(1):127. doi: 10.1186/s13068-022-02225-8. Microb Cell Fact. 2024 May 24;23(1):151. doi: 10.1186/s12934-024-02423-z. |
2022 Nov 19,2024 May 24 | degradation | 13 | 6 | CE1, CE20, CE20, GH39, GH43_10, CBM91, GH51_1, GH8 |
| PUL0744 | RNA-seq, HPLC, gene mutant, differential gene expression | lactose | Listeria monocytogenes serotype 4b str. F2365 | 38876592 Activation of a silent lactose utilization pathway in an evolved Listeria monocytogenes F2365 outbreak isolate. Food Res Int. 2024 Aug;189:114554. doi: 10.1016/j.foodres.2024.114554. Epub 2024 May 27. |
2024 Aug | degradation | 5 | 1 | GH1 |
| PUL0745 | high performance gel permeation chromatography, gas chromatography, RNA-seq, differential gene expression | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 38890895 The Utilization by Bacteroides spp. of a Purified Polysaccharide from Fuzhuan Brick Tea. Foods. 2024 May 26;13(11):1666. doi: 10.3390/foods13111666. |
2024 May 26 | degradation | 12 | 4 | GH146, GH28, GH30_2, PL12 |
| PUL0746 | high performance gel permeation chromatography, gas chromatography, RNA-seq, differential gene expression | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 38890895 The Utilization by Bacteroides spp. of a Purified Polysaccharide from Fuzhuan Brick Tea. Foods. 2024 May 26;13(11):1666. doi: 10.3390/foods13111666. |
2024 May 26 | degradation | 7 | 4 | CBM93, GH33, GH2, GH20, GH20, CBM32 |
| PUL0747 | high performance gel permeation chromatography, gas chromatography, RNA-seq, differential gene expression | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 38890895 The Utilization by Bacteroides spp. of a Purified Polysaccharide from Fuzhuan Brick Tea. Foods. 2024 May 26;13(11):1666. doi: 10.3390/foods13111666. |
2024 May 26 | degradation | 9 | 3 | GH2, GH20, GH29, CBM32 |
| PUL0748 | Reducing End Assay, HPAEC-PAD | glycogen | Pontibacter sp. SGAir0037 | 38930854 Characterization of Two Glycoside Hydrolases of Family GH13 and GH57, Present in a Polysaccharide Utilization Locus (PUL) of Pontibacter sp. SGAir0037. Molecules. 2024 Jun 12;29(12):2788. doi: 10.3390/molecules29122788. |
2024 Jun 12 | degradation | 14 | 10 | CBM48, GH13_10, CBM48, GH13_9, GH13, GH13_16, GH13_26, GH13_3, GH57, GH77, GH97 |
| PUL0749 | affinity gel electrophoresis | beta-glucan | uncultured bacterium | 39012103 Biochemical characterization of a SusD-like protein involved in beta-1,3-glucan utilization by an uncultured cow rumen Bacteroides. mSphere. 2024 Aug 28;9(8):e0027824. doi: 10.1128/msphere.00278-24. Epub 2024 Jul 16. |
2024 Aug 28 | degradation | 5 | 2 | GH16_3, GH3 |
| PUL0750 | RNA-seq, BCA assay, pNP glycoside assay, HPAEC-PAD, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | beta-glucan | Segatella copri DSM 18205 | 39122003 The molecular basis of cereal mixed-linkage beta-glucan utilization by the human gut bacterium Segatella copri. Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. J Biol Chem. 2024 Sep;300(9):107625. doi: 10.1016/j.jbc.2024.107625. Epub 2024 Aug 8. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2024 Sep,2025 Jan 31 | degradation | 11 | 3 | GH3, GH5_4, GH94 |
| PUL0751 | SDS-PAGE, enzyme activity assay | lactose | Escherichia coli 8178 | 39160293 Non-canonical start codons confer context-dependent advantages in carbohydrate utilization for commensal E. coli in the murine gut. Nat Microbiol. 2024 Oct;9(10):2696-2709. doi: 10.1038/s41564-024-01775-x. Epub 2024 Aug 19. |
2024 Oct | degradation | 4 | 1 | GH2 |
| PUL0752 | thin-layer chromatography, HPAEC-PAD, recombinant protein expression, in vitro assimilation | fructo-disaccharide | Blautia parvula NBRC 113351 | 39500763 Degradation mechanism of difructose dianhydride III in Blautia species. Appl Microbiol Biotechnol. 2024 Nov 5;108(1):502. doi: 10.1007/s00253-024-13346-5. |
2024 Nov 5 | degradation | 10 | 3 | GH32, GH39, GH91 |
| PUL0753 | in vitro assimilation | fructo-disaccharide | Blautia hansenii DSM 20583 | 39500763 Degradation mechanism of difructose dianhydride III in Blautia species. Appl Microbiol Biotechnol. 2024 Nov 5;108(1):502. doi: 10.1007/s00253-024-13346-5. |
2024 Nov 5 | degradation | 11 | 2 | GH32, GH91 |
| PUL0754 | in vitro assimilation | fructo-disaccharide | Blautia hydrogenotrophica DSM 10507 | 39500763 Degradation mechanism of difructose dianhydride III in Blautia species. Appl Microbiol Biotechnol. 2024 Nov 5;108(1):502. doi: 10.1007/s00253-024-13346-5. |
2024 Nov 5 | degradation | 9 | 2 | GH32, GH91 |
| PUL0755 | in vitro assimilation | fructo-disaccharide | Blautia wexlerae JCMÂ 35486 | 39500763 Degradation mechanism of difructose dianhydride III in Blautia species. Appl Microbiol Biotechnol. 2024 Nov 5;108(1):502. doi: 10.1007/s00253-024-13346-5. |
2024 Nov 5 | degradation | 12 | 3 | GH120, GH32, GH91 |
| PUL0756 | RNA-seq, qRT-PCR | N-glycan | Barnesiella intestinihominis | 39510934 Molecular mechanisms of complex-type N-glycan breakdown and metabolism by the human intestinal bacterium Barnesiella intestinihominis. J Biosci Bioeng. 2025 Jan;139(1):14-22. doi: 10.1016/j.jbiosc.2024.10.006. Epub 2024 Nov 7. |
2025 Jan | degradation | 11 | 7 | GH130_2, GH20, GH84, CBM32, GH85, GH92 |
| PUL0757 | RNA-seq, qRT-PCR | N-glycan | Barnesiella intestinihominis | 39510934 Molecular mechanisms of complex-type N-glycan breakdown and metabolism by the human intestinal bacterium Barnesiella intestinihominis. J Biosci Bioeng. 2025 Jan;139(1):14-22. doi: 10.1016/j.jbiosc.2024.10.006. Epub 2024 Nov 7. |
2025 Jan | degradation | 5 | 1 | GH85 |
| PUL0758 | RNA-seq, qRT-PCR | N-glycan | Barnesiella intestinihominis | 39510934 Molecular mechanisms of complex-type N-glycan breakdown and metabolism by the human intestinal bacterium Barnesiella intestinihominis. J Biosci Bioeng. 2025 Jan;139(1):14-22. doi: 10.1016/j.jbiosc.2024.10.006. Epub 2024 Nov 7. |
2025 Jan | degradation | 3 | 1 | GH85 |
| PUL0759 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | Hemicellulose | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 3 | 2 | GH2, GH31_4 |
| PUL0760 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | Hemicellulose | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 7 | 3 | GH5_4, GH5_7 |
| PUL0761 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | Hemicellulose | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 10 | 4 | GH10, GH35, GH43_1, GH67 |
| PUL0762 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | Hemicellulose | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 9 | 3 | GH10, GH43_12, CBM91, GH5_21 |
| PUL0763 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | Hemicellulose | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 5 | 3 | CE6, CE1, GH31_4, GH43_2, CBM6, GH8 |
| PUL0764 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | Hemicellulose | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 4 | 4 | GH43_10, CBM91, GH43_29, CBM6, GH43_29, CBM6, GH43_10, CBM91, GH95 |
| PUL0765 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | inulin | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 10 | 1 | GH32 |
| PUL0766 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | starch | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 5 | 2 | GH13_44, GH97 |
| PUL0767 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | pectin | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 15 | 6 | CE8, GH28, GH28, GH105, GH43_10, CBM91, GH95, PL1_2 |
| PUL0768 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | pectin | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 7 | 3 | GH2, GH53, PL1, CBM77 |
| PUL0769 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | pectin | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 9 | 3 | GH43_4, GH43_5, GH51_2 |
| PUL0770 | RNA-seq, qRT-PCR, gas chromatography, mass spectrometry, thin-layer chromatography | pectin | Segatella copri DSM 18205 | 39636128 Transcriptional delineation of polysaccharide utilization loci in the human gut commensal Segatella copri DSM18205 and co-culture with exemplar Bacteroides species on dietary plant glycans. Appl Environ Microbiol. 2025 Jan 31;91(1):e0175924. doi: 10.1128/aem.01759-24. Epub 2024 Dec 5. |
2025 Jan 31 | degradation | 8 | 1 | GH51_1 |
| PUL0771 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Rhodopirellula sp. SWK7 | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 27 | 7 | GH141, GH168, GH29 |
| PUL0772 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Rhodopirellula sp. SWK7 | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 9 | 1 | GH29 |
| PUL0773 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Rhodopirellula sp. SWK7 | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 23 | 3 | GH116, GH29, GH97 |
| PUL0774 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Rhodopirellula sp. SWK7 | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 23 | 8 | GH117, GH141, GH168, GH29, GH95 |
| PUL0775 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Rhodopirellula sp. SWK7 | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 14 | 5 | CE14, GH128, GH141, GH29 |
| PUL0776 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Rhodopirellula sp. SWK7 | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 32 | 10 | CE19, CBM51, CE20, GH115, GH116, GH117, GH117, GH29, GH95 |
| PUL0777 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 26 | 3 | GH141, GH29 |
| PUL0778 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 18 | 4 | GH172, GH29, GH3, GH95 |
| PUL0779 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 19 | 9 | GH107, GH141, GH168, GH29 |
| PUL0780 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 24 | 8 | CBM32, CE12, CE6, GH141, GH29, GH95 |
| PUL0781 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 17 | 4 | GH116, GH29, GH95 |
| PUL0782 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 15 | 3 | GH109, GH117, GH29 |
| PUL0783 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 20 | 6 | CBM51, GH115, GH172, GH28, GH29, GH95 |
| PUL0784 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 8 | 2 | GH29, GH95 |
| PUL0785 | RNA-seq, differential gene expression, HPAEC-PAD, SDS-PAGE, para-hydroxybenzoic acid (PAHBAH) assay, reducing-sugar assay, Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE), enzyme activity assay | fucoidan | Neorhodopirellula lusitana | 39738071 Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota. Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w. |
2024 Dec 30 | degradation | 22 | 5 | CE20, CE20, GH95, CE7, GH117, GH168 |
| PUL0786 | RNA-seq, reducing-sugar assay, growth assay, high performance gel permeation chromatography, gas chromatography, RNA-seq, differential gene expression | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 38890895 The Utilization by Bacteroides spp. of a Purified Polysaccharide from Fuzhuan Brick Tea. In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. Foods. 2024 May 26;13(11):1666. doi: 10.3390/foods13111666. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2024 May 26,2025 May 1 | degradation | 26 | 14 | CBM67, GH78, CBM67, GH78, GH33, CE19, GH105, GH130_2, GH140, GH143, GH142, GH163, GH18, GH28, GH43_18, GH92, GH95, PL1_2 |
| PUL0787 | RNA-seq, reducing-sugar assay, growth assay | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 39892338 In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2025 May 1 | degradation | 31 | 16 | CE12, CE12, CE12, CE4, GH105, GH106, GH2, GH28, GH42, GH43_18, GH43_34, PL11_1, PL26 |
| PUL0788 | RNA-seq, reducing-sugar assay, growth assay | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 39892338 In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2025 May 1 | degradation | 26 | 8 | CE20, GH105, GH2, GH28, PL11, PL1_2, PL9_1 |
| PUL0789 | RNA-seq, reducing-sugar assay, growth assay | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 39892338 In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2025 May 1 | degradation | 9 | 2 | CBM6, GH28 |
| PUL0790 | RNA-seq, reducing-sugar assay, growth assay | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 39892338 In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2025 May 1 | degradation | 3 | 3 | GH127, GH141, GH78 |
| PUL0791 | RNA-seq, reducing-sugar assay, growth assay | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 39892338 In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2025 May 1 | degradation | 6 | 5 | CE20, GH106, GH139, GH2, PL1_2 |
| PUL0792 | enzyme activity assay, recombinant protein expression, RNA-seq | xylan | Bifidobacterium pseudocatenulatum strain YIT11952 | 37938239 Xylan utilisation promotes adaptation of Bifidobacterium pseudocatenulatum to the human gastrointestinal tract. ISME Commun. 2021 Oct 28;1(1):62. doi: 10.1038/s43705-021-00066-4. |
2021 Oct 28 | degradation | 15 | 5 | CE20, GH10, CBM9, GH120, GH43_11, CBM91, GH8 |
| PUL0793 | enzyme activity assay, quantification of reaction product reducing ends, RNA-seq, differential gene expression, NMR, MALDI-TOF/MS, gas chromatography, mass spectrometry, bicinchoninic acid (BCA) assay, recombinant protein expression | arabinan | Bacteroides intestinalis DSM 17393 | 39443715 In vivo manipulation of human gut Bacteroides fitness by abiotic oligosaccharides. Nat Chem Biol. 2025 Apr;21(4):544-554. doi: 10.1038/s41589-024-01763-6. Epub 2024 Oct 23. |
2025 Apr | degradation | 14 | 6 | CE1, GH127, GH146, GH43_34, CBM32, GH97 |
| PUL0794 | enzyme activity assay, quantification of reaction product reducing ends, RNA-seq, differential gene expression, NMR, MALDI-TOF/MS, gas chromatography, mass spectrometry, bicinchoninic acid (BCA) assay, recombinant protein expression | arabinan | Bacteroides intestinalis DSM 17393 | 39443715 In vivo manipulation of human gut Bacteroides fitness by abiotic oligosaccharides. Nat Chem Biol. 2025 Apr;21(4):544-554. doi: 10.1038/s41589-024-01763-6. Epub 2024 Oct 23. |
2025 Apr | degradation | 23 | 8 | GH146, GH28, GH43_29, GH43_4, GH51_1, GH51_2, GH97 |
| PUL0795 | RNA-seq, recombinant protein expression, growth assay | xyloglucan | Flavobacterium johnsoniae UW101 | 39913342 Metabolism of hemicelluloses by root-associated Bacteroidota species. ISME J. 2025 Jan 2;19(1):wraf022. doi: 10.1093/ismejo/wraf022. |
2025 Jan 2 | degradation | 12 | 8 | CE20, CE20, GH2, GH3, GH31_3, GH39, GH5_4, GH95, GH97 |
| PUL0796 | recombinant protein expression, RT-PCR, enzyme activity assay | carrageenan | Paraglaciecola hydrolytica S66 | 29774012 A Novel Enzyme Portfolio for Red Algal Polysaccharide Degradation in the Marine Bacterium Paraglaciecola hydrolytica S66(T) Encoded in a Sizeable Polysaccharide Utilization Locus. Front Microbiol. 2018 May 3;9:839. doi: 10.3389/fmicb.2018.00839. eCollection 2018. |
2018 | degradation | 35 | 8 | GH127, GH16_13, GH16_17, GH167, GH82 |
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