| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0044 | qRT-PCR, enzyme activity assay | arabinoxylan | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/26112186/>26112186</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/32266006/>32266006</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/26112186/>26112186</a> 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 |
| PUL0049 | fosmid library screen | beta-glucan | feces metagenome | <a href=https://pubmed.ncbi.nlm.nih.gov/29601586/>29601586</a> 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 |
| PUL0056 | sequence homology analysis, NMR, size-exclusion chromatography (SEC), clone and expression, recombinant protein expression, enzyme kinetic analysis | alginate | Bacteroides eggerthii | <a href=https://pubmed.ncbi.nlm.nih.gov/29795267/>29795267</a> 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 |
| PUL0091 | sequence homology analysis | host glycan | Phocaeicola vulgatus | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 |
| PUL0102 | fosmid library screen, lectin binding assay | host glycan | uncultured bacterium | <a href=https://pubmed.ncbi.nlm.nih.gov/31275257/>31275257</a> 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 |
| PUL0115 | expression of recombinant proteins, RNA-seq, differential gene expression | host glycan | Bacteroides thetaiotaomicron | <a href=https://pubmed.ncbi.nlm.nih.gov/31160824/>31160824</a> 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 |
| PUL0140 | sequence homology analysis | xylan | Bifidobacterium animalis subsp. animalis | <a href=https://pubmed.ncbi.nlm.nih.gov/30306201/>30306201</a> 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 |
| PUL0164 | mass spectrometry, sequence homology analysis, differential gene expression | beta-mannan | Leeuwenhoekiella sp. MAR_2009_132 | <a href=https://pubmed.ncbi.nlm.nih.gov/30246424/>30246424</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/30246424/>30246424</a> 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 |
| PUL0193 | RNA-seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | <a href=https://pubmed.ncbi.nlm.nih.gov/26920945/>26920945</a> 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 |
| PUL0239 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00026 | <a href=https://pubmed.ncbi.nlm.nih.gov/24448980/>24448980</a> 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 |
| PUL0244 | gene deletion mutant and growth assay, complementation study, carbohydrate binding assay | host glycan | Tannerella forsythia | <a href=https://pubmed.ncbi.nlm.nih.gov/24351045/>24351045</a> 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 |
| PUL0274 | RT-qPCR | xylan | Bifidobacterium animalis subsp. lactis | <a href=https://pubmed.ncbi.nlm.nih.gov/23663691/>23663691</a> 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 |
| PUL0329 | microarray, gas chromatography, mass spectrometry | xylan | Gramella flava | <a href=https://pubmed.ncbi.nlm.nih.gov/28261179/>28261179</a> 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 |
| PUL0334 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | <a href=https://pubmed.ncbi.nlm.nih.gov/28091525/>28091525</a> 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 |
| PUL0345 | qRT-PCR, enzyme activity assay | xylan | Bacteroides intestinalis | <a href=https://pubmed.ncbi.nlm.nih.gov/27681607/>27681607</a> 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 |
| PUL0348 | enzyme activity assay | host glycan | Bacteroides fragilis | <a href=https://pubmed.ncbi.nlm.nih.gov/22449996/>22449996</a> 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 |
| PUL0392 | RT-PCR, qPCR | xylan | Bacteroides xylanisolvens | <a href=https://pubmed.ncbi.nlm.nih.gov/27142817/>27142817</a> 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 |
| PUL0416 | microarray | pectin | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/22205877/>22205877</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/22205877/>22205877</a> 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 |
| PUL0464 | microarray, qPCR | host glycan | Bacteroides thetaiotaomicron | <a href=https://pubmed.ncbi.nlm.nih.gov/18996345/>18996345</a> 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 |
| PUL0472 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | <a href=https://pubmed.ncbi.nlm.nih.gov/18996345/>18996345</a> 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 |
| PUL0482 | growth assay | pectin | Flavobacterium johnsoniae | <a href=https://pubmed.ncbi.nlm.nih.gov/19717629/>19717629</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/19717629/>19717629</a> 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 |
| PUL0539 | RNA-seq | pectin | Bacteroides cellulosilyticus | <a href=https://pubmed.ncbi.nlm.nih.gov/23976882/>23976882</a> 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 |
| PUL0558 | gene deletion mutant and growth assay, growth assay, enzyme activity assay | pectin | Bacteroides thetaiotaomicron | <a href=https://pubmed.ncbi.nlm.nih.gov/28329766/>28329766</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/22205877/>22205877</a> 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 |
| PUL0630 | enzyme activity assay, affinity gel electrophoresis | xylan | termite gut metagenome | <a href=https://pubmed.ncbi.nlm.nih.gov/33187992/>33187992</a> 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 |
| PUL0648 | high-performance anion-exchange chromatography, substrate binding assay, thin-layer chromatography, NMR, mass spectrometry, crystallization | xylan | Dysgonomonas mossii DSM 22836 | <a href=https://pubmed.ncbi.nlm.nih.gov/33667545/>33667545</a> 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 |
| PUL0669 | clone, high-performance anion-exchange chromatography, enzymatic product analysis | xylan | Bacteroides eggerthii 1_2_48FAA | <a href=https://pubmed.ncbi.nlm.nih.gov/34480044/>34480044</a> 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 |
| 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/34995484/>34995484</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/34731054/>34731054</a> 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 |
| PUL0697 | recombinant protein expression, SDS-PAGE, HPLC | xylan | Caldicellulosiruptor bescii DSM 6725 | <a href=https://pubmed.ncbi.nlm.nih.gov/36218355/>36218355</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/34060910/>34060910</a> 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 |
| PUL0701 | qRT-PCR, enzyme activity assay | xyloglucan | Xanthomonas citri pv. citri str. 306 | <a href=https://pubmed.ncbi.nlm.nih.gov/25595763/>25595763</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/34193873/>34193873</a> 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 |
| PUL0704 | fluorophore-assisted carbohydrate electrophoresis (FACE), dinitrosalicylic acid-assay (DNS-assay), HPLC, clone and expression | xylan | Flavimarina sp. Hel_I_48 | <a href=https://pubmed.ncbi.nlm.nih.gov/37121608/>37121608</a> 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 |
| PUL0706 | RNA-seq, growth assay | agar | Pseudoalteromonas atlantica T6c | <a href=https://pubmed.ncbi.nlm.nih.gov/37265394/>37265394</a> 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 |
| PUL0717 | gene mutant, mice colonization with mutant | raffinose family oligosaccharides | Bacteroides thetaiotaomicron VPI-5482 | <a href=https://pubmed.ncbi.nlm.nih.gov/37598339/>37598339</a> 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 |
| PUL0721 | RNA-seq, RT-qPCR, gene deletion mutant and growth assay | human milk oligosaccharide | Phocaeicola dorei strain DSM 17855 | <a href=https://pubmed.ncbi.nlm.nih.gov/38167825/>38167825</a> 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 |
| 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/38563787/>38563787</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/38569650/>38569650</a> 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 |
| 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/36403068/>36403068</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/38789996/>38789996</a> 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 |
| 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/39738071/>39738071</a> 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 |
| 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/39738071/>39738071</a> 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 |
| PUL0788 | RNA-seq, reducing-sugar assay, growth assay | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | <a href=https://pubmed.ncbi.nlm.nih.gov/39892338/>39892338</a> 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 |
| PUL0791 | RNA-seq, reducing-sugar assay, growth assay | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | <a href=https://pubmed.ncbi.nlm.nih.gov/39892338/>39892338</a> 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 | <a href=https://pubmed.ncbi.nlm.nih.gov/37938239/>37938239</a> 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 |
| PUL0795 | RNA-seq, recombinant protein expression, growth assay | xyloglucan | Flavobacterium johnsoniae UW101 | <a href=https://pubmed.ncbi.nlm.nih.gov/39913342/>39913342</a> 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 |
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