| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
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