| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| 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 | 9 | GH43, GH43_11, GH10, GH39, GH67, GH10, CBM22, GH52, CE4, GH51 |
| PUL0013 | Northern Blot, RT-PCR, isothermal titration calorimetry, electrophoretic mobility shift assay | 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 | 56 | 11 | GH43_5, GH43, GH43, GH43_4, GH51, GH51, GH127, CE4, GH52, GH10, GH67, GH39, GH43_11 |
| PUL0029 | enzyme activity assay | arabinogalactan | Bifidobacterium longum | 30564851 Degradative enzymes for type II arabinogalactan side chains in Bifidobacterium longum subsp. longum. Appl Microbiol Biotechnol. 2019 Feb;103(3):1299-1310. doi: 10.1007/s00253-018-9566-4. Epub 2018 Dec 18. |
2019 Feb | degradation | 24 | 8 | GH43_24, GH43, CBM13, GH30, GH30_5, GH146, GH43_22, GH43, GH43_34, GH43_22, GH43, GH43_26, GH43_27, GH43, GH43_22, GH43_22 |
| PUL0044 | qRT-PCR, enzyme activity assay | arabinoxylan | Bacteroides ovatus | 26112186, 32266006 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 | 33 | 16 | GH43, GH43_10, GH3, GH43_12, GH43, GH31, GH97, CBM6, GH43, GH43_29, GH43_12, GH43, GH30_8, CBM35, GH98, GH115, CE6, CE1, CBM6, GH43, GH43_29, GH95, GH30, GH115 |
| 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 | GH67, GH43_1, GH43, GH10, CBM4, GH10 |
| PUL0063 | bicinchoninic acid (BCA) reducing-sugar assay, enzymatic product analysis, affinity gel electrophoresis, isothermal titration calorimetry | 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 | GH3, GH2, GH31, GH9, GH5_4, GH43, GH43_12, GH43_12, GH3 |
| PUL0065 | bicinchoninic acid (BCA) reducing-sugar assay, enzymatic product analysis, affinity gel electrophoresis, isothermal titration calorimetry | 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 | GH43_12, GH43, GH5_4, GH5, GH31, GH2, GH3, GH95 |
| PUL0066 | bicinchoninic acid (BCA) reducing-sugar assay, enzymatic product analysis, affinity gel electrophoresis, isothermal titration calorimetry | 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 | GH43_12, GH43, GH5, GH5_4, GH31, GH2, GH3, GH95 |
| PUL0084 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | lignocellulose | 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 | GH10, CBM6, GH43_29, GH43, CBM6, CE1, CBM6, GH43_10, CBM6, GH62, CBM6, GH43_29, GH43, CBM6, GH27, CBM6, GH59, CBM6, GH62, CE6, CBM6, GH95, CBM32, CE1, CBM6, GH30_8, CBM6 |
| PUL0114 | recombinant protein expression, enzyme activity assay | arabinofuranose | 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 | GH43, GH43_16, CBM6, GH10, CBM6, GH43, GH43_29, CBM6, CE1, CBM6, GH43_10, CBM6, GH62, CBM6, GH43, GH43_29, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6, GH62, CE6, CBM6, CBM32, GH95, CBM6, GH30_8, CBM6 |
| PUL0128 | RT-PCR, enzyme activity assay | hemicellulose | Bifidobacterium longum subsp. longum JCM 1217 | 30635377 Two Novel alpha-l-Arabinofuranosidases from Bifidobacterium longum subsp. longum Belonging to Glycoside Hydrolase Family 43 Cooperatively Degrade Arabinan. Appl Environ Microbiol. 2019 Mar 6;85(6):e02582-18. doi: 10.1128/AEM.02582-18. Print 2019 Mar 15. |
2019 Mar 15 | degradation | 24 | 8 | GH43, GH43_24, GH30_5, GH30, CBM13, GH146, GH43, GH43_34, GH43_22, GH43, GH43_22, GH43_26, GH43_27, GH43, GH43_22, GH43_22 |
| PUL0135 | enzyme activity assay, substrate 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 | 8 | CE12, CE4, GH28, GH105, GH105, GH43, GH43_10, CE8, PL1_2 |
| PUL0140 | sequence homology analysis | xylose | 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 | 5 | GH43, GH43_12, GH43, GH43_11, GH43_10 |
| 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 | 33 | 10 | GH92, GH92, GH43, GH43_34, GH125, CBM32, GH92, GH92, GH92, GH76, GH2, GH92 |
| PUL0169 | enzyme activity assay, qRT-PCR | arabinofuranooligosaccharide | 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 | GH146, GH43, GH43_29, GH121 |
| 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 | 7 | GH95, GH140, CBM67, GH78, GH33, GH28, GH78, CBM67, GH43_18, GH43, PL1, CE8, PL1_2, GH92 |
| 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 | 5 | GH51, GH146, GH43, GH43_4, GH43_4, GH51, GH43_29 |
| 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 | 12 | GH106, GH28, GH28, CE12, GH2, GH43_18, GH43_34, GH43, CBM32, GH42, GH28, PL11, PL11_1, PL26, CE12, GH105, PL11_1, GH105 |
| PUL0218 | enzyme activity assay | arabinose, 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 | GH51, GH97, GH146, GH43_4, GH43, GH43_4, GH51, GH43_29 |
| PUL0224 | RT-PCR, qRT-PCR | 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. PLoS One. 2013;8(2):e56063. doi: 10.1371/journal.pone.0056063. Epub 2013 Feb 13. |
2013 | degradation | 16 | 14 | GH43_16, GH43, CBM6, GH10, CBM6, GH43, GH43_29, CBM6, CBM6, CE1, GH43_10, CBM6, GH62, CBM6, GH43, GH43_29, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6, GH62, CBM6, CE6, CBM32, GH95, CBM6, GH30_8, CBM6 |
| PUL0228 | qRT-PCR, enzyme activity assay, high performance anion exchange chromatography | arabinan | Bacteroides thetaiotaomicron | 22686399, 21339299 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. 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. |
2012 Aug,2011 Apr 29 | degradation | 10 | 4 | GH43, GH43_4, GH43_4, GH51, GH43_29 |
| PUL0229 | RT-PCR | aldouronate | 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 | GH67, CBM22, GH10, GH43_12, GH43 |
| PUL0274 | RT-qPCR | xylobiose, xylooligosaccharide | 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 | GH43, GH43_12, GH43_11, GH43, GH43_10 |
| 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 | GH97, GH3, CBM22, GH43_10, GH43, GH146, GH115, CE0, CE6, CE1, GH43_12 |
| PUL0294 | gene trait matching exercise | xylooligosaccharide | 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 | 2 | GH120, GH43, GH43_12, GH43_11, GH43 |
| 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_34, GH43, GH43_22, GH43_26, GH43, GH43_27, GH43, GH43_22, GH43, GH43_22 |
| 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, GH43_22 |
| 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, GH43_27, GH43, GH43_4, GH43_4, GH51 |
| PUL0302 | RT-qPCR, isothermal titration calorimetry, enzyme activity assay, gene deletion mutant and growth assay | arabinan | 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 | 22 | 6 | GH51, GH146, GH43_4, GH43, GH43_4, GH51, GH43_29 |
| PUL0309 | enzyme activity assay, substrate binding assay, isothermal titration calorimetry | 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 | GH43_4, GH43, GH127, GH51, GH27, GH51, GH146 |
| PUL0328 | microarray, gas chromatography and 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 | 4 | GH127, CBM13, GH43, GH43_26, GH2, GH5, GH5_13 |
| PUL0329 | microarray, gas chromatography and 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 | 7 | GH43_10, GH43, CBM22, GH43, GH43_12, GH43, GH43_1, GH3, GH67, GH10, GH115, CE15 |
| 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 | CBM4, GH10, GH35, GH43_12, GH43, GH10, GH43_1, GH43, GH67, GH8, CE6, GH95, CE0, CE1, GH5, GH5_21, GH10, CBM0, GH115 |
| PUL0346 | gene deletion mutant and growth assay | xylooligosaccharide | uncultured bacterium | 27573446 Functional characterization of a gene locus from an uncultured gut Bacteroides conferring xylo-oligosaccharides utilization to Escherichia coli. Mol Microbiol. 2016 Nov;102(4):579-592. doi: 10.1111/mmi.13480. Epub 2016 Sep 14. |
2016 Nov | degradation | 15 | 5 | GH43, GH43_29, GH43, GH43_12, GH43, GH43_1, GH10, GH16 |
| PUL0354 | microarray | lactose, 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 | 8 | 3 | GH93, GH0, GH43_31, GH43, GH43_31 |
| PUL0358 | microarray | lactose, 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 | 4 | 4 | CBM32, GH35, GH43_19, GH43, GH43_9, GH43_19, GH43, GH51 |
| PUL0386 | ion trap liquid chromatography, mass spectrometry, target decoy database analysis, high performance anion exchange chromatography | hemicellulose | Ruminiclostridium cellulolyticum | 20013800 Modulation of cellulosome composition in Clostridium cellulolyticum: adaptation to the polysaccharide environment revealed by proteomic and carbohydrate-active enzyme analyses. Proteomics. 2010 Feb;10(3):541-54. doi: 10.1002/pmic.200900311. |
2010 Feb | degradation | 11 | 11 | GH43, CBM6, GH43_16, GH10, CBM6, GH43_29, GH43, CBM6, CE1, CBM6, GH43_10, CBM6, GH62, CBM6, GH43_29, GH43, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6 |
| PUL0395 | isothermal calorimetric titration, electrophoretic mobility shift assay, Northern Blot | arabinose, 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 | GH43, GH43_5, GH43, GH43_4, CBM54, GH51, GH51, GH127 |
| PUL0402 | Northern Blot, enzyme activity assay | xylan, xylose | 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, GH43 |
| PUL0435 | mass spectrometry, high performance anion exchange chromatography | glucose | 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 | GH43, GH43_34, GH30, GH30_1, GH30, GH30_3, GH16 |
| 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 | 13 | 6 | CE6, GH43_10, GH43, GH43_1, GH43, GH10, GH67 |
| PUL0457 | high performance anion exchange chromatography, enzyme activity assay, RNA-Seq | xylooligosaccharide | 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, GH43 |
| 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 | 2 | GH43, GH43_26, GH76 |
| PUL0476 | growth assay | hemicellulose, 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 | GH5, GH5_13, GH43_18, GH2, GH43, GH43_26, GH43_31, GH29, CBM32 |
| 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 | 12 | GH43, GH43_34, GH43_19, GH27, GH2, GH95, GH51, GH28, GH28, GH2, GH92, GH92, GH89 |
| PUL0481 | growth assay, enzyme activity assay | hemicellulose | Flavobacterium johnsoniae | 19717629, 32266006 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Multimodular fused acetyl-feruloyl esterases from soil and gut Bacteroidetes improve xylanase depolymerization of recalcitrant biomass. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. Biotechnol Biofuels. 2020 Mar 31;13:60. doi: 10.1186/s13068-020-01698-9. eCollection 2020. |
2009 Nov,2020 | degradation | 13 | 7 | GH97, GH3, GH43, GH43_10, CBM22, GH146, GH115, GH43_12, GH3 |
| 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 | 17 | GH78, CBM67, GH142, GH95, GH78, CBM67, GH143, GH43_18, GH43, GH28, GH140, PL1, CE8, PL1_2, PL1, CE8, PL1_2, CE8, GH127, PL1, PL1_2, GH139, GH106, GH2, GH137, GH78 |
| 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, GH28, PL10, CE8, PL10_1, GH43_10, GH43, GH105, GH105, GH105, GH28 |
| PUL0520 | clone and expression, enzyme activity assay | xylobiose, xylodextrin | 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, GH43_11 |
| PUL0530 | microarray, qPCR | rhamnogalacturonan | Bacteroides thetaiotaomicron | 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 | 54 | 21 | PL1, CE8, PL1_2, GH2, GH139, GH106, GH2, GH2, GH137, GH2, CBM57, GH138, GH78, GH141, GH127, GH95, GH105, GH140, GH78, GH33, CBM67, GH28, GH78, CBM67, GH143, GH142, GH43_18, GH43, PL1, CE8, PL1_2 |
| PUL0532 | RNA-Seq | arabinan, 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 | 17 | 5 | GH51, GH43_4, GH43, GH43_4, GH43, GH146, GH51 |
| 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 | 2 | GH16, GH43, GH43_24, GH16 |
| PUL0545 | 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 | 10 | 5 | GH43_2, CBM6, GH43, GH3, GH43_17, GH9, GH43_7, CBM13, CE1 |
| 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 | PL1_2, CE8, PL1, GH43_18, GH43, GH142, GH143, GH78, CBM67 |
| 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 | 21 | 13 | GH43_10, GH43, CBM6, GH3, GH43, GH43_12, GH31, GH97, CBM66, CBM6, GH43, GH43_29, GH43, GH43_12, CBM4, CBM0, GH10, GH5_21, CE1, CE6, CBM6, GH43_29, GH95, GH115 |
| PUL0558 | gene deletion mutant and growth assay, growth assay, enzyme activity assay | rhamnogalacturonan | Bacteroides thetaiotaomicron | 28329766 Complex pectin metabolism by gut bacteria reveals novel catalytic functions. Nature. 2017 Apr 6;544(7648):65-70. doi: 10.1038/nature21725. Epub 2017 Mar 22. |
2017 Apr 6 | degradation | 50 | 20 | GH2, GH139, GH106, GH2, GH2, GH2, CBM57, GH137, GH138, GH78, GH141, GH127, GH95, GH105, GH140, CBM67, GH33, GH78, GH28, CBM67, GH78, GH142, GH143, GH43_18, GH43, CE8, PL1_2, PL1 |
| PUL0560 | microarray, qPCR | arabinogalactan | Bacteroides thetaiotaomicron | 18996345, 22205877 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 | PL27, GH43_24, GH43, GH43_24, GH35, CBM32 |
| PUL0563 | microarray, qPCR | arabinogalactan | Bacteroides thetaiotaomicron | 18996345, 22205877 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 | 14 | 7 | GH127, GH43, GH43_34, GH154, GH43, GH16, GH43_24, GH43_24, GH145, GH105 |
| PUL0564 | microarray, qPCR | rhamnogalacturonan | Bacteroides thetaiotaomicron | 18996345, 22205877 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 | 39 | 23 | GH106, GH28, GH28, CE12, GH2, GH43, GH43_18, GH42, GH28, CE4, CE0, GH28, GH2, GH27, CBM35, GH35, PL9, PL9_1, PL26, CE12, GH105, PL11, PL11_1, GH105, CE4, CE0, CE6, GH2, PL9_1 |
| 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, GH43_11 |
| 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 | GH67, GH10, GH43, GH43_1, GH43_35, GH43, GH5_21, GH5, GH10, CBM0, CBM4, 3.2.1.8 |
| 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 | 5 | CBM35, CBM2, PL11_1, PL11, GH3, 3.2.1.55, CBM6, 3.2.1.37, GH43_7, CBM13, GH43, PL11_1, CBM35, CE12, PL11, CBM2, GH2 |
| 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 | CBM13, GH43, GH43_24, GH43_19, GH51, GH128 |
| 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 | 9 | GH43_12, GH43, GH115, GH43, GH43_10, GH97, CBM6, GH43_29, GH43, CBM22, CE1, CBM48, CBM51, CBM32, GH95, CBM13, GH115, GH30_8 |
| 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 | GH43, CBM54, GH43_4, GH2, GH43, GH43_4, GH127, GH51, GH43, CBM42, GH43_26, GH51, GH27, CBM51 |
| 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 | GH10, CBM4, CBM0, 3.2.1.8, GH115, GH11, CBM6, CBM36, CBM0, 3.2.1.8, GH10, CBM9, CBM22, GH43, GH43_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 | CBM48, CE1, GH43, GH43_7, CBM13, CBM48, CE1, CE6, CBM48, CE1, GH43_17, CBM6, GH3, GH43, CBM6, GH43_2 |
| 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 | 10 | 6 | GH43, GH43_2, CBM6, GH43_17, GH10, CBM48, CE1, CE1, GH43, CBM13, GH43_7, CBM48, CE1 |
| 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 | GH43, GH43_2, CBM6, GH3, CBM6, GH43_17, GH43_7, GH43, CBM13, CE1, CBM48 |
| PUL0648 | high performance anion exchange chromatography, substrate binding assay, thin layer chromatography, NMR, mass spectrometry, crystallization | glucuronoarabinoxylan | 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 | 20 | CBM0, 3.2.1.8, CBM4, GH10, GH43_12, GH43, GH43, GH43_1, GH10, GH146, CBM48, CE1, CBM6, CBM36, GH8, 3.2.1.156, CE6, CBM2, GH43_29, GH43, CBM22, CBM42, CBM66, CBM6, CBM6, GH43_29, GH43, GH97, GH31, GH51, CBM2, GH43_29, GH43, CBM22, CBM42, CBM6, CBM48, CE1, GH10, GH43_10, GH43, GH115, GH10, GH43, GH43_1, GH67 |
| PUL0664 | thin layer chromatography, clone and expression, recombinant protein expression | arabinogalactan protein | 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 | 17 | 8 | GH49, GH2, GH36, GH27, GH28, GH43, GH43, GH2 |
| 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 | 5 | 4 | GH35, GH43, GH51 |
| PUL0668 | 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 | 17 | 8 | GH43, GH28, PL9, PL26, CE12, GH105 |
| 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 | 24 | 12 | CE15, GH8, GH95, GH43 |
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