| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| 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 |
| 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 |
| PUL0067 | bicinchoninic acid (BCA) reducing-sugar assay, enzymatic product analysis, affinity gel electrophoresis, isothermal titration calorimetry | 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, GH5_4, GH5, GH31, GH95, GH3, GH43_12 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | GH3, GH2, GH31, GH9, GH5_4, GH43_12, GH43_12, GH3 |
| 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 |
| PUL0592 | qRT-PCR | methylglucuronoarabinoxylan | 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 | GH67, GH10, GH43_12 |
| 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 |
| 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 |
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