PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0029 | enzyme activity assay | arabinogalactan | Bifidobacterium longum | 30564851, 30635377 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| PUL0559 | gene deletion mutant and growth assay, growth assay, enzyme activity assay, microarray, qPCR | pectin | Bacteroides thetaiotaomicron | 28329766, 18996345, 22205877, 16968696 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 |
| 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 | 15 | 7 | GH105, GH127, GH154, GH16_3, GH43_24, GH43_24, GH43_34, PL42 |
| 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 |
| 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 |
| 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 |
| 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 |
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