Browse dbCAN-PUL Entries
| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0151 | sequence homology analysis, Northern Blot, RT-qPCR, electrophoretic mobility shift assay, clone and expression, gene deletion mutant and growth assay | alginate | Zobellia galactanivorans | 30524390 Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Regulation of alginate catabolism involves a GntR family repressor in the marine flavobacterium Zobellia galactanivorans DsijT. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. Nucleic Acids Res. 2020 Aug 20;48(14):7786-7800. doi: 10.1093/nar/gkaa533. |
2018,2020 Aug 20 | degradation | 12 | 2 | PL17_2, PL17, PL7 |
| PUL0267 | RT-qPCR | glycogen | Lactobacillus acidophilus | 23879596 A functional glycogen biosynthesis pathway in Lactobacillus acidophilus: expression and analysis of the glg operon. Mol Microbiol. 2013 Sep;89(6):1187-200. doi: 10.1111/mmi.12338. Epub 2013 Aug 16. |
2013 Sep | biosynthesis | 10 | 4 | CBM48, GH13_9, GH13_39, GT35, GT5 |
| PUL0271 | RT-qPCR | gentiobiose | 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 | 4 | 2 | GH30_1, GH42 |
| PUL0272 | RT-qPCR | beta-galactooligosaccharide | 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 | 3 | 1 | GH2 |
| PUL0273 | RT-qPCR | beta-galactooligosaccharide | 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 | 5 | 1 | GH42 |
| PUL0274 | RT-qPCR | xylan | 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 | CE20, CE20, GH43_10, CBM91, GH43_11, CBM91, GH43_12 |
| PUL0275 | RT-qPCR | starch | 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 | 8 | 3 | GH13_30, GH13_44, GH77 |
| PUL0276 | RT-qPCR | starch | 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 | 9 | 3 | GH13_31, GH36 |
| 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 |
| PUL0304 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | galactan | 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 | 7 | 2 | GH2, GH53 |
| PUL0305 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | pectin | 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 | 17 | 7 | CE12, CE8, CE8, GH105, GH28, PL1_2 |
| PUL0306 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | pectin | Bacteroides ovatus | 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 | 7 | 3 | GH147, GH2, GH53 |
| PUL0313 | microarray, Northern Blot, RT-qPCR, electrophoretic mobility shift assay, clone and expression, gene deletion mutant and growth assay | alginate | Zobellia galactanivorans | 28983288 Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Regulation of alginate catabolism involves a GntR family repressor in the marine flavobacterium Zobellia galactanivorans DsijT. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. Nucleic Acids Res. 2020 Aug 20;48(14):7786-7800. doi: 10.1093/nar/gkaa533. |
2017,2020 Aug 20 | degradation | 3 | 3 | PL6, PL6_1, PL7_5 |
| PUL0400 | RT-qPCR, RNA-seq | alginate | Alteromonas macleodii | 25847866 Different utilization of alginate and other algal polysaccharides by marine Alteromonas macleodii ecotypes. Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. Environ Microbiol. 2015 Oct;17(10):3857-68. doi: 10.1111/1462-2920.12862. Epub 2015 May 8. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16. |
2015 Oct,2019 Jan | degradation | 14 | 5 | CBM32, PL7_5, PL17_2, PL17, PL6_3, PL6, PL6_1, PL7_5 |
| PUL0410 | RT-qPCR | host glycan | Escherichia coli | 21545489 Growth temperature regulation of some genes that define the superficial capsular carbohydrate composition of Escherichia coli K92. FEMS Microbiol Lett. 2011 Jul;320(2):135-41. doi: 10.1111/j.1574-6968.2011.02300.x. Epub 2011 May 31. |
2011 Jul | degradation | 7 | 0 | NA |
| PUL0564 | microarray, qPCR, UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron | 18996345 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. Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. 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. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2008 Nov 13,2011 Dec,2021 Nov 15 | degradation | 39 | 22 | CE12, CE12, CE12, CE4, CE6, GH105, GH106, GH2, GH27, GH28, GH35, GH43_18, GH42, PL11_1, PL26, PL9, PL9_1 |
| PUL0665 | 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 | 8 | 2 | GH18, GH30_4 |
| 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 | 4 | 4 | GH35, GH43_19, GH43_9, CBM91, GH43_19, GH51_2 |
| PUL0667 | 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 | 4 | 0 | NA |
| 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 |
| PUL0721 | RNA-seq, RT-qPCR, gene deletion mutant and growth assay | human milk oligosaccharide | Phocaeicola dorei strain DSM 17855 | 38167825 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 | 38563787 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 |
| 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 | 36403068 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 |
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