| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0012 | enzyme activity assay | chitin | Vibrio cholerae | <a href=https://pubmed.ncbi.nlm.nih.gov/28683122/>28683122</a> The nucleoid occlusion protein SlmA is a direct transcriptional activator of chitobiose utilization in Vibrio cholerae. PLoS Genet. 2017 Jul 6;13(7):e1006877. doi: 10.1371/journal.pgen.1006877. eCollection 2017 Jul. |
2017 Jul | degradation | 11 | 3 | GH20, GH9, GH94 |
| PUL0015 | microarray | cellobiose | Lactococcus lactis | <a href=https://pubmed.ncbi.nlm.nih.gov/28970222/>28970222</a> Disruption of a Transcriptional Repressor by an Insertion Sequence Element Integration Leads to Activation of a Novel Silent Cellobiose Transporter in Lactococcus lactis MG1363. Appl Environ Microbiol. 2017 Nov 16;83(23):e01279-17. doi: 10.1128/AEM.01279-17. Print 2017 Dec 1. |
2017 Dec 1 | degradation | 4 | 1 | GH9 |
| PUL0040 | Northern Blot, enzyme activity assay | cellulose | Ruminiclostridium cellulolyticum | <a href=https://pubmed.ncbi.nlm.nih.gov/12896991/>12896991</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/1398087/>1398087</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/11844767 />11844767 </a> A rhamnogalacturonan lyase in the Clostridium cellulolyticum cellulosome. Sequence analysis of a gene cluster encoding cellulases from Clostridium cellulolyticum. Cel9M, a new family 9 cellulase of the Clostridium cellulolyticum cellulosome. J Bacteriol. 2003 Aug;185(16):4727-33. doi: 10.1128/JB.185.16.4727-4733.2003. Gene. 1992 Sep 21;119(1):17-28. doi: 10.1016/0378-1119(92)90062-t. J Bacteriol. 2002 Mar;184(5):1378-84. doi: 10.1128/JB.184.5.1378-1384.2002. |
2003 Aug,1992 Sep 21,2002 Mar | degradation | 6 | 6 | GH5_1, GH5_17, GH9, GH9, CBM3, PL11 |
| PUL0063 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/31420336/>31420336</a> 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 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH9 |
| PUL0083 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | cellulose | Ruminiclostridium papyrosolvens | <a href=https://pubmed.ncbi.nlm.nih.gov/31338125/>31338125</a> 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 | 11 | CBM3, cohesin, cohesin, cohesin, cohesin, cohesin, cohesin, CBM4, GH9, GH48, GH5_1, GH5_17, GH5_7, GH8, GH9, GH9, CBM3 |
| PUL0085 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | beta-glucan | Ruminiclostridium papyrosolvens | <a href=https://pubmed.ncbi.nlm.nih.gov/31338125/>31338125</a> 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 | 3 | 3 | CBM35, GH26, GH9 |
| PUL0087 | label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay | cellulose | Ruminiclostridium papyrosolvens | <a href=https://pubmed.ncbi.nlm.nih.gov/31338125/>31338125</a> 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 | 2 | 2 | GH9, CBM3, CBM3 |
| PUL0164 | mass spectrometry, sequence homology analysis, differential gene expression | beta-mannan | Leeuwenhoekiella sp. MAR_2009_132 | <a href=https://pubmed.ncbi.nlm.nih.gov/30246424/>30246424</a> 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 | 19 | 12 | CBM8, CE2, CE20, GH130_1, GH26, GH27, GH3, GH5_2, GH5_7, GH9 |
| PUL0165 | mass spectrometry, sequence homology analysis, differential gene expression | beta-mannan | Salegentibacter sp. Hel_I_6 | <a href=https://pubmed.ncbi.nlm.nih.gov/30246424/>30246424</a> 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 | 16 | 8 | CE20, GH130_1, GH26, GH27, GH30, GH5_2, GH9 |
| PUL0240 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00028 | <a href=https://pubmed.ncbi.nlm.nih.gov/24448980/>24448980</a> Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 10 | 3 | GH26, GH31_3, GH9 |
| PUL0320 | liquid chromatography and mass spectrometry, mass spectrometry, target decoy database analysis | cellulose | Caldicellulosiruptor bescii | <a href=https://pubmed.ncbi.nlm.nih.gov/29475869/>29475869</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/29588665/>29588665</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/21227922/>21227922</a> Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses. The diversity and specificity of the extracellular proteome in the cellulolytic bacterium Caldicellulosiruptor bescii is driven by the nature of the cellulosic growth substrate. Insights into plant biomass conversion from the genome of the anaerobic thermophilic bacterium Caldicellulosiruptor bescii DSM 6725. Appl Environ Microbiol. 2018 Apr 16;84(9):e02694-17. doi: 10.1128/AEM.02694-17. Print 2018 May 1. Biotechnol Biofuels. 2018 Mar 23;11:80. doi: 10.1186/s13068-018-1076-1. eCollection 2018. Nucleic Acids Res. 2011 Apr;39(8):3240-54. doi: 10.1093/nar/gkq1281. Epub 2011 Jan 11. |
2018 May 1,2018,2011 Apr | degradation | 19 | 10 | CBM66, PL3_1, CBM66, PL9_1, GH10, CBM3, CBM3, GH48, GH5_8, CBM3, CBM3, CBM3, GH5_1, GH5_8, CBM3, CBM3, GH44, GH74, GH74, GH74, GH74, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH5_8, GT39, PL11, CBM3 |
| PUL0322 | liquid chromatography and mass spectrometry | cellulose | Caldicellulosiruptor danielii | <a href=https://pubmed.ncbi.nlm.nih.gov/29475869/>29475869</a> Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses. Appl Environ Microbiol. 2018 Apr 16;84(9):e02694-17. doi: 10.1128/AEM.02694-17. Print 2018 May 1. |
2018 May 1 | degradation | 19 | 12 | CBM22, CBM22, GH10, CBM3, CBM3, GH5_1, CBM66, PL3_1, CBM66, PL9_1, GH10, CBM3, GH12, GH48, GH5_8, CBM3, CBM3, GH44, GH74, GH74, GH74, GH74, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH48, GH9, CBM3, CBM3, CBM3, GH5_8, GT39, PL11, CBM3 |
| PUL0333 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | <a href=https://pubmed.ncbi.nlm.nih.gov/28091525/>28091525</a> A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 22 | 4 | GH30, GH31_3, GH9 |
| PUL0334 | fosmid library screen, enzyme activity assay, thin-layer chromatography | beta-glucan | uncultured bacterium | <a href=https://pubmed.ncbi.nlm.nih.gov/28091525/>28091525</a> A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248. |
2017 Jan 16 | degradation | 23 | 7 | CE20, CE4, GH30, GH31_3, GH9 |
| PUL0385 | ion trap liquid chromatography, mass spectrometry, target decoy database analysis, high-performance anion-exchange chromatography | cellulose | Ruminiclostridium cellulolyticum | <a href=https://pubmed.ncbi.nlm.nih.gov/20013800/>20013800</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/8936327/>8936327</a> 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 |
| PUL0434 | SDS-PAGE, Western Blot | beta-mannan | Clostridium cellulovorans | <a href=https://pubmed.ncbi.nlm.nih.gov/10613891/>10613891</a> The engL gene cluster of Clostridium cellulovorans contains a gene for cellulosomal manA. J Bacteriol. 2000 Jan;182(1):244-7. doi: 10.1128/JB.182.1.244-247.2000. |
2000 Jan | degradation | 8 | 5 | CBM4, CBM4, GH9, GH5_17, GH9 |
| PUL0527 | microarray, qPCR | xyloglucan | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/22205877/>22205877</a> 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 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH9 |
| PUL0545 | RNA-seq | arabinoxylan | Bacteroides cellulosilyticus | <a href=https://pubmed.ncbi.nlm.nih.gov/23976882/>23976882</a> 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 | 6 | CE1, GH3, GH43_17, GH43_2, CBM6, GH43_7, GH43_7, GH9 |
| PUL0577 | SDS-PAGE, enzyme activity assay | chitin | Photobacterium profundum | <a href=https://pubmed.ncbi.nlm.nih.gov/21098515/>21098515</a> Elucidation of exo-beta-D-glucosaminidase activity of a family 9 glycoside hydrolase (PBPRA0520) from Photobacterium profundum SS9. Glycobiology. 2011 Apr;21(4):503-11. doi: 10.1093/glycob/cwq191. Epub 2010 Nov 22. |
2011 Apr | degradation | 11 | 3 | GH20, GH9, GH94 |
| PUL0644 | enzyme activity assay, liquid chromatography, high-performance anion-exchange chromatography, qRT-PCR, crystallization | arabinoxylan | Bacteroides cellulosilyticus DSM 14838 | <a href=https://pubmed.ncbi.nlm.nih.gov/33469030/>33469030</a> 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 |
| PUL0698 | clone and expression, high-performance anion-exchange chromatography, crystallization | beta-mannan | Muricauda sp. MAR_2010_75 | <a href=https://pubmed.ncbi.nlm.nih.gov/36411326/>36411326</a> 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 |
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