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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0642

PubMed

33439065, Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503.

Characterization method

recombinant protein expression

Genomic accession number

NZ_LR027880.1

Nucelotide position range

4318380-4338276

Substrate

sucrose,kestose,nystose

Loci

RIL182_RS20205-RIL182_RS20255

Species

Roseburia intestinalis L1-82/166486

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- RIL182_RS20205 WP_006856630.1 0 - 957 (-) NZ_LR027880.1:4318380-4319337 2.7.1.-
- RIL182_RS20210 WP_006856629.1 1522 - 3775 (-) NZ_LR027880.1:4319902-4322155 3.2.1.22
- RIL182_RS20215 WP_044998831.1 3799 - 5482 (-) NZ_LR027880.1:4322179-4323862 -
- RIL182_RS20220 WP_006856627.1 5563 - 6541 (-) NZ_LR027880.1:4323943-4324921 -
- RIL182_RS20225 WP_006856626.1 6528 - 8220 (-) NZ_LR027880.1:4324908-4326600 -
gtfA RIL182_RS20230 WP_044998851.1 8395 - 9835 (-) NZ_LR027880.1:4326775-4328215 2.4.1.7
- RIL182_RS20235 WP_006856624.1 9917 - 10781 (-) NZ_LR027880.1:4328297-4329161 -
- RIL182_RS20240 WP_006856623.1 10780 - 11659 (-) NZ_LR027880.1:4329160-4330039 -
- RIL182_RS20245 WP_006856622.1 11792 - 13187 (-) NZ_LR027880.1:4330172-4331567 -
- RIL182_RS20250 WP_242655525.1 13620 - 17739 (-) NZ_LR027880.1:4332000-4336119 -
- RIL182_RS20255 WP_006856619.1 18043 - 19897 (-) NZ_LR027880.1:4336423-4338277 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 957 (-) STP: STP|PfkB No
- 1523 - 3775 (-) CAZyme: GH36| GH36 Yes
- 3800 - 5482 (-) CAZyme: GH13_31| GH13_31 Yes
- 5564 - 6541 (-) TF: DBD-Pfam|LacI,DBD-SUPERFAMILY|0036955 Yes
- 6529 - 8220 (-) CAZyme: GH32| GH32 Yes
gtfA 8396 - 9835 (-) CAZyme: GH13_18| GH13_18 Yes
- 9918 - 10781 (-) TC: gnl|TC-DB|Q8NMV5|3.A.1.1.45 Yes
- 10781 - 11659 (-) TC: gnl|TC-DB|Q8NMV4|3.A.1.1.45 Yes
- 11793 - 13187 (-) other Yes
- 13621 - 17739 (-) CAZyme: CBM86|GH10| GH10| CBM22|CBM22| CBM9|CBM9| CBM86 Yes
- 18044 - 19897 (-) CAZyme: GH53| GH53|CBM61 Yes

PUL ID

PUL0642

PubMed

33439065, Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503.

Title

Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers.

Author

Tanno H, Fujii T, Hirano K, Maeno S, Tonozuka T, Sakamoto M, Ohkuma M, Tochio T, Endo A

Abstract

Butyrate produced by gut microbiota has multiple beneficial effects on host health, and oligosaccharides derived from host diets and glycans originating from host mucus are major sources of its production. A significant reduction of butyrate-producing bacteria has been reported in patients with inflammatory bowel diseases and colorectal cancers. Although gut butyrate levels are important for host health, oligosaccharide metabolic properties in butyrate producers are poorly characterized. We studied the metabolic properties of fructooligosaccharides (FOSs) and other prebiotic oligosaccharides (i.e. raffinose and xylooligosaccharides; XOSs) in gut butyrate producers. 1-Kestose (kestose) and nystose, FOSs with degrees of polymerization of 3 and 4, respectively, were also included. Fourteen species of butyrate producers were divided into four groups based on their oligosaccharide metabolic properties, which are group A (two species) metabolizing all oligosaccharides tested, group F (four species) metabolizing FOSs but not raffinose and XOSs, group XR (four species) metabolizing XOSs and/or raffinose but not FOSs, and group N (four species) metabolizing none of the oligosaccharides tested. Species assigned to groups A and XR are rich glycoside hydrolase (GH) holders, whereas those in groups F and N are the opposite. In total, 17 enzymes assigned to GH32 were observed in nine of the 14 butyrate producers tested, and species that metabolized FOSs had at least one active GH32 enzyme. The GH32 enzymes were divided into four clusters by phylogenetic analysis. Heterologous gene expression analysis revealed that the GH32 enzymes in each cluster had similar FOS degradation properties within clusters, which may be linked to the conservation/substitution of amino acids to bind with substrates in GH32 enzymes. This study provides important knowledge to understand the impact of FOS supplementation on the activation of gut butyrate producers. Abbreviations: SCFA, short chain fatty acid; FOS, fructooligosaccharide; XOS, xylooligosaccharide; CAZy, Carbohydrate Active Enzymes; CBM, carbohydrate-binding module; PUL, polysaccharide utilization locus; S6PH sucrose-6-phosphate hydrolase.