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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0608

PubMed

32620774, Nat Commun. 2020 Jul 3;11(1):3285. doi: 10.1038/s41467-020-17075-x.

Characterization method

enzyme activity assay,clone and expression,liquid chromatography and mass spectrometry,thin layer chromatography,MALDI-TOF/MS

Genomic accession number

NC_015977.1

Nucelotide position range

885483-897323

Substrate

human milk oligosaccharide

Loci

RHOM_RS04015-RHOM_RS04055

Species

Roseburia hominis DSM 16839/301301

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- RHOM_RS04015 WP_014078985.1 0 - 867 (-) NC_015977.1:885483-886350 -
- RHOM_RS04020 WP_014078986.1 1296 - 2661 (+) NC_015977.1:886779-888144 -
- RHOM_RS04025 WP_014078987.1 2825 - 3704 (+) NC_015977.1:888308-889187 -
- RHOM_RS04030 WP_081468031.1 3774 - 4503 (+) NC_015977.1:889257-889986 -
- RHOM_RS04035 WP_044024834.1 4499 - 4940 (+) NC_015977.1:889982-890423 -
- RHOM_RS04040 WP_014078990.1 4890 - 6192 (+) NC_015977.1:890373-891675 -
gnpA RHOM_RS04045 WP_014078991.1 6237 - 8400 (+) NC_015977.1:891720-893883 2.4.1.211
- RHOM_RS04050 WP_014078992.1 8423 - 10022 (-) NC_015977.1:893906-895505 -
- RHOM_RS04055 WP_044024607.1 10065 - 11841 (-) NC_015977.1:895548-897324 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 867 (-) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 No
- 1297 - 2661 (+) TC: gnl|TC-DB|P29822|3.A.1.1.4 Yes
- 2826 - 3704 (+) TC: gnl|TC-DB|P29823|3.A.1.1.4 Yes
- 3775 - 4503 (+) TC: gnl|TC-DB|P29824|3.A.1.1.4 Yes
- 4500 - 4940 (+) other Yes
- 4891 - 6192 (+) CAZyme: GH136|3.2.1.140 Yes
- 6238 - 8400 (+) other Yes
- 8424 - 10022 (-) TF: DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0035607,DBD-SUPERFAMILY|0035607 Yes
- 10066 - 11841 (-) TC: gnl|TC-DB|F4LXP4|8.A.59.2.1 Yes

PUL ID

PUL0608

PubMed

32620774, Nat Commun. 2020 Jul 3;11(1):3285. doi: 10.1038/s41467-020-17075-x.

Title

Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways.

Author

Pichler MJ, Yamada C, Shuoker B, Alvarez-Silva C, Gotoh A, Leth ML, Schoof E, Katoh T, Sakanaka M, Katayama T, Jin C, Karlsson NG, Arumugam M, Fushinobu S, Abou Hachem M

Abstract

The early life human gut microbiota exerts life-long health effects on the host, but the mechanisms underpinning its assembly remain elusive. Particularly, the early colonization of Clostridiales from the Roseburia-Eubacterium group, associated with protection from colorectal cancer, immune- and metabolic disorders is enigmatic. Here, we describe catabolic pathways that support the growth of Roseburia and Eubacterium members on distinct human milk oligosaccharides (HMOs). The HMO pathways, which include enzymes with a previously unknown structural fold and specificity, were upregulated together with additional glycan-utilization loci during growth on selected HMOs and in co-cultures with Akkermansia muciniphila on mucin, suggesting an additional role in enabling cross-feeding and access to mucin O-glycans. Analyses of 4599 Roseburia genomes underscored the preponderance and diversity of the HMO utilization loci within the genus. The catabolism of HMOs by butyrate-producing Clostridiales may contribute to the competitiveness of this group during the weaning-triggered maturation of the microbiota.