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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0789

PubMed

39892338, Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27.

Characterization method

RNA-seq,reducing-sugar assay,growth assay

Genomic accession number

NZ_CP012938.1

Nucelotide position range

6454296-6471913

Substrate

pectic polysaccharide

Loci

Bovatus_RS24435-Bovatus_RS24475

Species

Bacteroides ovatus strain ATCC 8483/28116

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- Bovatus_RS24435 WP_004302337.1 0 - 1413 (+) NZ_CP012938.1:6454296-6455709 -
- Bovatus_RS24440 WP_004302341.1 1860 - 3774 (+) NZ_CP012938.1:6456156-6458070 -
- Bovatus_RS24445 WP_052588053.1 3833 - 7910 (+) NZ_CP012938.1:6458129-6462206 2.7.13.3
- Bovatus_RS24450 WP_004325485.1 8024 - 8399 (+) NZ_CP012938.1:6462320-6462695 -
- Bovatus_RS24455 WP_004302348.1 8636 - 9167 (+) NZ_CP012938.1:6462932-6463463 -
- Bovatus_RS24460 WP_004302350.1 9220 - 12469 (+) NZ_CP012938.1:6463516-6466765 -
- Bovatus_RS24465 WP_052588030.1 12502 - 14299 (+) NZ_CP012938.1:6466798-6468595 -
- Bovatus_RS24470 WP_004302353.1 14335 - 15529 (+) NZ_CP012938.1:6468631-6469825 -
- Bovatus_RS24475 WP_052588031.1 15578 - 17618 (+) NZ_CP012938.1:6469874-6471914 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1413 (+) CAZyme: GH28 Yes
- 1861 - 3774 (+) CAZyme: CBM6 Yes
- 3834 - 7910 (+) TF: DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 Yes
- 8025 - 8399 (+) other Yes
- 8637 - 9167 (+) STP: STP|Sigma70_r2,STP|Sigma70_r4_2 Yes
- 9221 - 12469 (+) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 12503 - 14299 (+) CDS No
- 14336 - 15529 (+) CDS No
- 15579 - 17618 (+) CDS No

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PUL ID

PUL0789

PubMed

39892338, Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27.

Title

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.

Author

Yi W, Shi J, Zhou W, Wei J, Sun Y, Zeng X, Wang W

Abstract

In this study, the physicochemical properties, in vitro fermentation, and interaction with Bacteroides ovatus of a purified fraction of polysaccharides from the root of Brassica rapa (BRP2-2) were investigated. It was demonstrated with an in vitro anaerobic fermentation model that BRP2-2 significantly increased (p < 0.05) the relative abundance of Bacteroides spp. After 24 h incubation of BRP2-2 with Bacteroides ovatus alone, 10.24 +/- 0.69, 8.76 +/- 0.48 and 3.37 +/- 0.26 mM of acetate, propionate and isovalerate were produced, respectively. Moreover, transcriptome analysis of B. ovatus showed that 143 genes were up-regulated by BRP2-2, including five discrete polysaccharide utilization loci and two carbohydrate-active enzyme clusters. Based on the annotation of carbohydrate enzyme function, we speculate that BRP2-2 is a pectic polysaccharide containing homogalacturonan, rhamnogalacturonan I and rhamnogalacturonan II domains. These results suggested that BRP2-2 was degraded by B. ovatus, which produced metabolites with beneficial effects on host health.