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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0143

PubMed

30306201, Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.

Characterization method

sequence homology analysis

Genomic accession number

CP028460

Nucelotide position range

1621196-1636073

Substrate

exopolysaccharide

Loci

CNCMI4602_1329-CNCMI4602_1342

Species

Bifidobacterium animalis subsp. animalis/302912

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- CNCMI4602_1329 AYN24174.1 0 - 891 (-) CP028460.1:1621196-1622087 -
- CNCMI4602_1330 AYN24175.1 904 - 2356 (-) CP028460.1:1622100-1623552 -
- CNCMI4602_1331 AYN24176.1 2431 - 3451 (-) CP028460.1:1623627-1624647 -
- CNCMI4602_1332 AYN24177.1 3646 - 5083 (+) CP028460.1:1624842-1626279 -
- CNCMI4602_1335 AYN24178.1 5988 - 7002 (-) CP028460.1:1627184-1628198 -
- CNCMI4602_1336 AYN24179.1 6994 - 8341 (-) CP028460.1:1628190-1629537 -
- CNCMI4602_1337 AYN24180.1 8337 - 9231 (-) CP028460.1:1629533-1630427 -
- CNCMI4602_1338 AYN24181.1 9243 - 10008 (-) CP028460.1:1630439-1631204 -
- CNCMI4602_1339 AYN24182.1 10009 - 10897 (-) CP028460.1:1631205-1632093 -
- CNCMI4602_1340 AYN24183.1 11049 - 11982 (-) CP028460.1:1632245-1633178 -
- CNCMI4602_1341 AYN24184.1 11996 - 13244 (-) CP028460.1:1633192-1634440 -
- CNCMI4602_1342 AYN24185.1 13342 - 14878 (-) CP028460.1:1634538-1636074 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 891 (-) CDS No
- 905 - 2356 (-) CDS No
- 2432 - 3451 (-) CDS No
- 3647 - 5083 (+) TC: gnl|TC-DB|Q8KUK6|2.A.66.2.16 Yes
- 5989 - 7002 (-) TC: gnl|TC-DB|P75905|4.D.1.1.3 Yes
- 6995 - 8341 (-) other Yes
- 8338 - 9231 (-) other Yes
- 9244 - 10008 (-) other Yes
- 10010 - 10897 (-) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 11050 - 11982 (-) CAZyme: GT32 Yes
- 11997 - 13244 (-) other Yes
- 13343 - 14878 (-) TC: gnl|TC-DB|H8E4X1|9.B.18.1.2 Yes

PUL ID

PUL0143

PubMed

30306201, Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.

Title

Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions.

Author

Egan M, Bottacini F, O'Connell Motherway M, Casey PG, Morrissey R, Melgar S, Faurie JM, Chervaux C, Smokvina T, van Sinderen D

Abstract

Members of the Bifidobacterium genus are widely used as probiotics in fermented milk products. Bifidobacterium animalis subsp. animalis CNCM I-4602 grows and survives poorly in reconstituted skimmed milk (RSM). Availing of genome and transcriptome information, this poor growth and survival phenotype in milk was substantially improved by the addition of certain compounds, such as yeast extract, uric acid, glutathione, cysteine, ferrous sulfate, and a combination of magnesium sulfate and manganese sulfate. Carbohydrate utilization of CNCM I-4602 was also investigated, allowing the identification of several carbohydrate utilization gene clusters, and highlighting this strain's inability to utilize lactose, unlike the type strain of this subspecies, B. animalis subsp. animalis ATCC25527 and the B. animalis subsp. lactis subspecies. In addition, the ability of B. animalis subsp. animalis CNCM I-4602 to colonize a murine model was investigated, which showed that this strain persists in the murine gut for a period of at least 4 weeks. Associated in vivo transcriptome analysis revealed that, among other genes, a gene cluster encoding a predicted type IVb tight adherence (Tad) pilus was upregulated, indicating that this extracellular structure plays a role in the colonization/adaptation of the murine gastrointestinal tract by this strain.