Home Repository Download Help About Statistics Taxonomy Blastx
Links
PULDB
CAZy
dbCAN2
dbCAN-seq
run_dbcan
CAZypedia
PlantCAZyme
Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0576

PubMed

20974960, Proc Natl Acad Sci U S A. 2010 Nov 9;107(45):19514-9. doi: 10.1073/pnas.1011100107. Epub 2010 Oct 25.

Characterization method

growth assay

Genomic accession number

CP001840.1

Nucelotide position range

1236100-1248439

Substrate

mucin,human milk oligosaccharide,O-glycan

Loci

BBPR_1050–BBPR_1058

Species

Bifidobacterium bifidum/1681

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

galE BBPR_1050 ADP36117.1 0 - 1023 (-) CP001840.1:1236100-1237123 5.1.3.2
galT2 BBPR_1051 ADP36118.1 1068 - 2583 (-) CP001840.1:1237168-1238683 2.7.7.12
nahK BBPR_1052 ADP36119.1 2582 - 3671 (-) CP001840.1:1238682-1239771 -
- BBPR_1053 ADP36120.1 3960 - 5115 (+) CP001840.1:1240060-1241215 2.7.1.2
- BBPR_1054 ADP36121.1 5257 - 6199 (-) CP001840.1:1241357-1242299 2.7.1.2
lnbP BBPR_1055 ADP36122.1 6427 - 8683 (-) CP001840.1:1242527-1244783 -
- BBPR_1056 ADP36123.1 8934 - 9885 (-) CP001840.1:1245034-1245985 -
- BBPR_1057 ADP36124.1 9884 - 10856 (-) CP001840.1:1245984-1246956 -
- BBPR_1058 ADP36125.1 11032 - 12340 (-) CP001840.1:1247132-1248440 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

galE 1 - 1023 (-) CDS No
galT2 1069 - 2583 (-) CDS No
nahK 2583 - 3671 (-) CDS No
- 3961 - 5115 (+) CDS No
- 5258 - 6199 (-) CDS No
lnbP 6428 - 8683 (-) CAZyme: GH112 Yes
- 8935 - 9885 (-) TC: gnl|TC-DB|D6ZW62|3.A.1.1.48 Yes
- 9885 - 10856 (-) TC: gnl|TC-DB|D6ZW63|3.A.1.1.48 Yes
- 11033 - 12340 (-) TC: gnl|TC-DB|D6ZW64|3.A.1.1.48 Yes

PUL ID

PUL0576

PubMed

20974960, Proc Natl Acad Sci U S A. 2010 Nov 9;107(45):19514-9. doi: 10.1073/pnas.1011100107. Epub 2010 Oct 25.

Title

Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging.

Author

Turroni F, Bottacini F, Foroni E, Mulder I, Kim JH, Zomer A, Sanchez B, Bidossi A, Ferrarini A, Giubellini V, Delledonne M, Henrissat B, Coutinho P, Oggioni M, Fitzgerald GF, Mills D, Margolles A, Kelly D, van Sinderen D, Ventura M

Abstract

The human intestine is densely populated by a microbial consortium whose metabolic activities are influenced by, among others, bifidobacteria. However, the genetic basis of adaptation of bifidobacteria to the human gut is poorly understood. Analysis of the 2,214,650-bp genome of Bifidobacterium bifidum PRL2010, a strain isolated from infant stool, revealed a nutrient-acquisition strategy that targets host-derived glycans, such as those present in mucin. Proteome and transcriptome profiling revealed a set of chromosomal loci responsible for mucin metabolism that appear to be under common transcriptional control and with predicted functions that allow degradation of various O-linked glycans in mucin. Conservation of the latter gene clusters in various B. bifidum strains supports the notion that host-derived glycan catabolism is an important colonization factor for B. bifidum with concomitant impact on intestinal microbiota ecology.