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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0511

PubMed

20829291, Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.

Characterization method

sequence homology analysis,microscopy

Genomic accession number

CR626927.1

Nucelotide position range

5103508-2413419

Substrate

capsule polysaccharide

Loci

BF2048-BF2062

Species

Bacteroides fragilis/817

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BF9343_1964 CAH07745.1 0 - 1143 (-) CR626927.1:5103508-5104651 -
- BF9343_1965 CAH07746.1 1151 - 2564 (-) CR626927.1:5104659-5106072 -
- BF9343_1966 CAH07747.1 2560 - 3727 (-) CR626927.1:5106068-5107235 -
- BF9343_1967 CAH07748.1 3723 - 4575 (-) CR626927.1:5107231-5108083 -
- BF9343_1968 CAH07749.1 4587 - 5739 (-) CR626927.1:5108095-5109247 -
- BF9343_1969 CAH07750.1 5735 - 6770 (-) CR626927.1:5109243-5110278 -
- BF9343_1970 CAH07751.1 6790 - 7909 (-) CR626927.1:5110298-5111417 -
- BF9343_1971 CAH07752.1 7905 - 9360 (-) CR626927.1:5111413-5112868 -
- BF9343_1972 CAH07753.1 9441 - 10395 (-) CR626927.1:5112949-5113903 -
- BF9343_1973 Q8A8J9 10475 - 10649 (+) CR626927.1:5113983-5114157 -
- BF9343_1974 CAH07755.1 10784 - 12005 (-) CR626927.1:5114292-5115513 -
- BF9343_1975 CAH07756.1 12218 - 13109 (-) CR626927.1:5115726-5116617 -
- BF9343_1976 CAH07757.1 13151 - 14486 (-) CR626927.1:5116659-5117994 -
- BF9343_1977 CAH07758.1 14478 - 16695 (-) CR626927.1:5117986-5120203 -
- BF9343_1978 CAH07759.1 16705 - 17455 (-) CR626927.1:5120213-5120963 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1143 (-) CAZyme: GT2|GT2_Glyco_tranf_2_3 Yes
- 1152 - 2564 (-) other Yes
- 2561 - 3727 (-) other Yes
- 3724 - 4575 (-) CAZyme: GT2|GT2_Glycos_transf_2 Yes
- 4588 - 5739 (-) CAZyme: GT4 Yes
- 5736 - 6770 (-) other Yes
- 6791 - 7909 (-) other Yes
- 7906 - 9360 (-) TC: gnl|TC-DB|B0RRI5|2.A.66.2.23 Yes
- 9442 - 10395 (-) TC: gnl|TC-DB|P75905|4.D.1.1.3 Yes
- 10785 - 12005 (-) CAZyme: GT2|GT2_Glyco_tranf_2_3 Yes
- 12219 - 13109 (-) CAZyme: GT2|GT2_Glycos_transf_2 Yes
- 13152 - 14486 (-) CDS No
- 14479 - 16695 (-) CDS No
- 16706 - 17455 (-) CDS No

PUL ID

PUL0511

PubMed

20829291, Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.

Title

Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis.

Author

Patrick S, Blakely GW, Houston S, Moore J, Abratt VR, Bertalan M, Cerdeno-Tarraga AM, Quail MA, Corton N, Corton C, Bignell A, Barron A, Clark L, Bentley SD, Parkhill J

Abstract

Comparison of the complete genome sequence of Bacteroides fragilis 638R, originally isolated in the USA, was made with two previously sequenced strains isolated in the UK (NCTC 9343) and Japan (YCH46). The presence of 10 loci containing genes associated with polysaccharide (PS) biosynthesis, each including a putative Wzx flippase and Wzy polymerase, was confirmed in all three strains, despite a lack of cross-reactivity between NCTC 9343 and 638R surface PS-specific antibodies by immunolabelling and microscopy. Genomic comparisons revealed an exceptional level of PS biosynthesis locus diversity. Of the 10 divergent PS-associated loci apparent in each strain, none is similar between NCTC 9343 and 638R. YCH46 shares one locus with NCTC 9343, confirmed by mAb labelling, and a second different locus with 638R, making a total of 28 divergent PS biosynthesis loci amongst the three strains. The lack of expression of the phase-variable large capsule (LC) in strain 638R, observed in NCTC 9343, is likely to be due to a point mutation that generates a stop codon within a putative initiating glycosyltransferase, necessary for the expression of the LC in NCTC 9343. Other major sequence differences were observed to arise from different numbers and variety of inserted extra-chromosomal elements, in particular prophages. Extensive horizontal gene transfer has occurred within these strains, despite the presence of a significant number of divergent DNA restriction and modification systems that act to prevent acquisition of foreign DNA. The level of amongst-strain diversity in PS biosynthesis loci is unprecedented.