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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0501

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

1637343-1645091

Substrate

capsule polysaccharide

Loci

BF1369-BF1377

Species

Bacteroides fragilis/817

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

wzx3 BF9343_1301 CAH07082.1 0 - 117 (+) CR626927.1:1637343-1637460 -
wcfM BF9343_1302 CAH07083.1 113 - 1208 (+) CR626927.1:1637456-1638551 -
wcfN BF9343_1303 CAH07084.1 1204 - 2080 (+) CR626927.1:1638547-1639423 -
wzy3 BF9343_1304 CAH07085.1 2084 - 3389 (+) CR626927.1:1639427-1640732 -
wcfO BF9343_1305 CAH07086.1 3399 - 4443 (+) CR626927.1:1640742-1641786 -
wcfP BF9343_1306 CAH07087.1 4439 - 5576 (+) CR626927.1:1641782-1642919 -
wcfQ BF9343_1307 CAH07088.1 5572 - 6379 (+) CR626927.1:1642915-1643722 -
wcfR BF9343_1308 CAH07089.1 6407 - 7631 (+) CR626927.1:1643750-1644974 -
wcfS BF9343_1309 CAH07090.1 7662 - 7749 (+) CR626927.1:1645005-1645092 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

wzx3 1 - 117 (+) TC: gnl|TC-DB|O26447|2.A.66.2.10 Yes
wcfM 114 - 1208 (+) other Yes
wcfN 1205 - 2080 (+) CAZyme: GT2_Glycos_transf_2|GT2 Yes
wzy3 2085 - 3389 (+) other Yes
wcfO 3400 - 4443 (+) other Yes
wcfP 4440 - 5576 (+) CAZyme: GT4 Yes
wcfQ 5573 - 6379 (+) other Yes
wcfR 6408 - 7631 (+) other Yes
wcfS 7663 - 7749 (+) TC: gnl|TC-DB|H8E4X1|9.B.18.1.2 Yes

PUL ID

PUL0501

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.