The genome sequence of E. coli W (ATCC 9637): comparative genome analysis and an improved genome-scale reconstruction of E. coli

Table 5 Fimbrial gene clusters found in safe strains and in representative Group B1 strains.

Insertion site (W)	Type^a	W	K-12	B	Crooks
Chromosome
yadN-ecpD-htrE-yadMLKC	γ₄	+	+	+	ECs0145-ECs0139 ^b
ecpABC-yagW-ecpE	α	+	+	+	+
sfmACDHF	γ₁	+	+	+	+
ybgDQPO	π	+	+	+	+
elfADCG-ycbUVF	γ₁	+	+	+	+
csgDEFG-csgBAC	curli	+	+	+	+
egoABCDEF	γ₁	+	ΔegoABC	ΔegoAB	ΔegoAB
yehDCBA	γ₄	+	+	-	+
esoABCDEFGH	π	+	yfcOPQRSTUV	yfcOPQRSTUV	yfcOPQRSTUV
ygiL-yqiGHI	π	+	IS2::yqiG	+	+
eafABCD	α	+	-	-	+
yraHIJK	γ₁	+	+	+	+
gltF-yhcF^c	β	-	IS5::yhcE	-	-
lpfABCDE	γ₁	+	-	-	-
lpfA2-D2	γ₁	+	-	-	-
fimAICDFGH	γ₁	+	+	+	IS3::fimG, *fimAICDF
Plasmids
faeCDEFGH	κ	ΔfaeHIJ ^d	-	-	-

^a Type based on [74]
^b Crooks contains a related γ₄ fimbrial found in E. coli O157:H7 at this location
^c Cluster location in E. coli K-12 MG1655
^d Cluster located on W pRK1
A '+'means the element is present; a '-' means the element is absent. Where some genes from the cluster are deleted, this is noted as e.g. egoABC. If a different gene fimbria gene cluster is present in the insertion site, the alternative gene cluster is noted. Safe laboratory strains are W (ATCC 9637), K-12 (MG1655), B (REL606), and Crooks (ATCC 8739). W is in phylogroup B1; K-12, B, and Crooks are in phylogroup A.

ISSN: 1471-2164