Correlation between antimicrobial resistance, biofilm formation, and virulence determinants in uropathogenic Escherichia coli from Egyptian hospital

Table 2 The phylogenetic group assignment scheme

Result of the quadruplex reaction				Phylogroup	Follow up reaction
arpA	chuA	yjaA	TspE4.C2		Follow up reaction
+	−	−	−	A
+	−	−	+	B1
−	+	−	−	F
−	+	+	−	B2
−	+	+	+	B2
−	+	−	+	B2
+	−	+	−	A or C	Group C-specific reaction
+	+	−	−	D or E	Group E-specific reaction
+	+	−	+	D or E	Group E-specific reaction
+	+	+	−	E or Clade I	Group E-specific reaction
−	−	+	−	Clade I or II
−	(476 bp)^a	−	−	Clade III, IV, or V
−	−	−	+	Unknown
−	−	+	+	Unknown
+	−	+	+	Unknown
+	+	+	+	Unknown
−	−	−	−	Unknown

^aIn the quadruplex reaction, clades III, IV, or V produce a 467 bp PCR amplicon, which is a consequence of an 11 bp match between the chuA gene and the AceK.f primer, in the presence of the chuA.2 primer. These clades do not result in any of the four main amplicons; arpA (400 bp), chuA (288 bp), yjaA (211 bp), or TspE4.C (152 bp) [48]

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