TABLE 1.

Sequences of primers used in this study

Functional category	Primer	Primer sequence (5′ to 3′)	Reference
Phylogenetic group	ChuA.1	GACGAACCAACGGTCAGGAT	2
	ChuA.2	TGCCGCCAGTACCAAAGACA
	YjaA.1	TGAAGTGTCAGGAGACGCTG
	YjaA.2	ATGGAGAATGCGTTCCTCAAC
	TspE4C2.1	GAGTAATGTCGGGGCATTCA
Toxins	TspE4C2.2	CGCGCCAACAAAGTATTACG
Cytotoxic necrotizing factor (cnf1)	CNF1-1	CTGACTTGCCGTGGTTTAGTCGG	6
	CNF1-2	TACACTATTGACATGCTGCCCGGA
Hemolysin A (hlyA)	hlyA.1	AACAAGGATAAGCACTGTTCTGGCT
	hlyA.2	ACCATATAAGCGGTCATTCCCGTCA
Fimbriae and/or adhesins
P-fimbrial adhesin II (papGII)	papG_II f	GGGATGAGCGGGCCTTTGAT	4
	papG_II r	CGGGCCCCCAAGTAACTCG
P-fimbrial adhesin III (papGIII)	papG_III f	CCACCAAATGACCATGCCAGAC	15
	papG_III r	GGCCTGCAATGGATTTACCTGG
S fimbriae (sfaDE)	SFA-1	CTCCGGAGAACTGGGTGCATCTTAC	7
		CGGAGGAGTAATTACAAACCTGGCA
Afa/Dr adhesins (afa/draBC)	afa/draBC-f	GGCAGAGGGCCGGCAACAGGC	3
	afa/draBC-r	CCCGTAACGCGCCAGCATCTC
Iron uptake
Aerobactin synthesis (iucD)	Aer1	TACCGGATTGTCATATGCAGACCGT	15
	Aer2	AATATCTTCCTCCAGTCCGGAGAAG
Other
Uropathogenic strain-specific protein (usp)	N6	ATGCTACTGTTTCCGGGTAGTGTGT	8
	N7	CATCATGTAGTCGGGGCGTAACAAT
TIR domain-containing protein (tcpC)	tcpC for	GGCAACAATATGTATAATATCCT
	tcpC rev	GCCCAGTCTATTTCTGCTAAAGA	1