16S rRNA gene based analysis of Enterobacter sakazakii strains from different sources and development of a PCR assay for identification

Lehner, Angelika; Tasara, Taurai; Stephan, Roger

doi:10.1186/1471-2180-4-43

Table 1 Polymorphism "hot spots" along the 16S rRNA gene of the E. sakazakii strains analyzed in the study in correspondence to E. sakazakii type strain ATCC 29544, E. coli type strain ATCC 11775 and E. cloacae type strain ATCC13047

From: 16S rRNA gene based analysis of Enterobacter sakazakii strains from different sources and development of a PCR assay for identification

			E. sakazakii 16S rRNA gene sequence polymorphism positions¹
strain	Sequence accession no.	source	I (187–193)	II (455–477)	III (590–600)	IV (1132–1141)
E. coli ATCC 11775	X80725		GCAAGCA	GAGTAAAGTTAATACCTTTGCTC	TTGTTAAGTCA	CGGTCCG-GCC
E. cloacae ATCC 13047	AJ251469		GCAAGAC	TGTTGTGGTTAATAACCGCAGCA	CTGTCAAGTCG	CGGTCCG-GCC
E. sakazakii ATCC 29544	AB004647	human	TACGGAC	TGTTGTGGTTAATAACCGCAGCA	TGATTAAGTCA	CGGTTCG-GCC
E. sakazakii ES 11	AY803187	human	TWCGGAC	YGYTGTGGTTAATAACCACAGCA	CTGTTAAGTCA	CGGTTCG-GCC
E. sakazakii ES 4	AY803186	human	TWCGGAC	TGYTGTGGTTAATAACCACAGCA	CTGTTAAGTCA	CGGTCCG-GCC
E. sakazakii FSM 266	AY803190	environment	TACGGAC	CGTTGTGGTTAATAACCGCAGCG	CTGTTAAGTCA	CGGTTCG-GCC
E. sakazkaii 1084	AY803192	fruit powder	TACGGAC	CGTTGTGGTTAATAACCACAGCG	YKRTTAAGTCA	CGGTTCG-GCC
E. sakazakii ES Vo7/24922	AY803189	human	TACGGAC	TGTTGTGGTTATTAACCRCAGCA	YKRTTAAGTCA	CGGTTCG-GCC
E. sakazakii FSM 265	AY803191	milk powder	TTCGGAC	CGTTGTGGTTAATAACCGCAGCG	YKRTTAAGTCA	CGGTTCG-GCC
E. sakazakii ATCC 51329	AY752937		GCAAGAC	GGTTAAGGTTAATAACCTTGGCC	CTGTCAAGTCG	CACATCATGGT
E. sakazakii 858	AY752936	fruit powder	TACGGAC	TGTTGTGGTTAATAACCGCAGCA	TGATTAAGTCA	CGGTCCG-GCC
E. sakazakii 759	AY752939	fruit powder	TACGGAC	TGTTGTGGTTAATAACCACAGCG	CTGTTAAGTCA	CGGTYCG-GCC
E. sakazakii 954	AY752938	fruit powder	TWCGGAC	YGYTGTGGTTAATAACCACAGCR	YTGTTAAGTCA	CGGTYCG-GCC
E. sakazakii 236	AY752943	fruit powder	TWCGGAC	YGYTGTGGTTAATAACCACAGCR	YKGTTAAGTCA	CGGTYCG-GCC
E. sakazakii FSM 468	AY752942	environment	TACGGAC	YGYTGTGGTTAATAACCACAGCA	YTRTTAAGTCA	CGGTTCG-GCC
E. sakazakii FSM 393	AY752941	baby food	TACGGAC	CGTTGTGGTTAATAACCGCAGCG	TKRTTAAGTCA	CGGTCCG-GCC
E. sakazakii FSM 33	AY752940	milk	TTCGGAC	TGTTGTGGTTAATAACCACAGCA	CTGTTAAGTCA	CGGTTCG-GCC

¹ E. coli positions according to Brosius et al. [17]

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