TABLE 1.

Primers used in this study

PCR	Primer name	5′-3′ Sequence	Gene(s)	RT-PCR probe	Reference or source
16S rRNA for species identification	A2	AGAGTTTGATCATGGCTCAG	rrs		39
	A10	AAACTCAAATGAATTGACGG	rrs		39
	S15	GGGCGGTGTGTACAAGGCC	rrs		39
	S10	CCGTCAATTCATTTGAGTTT	rrs		39
mec complex typing	mA7	ATATACCAAACCCGACAACTACA	mecA		30
	mI6	CATAACTTCCCATTCTGCAGATG	mecI		30
	IS7	ATGCTTAATGATAGCATCCGAATG	IS1272		30
	IS2	TGAGGTTATTCAGATATTTCGATGT	IS431R		30
	IS2L	GAACCGCAGGTCTCTTCAGATC	IS431L		This study
ccr complex typing	mA1	TGCTATCCACCCTCAAACAGG	mecA		30
	mA2	AACGTTGTAACCACCCCAAGA	mecA		30
	α1	AACCTATATCATCAATCAGTACGT	ccrA1		30
	α2	TAAAGGCATCAATGCACAAACACT	ccrA2		30
	α3	AGCTCAAAAGCAAGCAATAGAAT	ccrA3		30
	βc	ATTGCCTTGATAATAGCCTTCT	ccrB1, ccrB2, ccrB3		30
	γF	CGTCTATTACAAGATGTTAAGGATAAT	ccrC		30
	ccrCU1	TTACCTTTGACCAATATCACATC	ccrC		This study
	α4U	GCGACGAATCAAATGTCCTTACTG	ccrA4		This study
	β4U	ATCGCTCCAGTGTCTATACTTCGC	ccrB4		This study