TABLE 1.

Primers used for cloning and excision experiments

Application	Code	Position in Fig. 2	Location	Orientationa	Strain(s)b	Sequencec	TA (°C)d
Cloning	C1		ccr promoter	F	wkz-2, O7.1	CGGAATTCTGTAGAGTTTGCATCTATCCTGG	68
	C2		ccrA/B	R	wkz-2, O7.1	ACGCGTCGACTCTGTTTCTTCGAATCTGCAAAT	74
	C3		ccrA/B	F	wkz-2, O7.1	GCTCTAGAATGAAACAACAATCTCTTGC	62
	C4		Phage promoter	F	WVW 189	CGGAATTCCTTGTTTTGAATCAAGTCA	66
	C5		Phage promoter	R	WVW 189	GCTCTAGACCGTTTGATAACTTCATAAT	56
Excision	E1	1	Upstream of SCC-like element	F	wkz-2, MR108	GCATTCAGATTATTGACTGTTGG	58
	E2	2	SCC-like element	R	wkz-2, MR108	CTACCAGCAATACCTCATACC	52
	E3	3	Upstream of SCCmec	F	wkz-2, MR108	TTTTGCTGTTTTTATCACCATATTGAA	59
	E4				Ca05	AATTTACCAGACAGCCTGGTGC	61
	E5				JCSC1978, Mu50, N315	ATTTAATGTCCACCATTTAACA	53
	E6	4	SCCmec	R	wkz-2, O7.1, Ca05	GTCCTAACAAGCGGTCAACACC	62
	E7				JCSC1978	CATCAAACTTTAAGGGAGAAGC	57
	E8				MW2, Ca05, wkz 2	CCACGTTATGGAGGTGCTCTG	62
	E9				MR108	AACGGTCTGGACGAAGTAAGG	59
	E10				Mu50, N315	GAATCTTCAGCATGTGATTTA	52
	E11	5	SCCmec	F	All	ATGAAAGACTGCGGAGGCTAACT	61
	E12	6	SCCmec	R	All	CAGCCGCTTCATAAAGGGATT	61
	E13	7	SCCmec	F	wkz-2	GGCTGAAAAAACCGCATCAT	61
	E14	8	orfX	R	All	AAACGACATGAAAATCACCAT	56

^aF, forward primer; R, reverse primer.

^bStrain(s) on which primers were used.

^cPrimer sequences depicted in bold have been described previously Katayama et al. (9).

^dAnnealing temperature was chosen 5°C below the melting temperature of the primer. For primer combinations in the PCR, the lowest TA was chosen.