Table 1.

Strains and plasmids used in this study.

Strains		Source or references
S. aureus	Characteristics
8325-4	NCTC 8325 cured of prophages and plasmids	Novick, 1967
DU5925	8325-4 clfA and fnbp deficient	Greene et al., 1995
8325-4 pCF4	8325-4 containing multicopy clfA plasmid	McDevitt et al., 1994
8325-4 pSKBIB	8325-4 containing multicopy fnbp plasmid	Greene et al., 1995
S123, S124	ST398 prophage-free ancestral isolates	van der Mee-Marquet et al., 2013a,b
S1	ST398 from human origin, livestock associated containing phages 2Pro and 3Pro (intermediate isolate)	van der Mee-Marquet et al., 2013b
S100	ST398 from human origin, non-livestock associated containing phages 4Pro and 5Pro (emergent clade)	Corvaglia et al., 2013
S123Sa2	S123 containing phages from S1	van der Mee-Marquet et al., 2013b
S124Sa2	S124 containing phages from S1	PRJEB31493
S92	ST398 from human origin, non-livestock associated containing 2Pro and other (emergent clade)	Diene et al., 2017
S13-192	ST398 from human origin, non-livestock associated containing 2Pro and other (emergent clade)	Diene et al., 2017
Cowan I	NCTC8530, septic arthritis isolate	ATCC 1298 (Sinha et al., 1999)
S. epidermidis
S. epidermidis KH11		Peters et al., 1982