Table 4.

Alternative integration sites of phage P282 in livestock-associated CC398 strains.

Lysogenic isolate	S. aureus strain	Attachment site attB*	Integration site (gene)	Reference genome	Accession number
Sa-L35	10-355	TGTATCCAAACTGG	General stress protein (AUC50_04635)	RIVM3897	CP013621
Sa-L36	10-355	TGTATCCAAACTGG	Integrase	Sa54	KT253891
Sa-L48	10-170	TGTATCCTTACTGT	Nucleoside permease (AUC50_03495)	RIVM3897	CP013621
Sa-L49	10-170	TGTATCCAATCTGG	General stress protein (AUC50_04635)	RIVM3897	CP013621
Sa-L54	12-070	TGTATCCAAACTGG	Cytochrome D ubiquinol oxidase subunit I (AUC50_05470)	RIVM3897	CP013621
Sa-L56	13-090	TGTATCCAAACTGA	Hypothetical protein (AUC50_10740)	RIVM3897	CP013621
Sa-L57	13-090	TGTATCCAAACTGA	GMP synthetase (AUC50_02200)	RIVM3897	CP013621
Sa-L67	13-015	TGTATCCAAACTGG	Hypothetical protein (SAMI_1999)	S. aureus	AP017320
Sa-L68	13-015	TGTATCCAAGCTGG	Gamma-aminobutyrate permease (AUC50_08995)	RIVM3897	CP013621
Sa-L66	13-029	TGTATCCAAACTGG	Gamma-aminobutyrate permease (AUC50_08995)	RIVM3897	CP013621
Sa-L65	13-029	TGTATCCAAACTGG	Gamma-aminobutyrate permease (AUC50_08995)	RIVM3897	CP013621
Sa-L46	11-1203	TGTATCCATACTGG	Alanine racemase (A7327_11665)	08–02300	CP015646
attB within hlb P282 attP	TGTATCCGAATTGG TGTATCCGAATTGG

^*Nucleotides diverging from the published attB integration site for ΦSa3 phages (Coleman et al.³³) are indicated.