Genome Information

PAthogenisity Island DataBase (PAI DB)

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Genome Information

• General information

Accession:

Strain :

Staphylococcus aureus

Type :

Size :

G+C content :

[Note]

• PAIs (PAI reported to be located in this genome)

No	Name	Start	End	Size(bp)	Insertion Site	Function
1	vSa_alpha	461917	491331	29415	-	Enterotoxin, probable lipoprotein
2	vSa3	867990	882641	14652	-	Enterotoxins (Sel, Sec)
3	phi_Sa1	917507	961585	44079	-	-
4	vSa_gamma	1208563	1228595	20033	tRNA-Arg	Exotoxin, exfoliative toxin A
5	vSa_beta	1933762	1960387	26626	tRNAs cluster	Serin protease, leukotoxin, enterotoxin
6	phi_Sa3	2082904	2126991	44088	-	sak, sea, sep, seg2, sek2
7	vSa4	2133592	2148702	15111	-	Enterotoxins (Sel, Sec), TSST

• cPAIs (PAI-like region overlapping genomic islands (candidate PAI))

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No	Start	End	Size(bp)	No. of ORFs	G+C content	No. of homologs of PAI-virulence genes	PAIs homologous to this region
1	33693	111573	77881	77	32.2 %	5	Type-I SCCmec (Staphylococcus aureus NCTC10442) Type-I SCCmec (Staphylococcus aureus subsp. aureus COL) Type-II SCCmec (Staphylococcus aureus N315) Type-II SCCmec (Staphylococcus aureus subsp. aureus N315) Type-II SCCmec (Staphylococcus aureus subsp. aureus Mu50) Type-II SCCmec (Staphylococcus aureus subsp. aureus MRSA252) Type-II SCCmec (Staphylococcus epidermidis RP62A) Type-III SCCmec (Staphylococcus aureus 85/2082) Type-IIIinv SCCmec (Staphylococcus aureus 85/3907) Type-IIIinv SCCmec (Staphylococcus aureus MSHR1132) Type-IVa SCCmec (Staphylococcus aureus JCSC 1968 (CA05)) Type-IVb SCCmec (Staphylococcus aureus JCSC1978(8/6-3P)) Type-IVc SCCmec (Staphylococcus aureus 81/108(MR108)) Type-V SCCmec (Staphylococcus aureus JSCC 3624 (WIS)) Type-V SCCmec (Staphylococcus pseudintermedius strain 06-3228) Type-V SCCmec (Staphylococcus aureus ST398) Type-VII SCCmec (Staphylococcus aureus PM1) SRImec-III and SCCmec-III region (Staphylococcus aureus 85/2082) SCC 12263 (Staphylococcus hominis GIFU12263) SCCcap1 (Staphylococcus aureus M) vSa¥á (Staphylococcus aureus subsp. aureus N315) vSa¥á (Staphylococcus aureus subsp. aureus Mu50) vSa¥á (Staphylococcus aureus subsp. aureus COL) vSa¥á (Staphylococcus aureus subsp. aureus MRSA252) vSa¥á (Staphylococcus aureus subsp. aureus MSSA476) vSa¥á (Staphylococcus aureus subsp. aureus MW2) vSa¥á (Staphylococcus aureus FPR3757) vSa¥á (Staphylococcus aureus Newman) vSa¥á (Staphylococcus aureus MSHR1132) vSa¥á (Staphylococcus aureus CN1) Type-XI SCCmec (Staphylococcus aureus LGA251) SCC476 (Staphylococcus aureus subsp. aureus MSSA476) Type-IV SCCmec (Staphylococcus aureus subsp. aureus MW2) Type-IV SCCmec (Staphylococcus aureus FPR3757) SCCpbp4 (Staphylococcus epidermidis ATCC 12228) SCCmec (Staphylococcus haemolyticus JCSC1435) SCC15305RM (Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305)
2	461917	508245	46329	47	32.02 %	18	SCCcap1 (Staphylococcus aureus M) vSa¥á (Staphylococcus aureus subsp. aureus N315) vSa¥á (Staphylococcus aureus subsp. aureus Mu50) vSa¥á (Staphylococcus aureus subsp. aureus COL) vSa¥á (Staphylococcus aureus subsp. aureus MRSA252) vSa¥á (Staphylococcus aureus subsp. aureus MSSA476) vSa¥á (Staphylococcus aureus subsp. aureus MW2) vSa¥á (Staphylococcus aureus FPR3757) vSa¥á (Staphylococcus aureus Newman) vSa¥á (Staphylococcus aureus MSHR1132) vSa¥á (Staphylococcus aureus CN1)
3	917507	961585	44079	70	34.04 %	1	¥ÕSa1 (Staphylococcus aureus subsp. aureus Mu50) ¥ÕSa1 (Staphylococcus aureus ED133) ¥ÕSa2 (Staphylococcus aureus subsp. aureus MW2) ¥ÕSa2 (Staphylococcus aureus FPR3757) ¥ÕSa2 (Staphylococcus aureus ED133) ¥ÕSa3 (Staphylococcus aureus subsp. aureus N315) ¥ÕSa3 (Staphylococcus aureus FPR3757) ¥ÕSa3 (Staphylococcus aureus FPR3757) ¥ÕSa3 (Staphylococcus aureus ED133) ¥ÕSa3 (Staphylococcus aureus CN1)
4	1931292	1961342	30051	39	29.52 %	14	vSa¥â (Staphylococcus aureus subsp. aureus N315) vSa¥â (Staphylococcus aureus subsp. aureus Mu50) vSa¥â (Staphylococcus aureus subsp. aureus COL) vSa¥â (Staphylococcus aureus subsp. aureus MRSA252) vSa¥â (Staphylococcus aureus subsp. aureus MSSA476) vSa¥â (Staphylococcus aureus subsp. aureus MW2) vSa¥â (Staphylococcus aureus FPR3757) vSa¥â (Staphylococcus aureus Newman) vSa¥â (Staphylococcus aureus MSHR1132) vSa¥â (Staphylococcus aureus CN1)
5	2082904	2126991	44088	64	33.2 %	5	¥ÕSa1 (Staphylococcus aureus ED133) ¥ÕSa2 (Staphylococcus aureus FPR3757) ¥ÕSa2 (Staphylococcus aureus ED133) ¥ÕSa3 (Staphylococcus aureus subsp. aureus N315) ¥ÕSa3 (Staphylococcus aureus subsp. aureus Mu50) ¥ÕSa3 (Staphylococcus aureus subsp. aureus MW2) ¥ÕSa3 (Staphylococcus aureus FPR3757) ¥ÕSa3 (Staphylococcus aureus FPR3757) ¥ÕSa3 (Staphylococcus aureus ED133) ¥ÕSa3 (Staphylococcus aureus CN1) ¥ÕSh1 (Staphylococcus haemolyticus JCSC1435)

• nPAIs (PAI-like region not overlapping genomic islands (non-probable PAI))

*

No	Start	End	Size(bp)	No. of ORFs	G+C content	No. of homologs of PAI-virulence genes	PAIs homologous to this region
1	867435	882641	15207	23	31.68 %	4	SaPI1 (Staphylococcus aureus RN4282) SaPI2 (Staphylococcus aureus RN3984) SaPI3 (Staphylococcus aureus COL) SaPI4 (Staphylococcus aureus subsp. aureus MRSA252) SaPI68111 (Staphylococcus aureus 68111) SaPIbov (Staphylococcus aureus RF122) SaPIbov (Staphylococcus aureus RF122) SaPIbov2 (Staphylococcus aureus V329) SaPIbov2 (Staphylococcus aureus RF122) vSa1 (Staphylococcus aureus subsp. aureus COL) vSa3 (Staphylococcus aureus subsp. aureus Mu50) vSa3 (Staphylococcus aureus subsp. aureus MW2) vSa4 (Staphylococcus aureus subsp. aureus N315) vSa4 (Staphylococcus aureus subsp. aureus Mu50) SaPIAv (Staphylococcus aureus ED98)
2	1208563	1230103	21541	24	29.82 %	8	vSa¥ã (Staphylococcus aureus subsp. aureus N315) vSa¥ã (Staphylococcus aureus subsp. aureus Mu50) vSa¥ã (Staphylococcus aureus subsp. aureus COL) vSa¥ã (Staphylococcus aureus subsp. aureus MW2) vSa¥ã (Staphylococcus aureus FPR3757) vSa¥ã (Staphylococcus aureus CN1)
3	2133592	2150387	16796	21	31.23 %	6	SaPI1 (Staphylococcus aureus RN4282) SaPI1 (Staphylococcus aureus ED133) SaPI2 (Staphylococcus aureus RN3984) SaPI2 (Staphylococcus aureus ED133) SaPI3 (Staphylococcus aureus COL) SaPI4 (Staphylococcus aureus subsp. aureus MRSA252) SaPI68111 (Staphylococcus aureus 68111) SaPIbov (Staphylococcus aureus RF122) SaPIbov (Staphylococcus aureus RF122) SaPIbov2 (Staphylococcus aureus V329) SaPIbov2 (Staphylococcus aureus RF122) vSa1 (Staphylococcus aureus subsp. aureus COL) vSa3 (Staphylococcus aureus subsp. aureus Mu50) vSa3 (Staphylococcus aureus subsp. aureus MW2) vSa4 (Staphylococcus aureus subsp. aureus N315) vSa4 (Staphylococcus aureus subsp. aureus Mu50) SaPIAv (Staphylococcus aureus ED98)

• REIs (REI reported to be located in this genome)

No	Name	Start	End	Size(bp)	Insertion Site	Function
1	Type-II SCCmec	33693	89386	55694	-	mecA, ermA, bleO, addD

• cREIs (REI-like region overlapping genomic islands (candidate REI))

*

No	Start	End	Size(bp)	No. of ORFs	G+C content	No. of homologs of REI-resistance genes	REIs homologous to this region
1	438216	455920	17705	18	36.33 %	1	89K (Streptococcus suis 05ZYH33) 89K (Streptococcus suis 98HAH33)

• nREIs (REI-like region not overlapping genomic islands (non-probable REI))

*