TABLE 1.
Primers used for SCCmec typing and toxin gene detection
| Primer group and gene(s) or gene allele detected | Primer name | Nucleotide sequence (5′→3′) | Reference or source |
|---|---|---|---|
| mecA | mA1 | TGCTATCCACCCTCAAACAGG | 29 |
| mA2 | AACGTTGTAACCACCCCAAGA | 29 | |
| ccr gene complex type | |||
| ccrB | βc | ATTGCCTTGATAATAGCCITCTa | 16 |
| ccrA1 | α1 | AACCTATATCATCAATCAGTACGT | 16 |
| ccrA2 | α2 | TAAAGGCATCAATGCACAAACACT | 16 |
| ccrA3 | α3 | AGCTCAAAAGCAAGCAATAGAAT | 16 |
| ccrC | γ1 | AGCCCAATTTTGATGGTTATTGA | This study |
| γ2 | TGGAGAAGTACTCGTTACAATGT | This study | |
| mec gene complex class | |||
| mecI-mecRI (class A) | mI4 | CAAGTGAATTGAAACCGCCT | 29 |
| mcR3 | GTCTCCACGTTAATTCCATT | 21 | |
| IS1272-mecA (class B) | IS5 | AACGCCACTCATAACATATGGAA | 29 |
| mA6 | TATACCAAACCCGACAAC | 21 | |
| IS431mecL-mecA (class C) | mA2 | AACGTTGTAACCACCCCAAGA | 21 |
| IS2 | TGAGGTTATTCAGATATTTCGATGT | 21 | |
| Primers for subtyping | |||
| IIa | 2a1 | ATGTCAGAGCTTTCTAACTTAGTCA | This study |
| 2a2 | TGAAAATGAAAGCCGTGCCG | This study | |
| IIb | 2b1 | AGCAATTTTTTCTCCTTCTGCTA | This study |
| 2b2 | TTATTAGATCAAGAGCCAAGTG | This study | |
| IVa | 4a1 | TTTGAATGCCCTCCATGAATAAAAT | 29 |
| 4a2 | AGAAAAGATAGAAGTTCGAAAGA | 29 | |
| IVb | 4b1 | AGTACATTTTATCTTTGCGTA | 29 |
| 4b2 | AGTCATCTTCAATATCGAGAAAGTA | 29 | |
| IVc | 4c1 | TCTATTCAATCGTTCTCGTATTT | This study |
| 4c2 | TCGTTGTCATTTAATTCTGAACT | This study | |
| IVd | 4d1 | TTTGAGAGTCCGTCATTATTTCTT | This study |
| 4d2 | AGAATGTGGTTATAAGATAGCTA | This study | |
| Exotoxic genes | |||
| tst-1 | TSST-1A | TGATATGTGGATCCGTCAT | This study |
| TSST-1B | AAACACAGATGGCAGCAT | This study | |
| eta | ET-1 | CTATTTACTGTAGGAGCTAG | 39 |
| ET-2 | ATTTATTTGATGCTCTCTAT | 39 | |
| etb | ET-3 | ATACACACATTACGGATAAT | 40 |
| ET-4 | CAAAGTGTCTCCAAAAGTAT | 40 | |
| etd | ET-14 | AACTATCATGTATCAAGG | 41 |
| ET-15 | CAGAATTTCCCGACTCAG | 41 | |
| lukS and lukF | PVLup | AAGACTATTAGCTGCAACATTGTC | 29 |
| PVLdn | AATCTATCTGTTTAGCTCATAGGA | 29 |
a
I, inosine.