Table 3.
Primers and probes used in this study
| Target and primer/probe name | Nucleotide sequence (5′–3′) |
|---|---|
| 16S rRNA | |
| F-16S | TAAYACATGCAAGTCGARCG |
| R-16S | TGGCACGDAGTTRGCCGKKGCTT |
| Staphylococcus aureus | |
| F-Saur | AGCGATTGATGGTGATACGGT |
| R-Saur | ATGCACTTGCTTCAGGACCA |
| mecA | |
| F-mecA | GGTGTTGGTGAAGATATACCAAGTG |
| R-mecA | GAAAGGATCTGTACTGGGTTAATCAT |
| vanA | |
| F-VanA | TCAATAGCGCGGACGAATTG |
| R-VanA | GCGGGAACGGTTATAACTGCGTTT |
| vanB | |
| F-VanB | TACCTACCCTGTCTTTGTGAAGCC |
| R-VanB | GCTGCTTCTATCGCAGCGTTTAGT |
| Fungus | |
| F-Fung | AACGCANMTTGCRCYCHHTG |
| R-Fung | CAGCGGGTADYCCYACCTGA |
| Bacteria: p-panBact | AGYGGCGGACGGGTGAGTAA |
| Gram(+) bacteria: p-GrPo | TGAGTAACACGTGGGYAACC |
| Gram(−) bacteria: p-GrNg | ATGTCTGGGAAACTGCCTGATG |
| Fungus: p-Fung | TGCGTTCAARRAYTCGATGA |
| Enterococcus spp.: p-Ent | CCATCAGARGGGGATAACACTT |
| Mycobacterium spp.: p-Mycob | TGGTGSAAAGCTTTTGCGGT |
| Salmonella spp.: p-Salm | CGGAAGCCTCCGCTAATTTGAT |
| Shigella spp.: p-Shig | AGTTCAGTAAGATGGTTGTGCGCA |
| Staphylococcus spp.: p-Stap | CACGTRGCTAACCTACCTATAAGACTG |
| Streptococcus spp.: p-Str | CGCGTAGGTAACCTGCCTGGTA |
| Acinetobacter baumannii: p-Abaum | AGCTTGCTACCGGACCTAGC |
| Candida albicans: p-Calb | AATAGTGGTAAGGCGGGATC |
| Candida glabrata: p-Cgrab | AGCGCAAGCTTCTCTATTAATCTG |
| Candida krusei: p-Ckrus | AGCGGAGCGGACGACGTGTA |
| Candida parapsilosis: p-Cpara | AGGCGGAGTATAAACTAATGGATAGGT |
| Candida tropicalis: p-Ctrp | ACGTGGAAACTTATTTTAAGCGA |
| Citrobacter freundii: P-Cfreun | TAGCACAGAGGAGCTTGCTCCTTG |
| Escherichia coli: p-Ecoli | AAAGGGAGTAAAGTTAATACCTTTGCTCA |
| Haemophilus influenzae: p-Hinfl | CGTATTATCGGAAGATGAAAGTGC |
| Klebsiella pneumoniae: p-KPneum | AAAAAAAGGTTAATAACCTCATCGATTGAC |
| Pseudomonas aeruginosa: p-Paer | ATACGTCCTGAGGGAGAAAGTG |
| Streptococcus pneumoniae: p-Stpneum | TCAGTGTCGCTGTTTTAGCAGAT |
| S. aureus: p-Saur | TTGGTTGATACACCTGAAACAAAG |
| mecA: p-MecA | AGCTGATTCAGGTTACGGACAAGGT |
| vanA: p-VanA | TCGTATTCATCAGGAAGTCGAGCC |
| vanB: p-VanB | TCGTCCTTTGGCGTAACCAA |