TABLE 1.
Primers for phylogenetic studies, virulence factors, and resistance genes used for PCR assays
| Target | Sequence (5′-3′) | Primer name | Reference |
|---|---|---|---|
| chuA | GACGAACCAACGGTCAGGAT | chuA.1 | 9 |
| TGCCGCCAGTACCAAAGACA | chuA.2 | ||
| yjaA | TGAAGTGTCAGGAGACGCTG | yjaA.1 | 9 |
| ATGGAGAATGCGTTCCTCAAC | yjaA.2 | ||
| TspE4.C2 | GAGTAATGTCGGGGCATTCA | TspE4C2.1 | 9 |
| CGCGCCAACAAAGTATTACG | TspE4C2.2 | ||
| papG allele II | GGGATGAGCGGGCCTTTGAT | AlleleII-f | 18 |
| CGGGCCCCCAAGTAACTCG | AlleleII-r | ||
| papG allele III | GGCCTGCAATGGATTTACCTGG | AlleleIII-f | 18 |
| CCACCAAATGACCATGCCAGAC | AlleleIII-r | ||
| sfa/foc | CTCCGGAGAACTGGGTGCATCTTAC | sfa1 | 18 |
| CGGAGGAGTAATTACAAACCTGGCA | sfa2 | ||
| afa/draBC | GGCAGAGGGCCGGCAACAGGC | Afa f | 18 |
| CCCGTAACGCGCCAGCATCTC | Afa r | ||
| fimH | TGCAGAACGGATAAGCCGTGG | FimH f | 18 |
| GCAGTCACCTGCCCTCCGGTA | FimH r | ||
| hlyA | AACAAGGATAAGCACTGTTCTGGCT | hly f | 18 |
| ACCATATAAGCGGTCATTCCCGTCA | hly r | ||
| cnf1 | AAGATGGAGTTTCCTATGCAGGAG | cnf1 | 18 |
| CATTCAGAGTCCTGCCCTCATTATT | cnf2 | ||
| fyuA | TGATTAACCCCGCGACGGGAA | FyuA f′ | 18 |
| CGCAGTAGGCACGATGTTGTA | FyuA r | ||
| iutA | GGCTGGACATCATGGGAACTGG | AerJ f | 18 |
| CGTCGGGAACGGGTAGAATCG | AerJ r | ||
| kpsMT II | GCGCATTTGCTGATACTGTTG | kpsII f | 18 |
| CATCCAGACGATAAGCATGAGCA | kpsII r | ||
| traT | GGTGTGGTGCGATGAGCACAG | TraT f | 18 |
| CACGGTTCAGCCATCCCTGAG | TraT r | ||
| sat | ACTGGCGGACTCATGCTGT | Sat 1 | 35 |
| AACCCTGTAAGAAGACTGAGC | Sat 2 | ||
| iha | CTGGCGGAGGCTCTGAGATCA | IHA f | 19 |
| TCCTTAAGCTCCCGCGGCTGA | IHA r | ||
| iroN | AAGTCAAAGCAGGGGTTGCCCG | IRONEC-F | 19 |
| GACGCCGACATTAAGACGCAG | IRONEC-R | ||
| tetA | GTTTCGGGTTCGGGATGGTC | tetA up | This study |
| GCAGGCAGAGCAAGTAGAGG | tetA low | ||
| blaOXA-1 | TATCAACTTCGCTATTTTTTTA | OXA-1 up | This study |
| TTTAGTGTGTTTAGAATGGTGA | OXA-1 low | ||
| aac(6′)-Ib | ATGACTGAGCATGACCTT | AAC6′-Ib up | 28 |
| GAAGGGTTAGGCATCACT | AAC6′-Ib low | ||
| aac(3)-II | CAATAACGGAGGCAATTCG | AAC3-II up | 28 |
| GATTATCATTGTCGACGG | AAC3-II low | ||
| sul1 | CGGCGTGGGCTACCTGAACG | Sul 1-F | 26 |
| GCCGATCGCGTGAAGTTCCG | Sul 1-B | ||
| sul2 | GCGCTCAAGGCAGATGGCATT | Sul 2-F | 26 |
| GCGTTTGATACCGGCACCCGT | Sul 2-B |