Table 1.
Primer sequences and amplified products for the targeted genes.
| Gene | Description | Primer sequence (5′ to 3′) | Amplicon size (Pb) | Optimal annealing temperature (°C) | Reference |
|---|---|---|---|---|---|
| Specie specific | |||||
| uidA | Beta-D glucuronidase | F: GCGTCTGTTGACTGGCAGGTGGTGG | 503 | 56 | (13) |
| R: GTTGCCCGCTTCGAAACCAATGCCT | |||||
| Phylogenetic group | |||||
| chuA | Direct heme uptake | F: ATGGTACCGGACGAACCAAC | 279 | 59 | (5) |
| R:TGCCGCCAGTACCAAAGACA | |||||
| yjaA | Cellular response to acidic pH | F: TGAAGTGTCAGGAGACGCTG | 211 | ||
| R: ATGGAGAATGCGTTCCTCAAC | |||||
| TspE4.C2 | Putative esterase lipase gene | F:GAGTAATGTCGGGGCATTCA | 152 | ||
| R: CGCGCCAACAAAGTATTACG | |||||
| Virulence factors | |||||
| kpsMTII | Group II capsular polysaccharide synthesis | F: GCGCATTTGCTGATACTGTTG | 272 | 61,5 | (14) |
| R: CATCCAGACGATAAGCATGAGCA | |||||
| fimH | Type I fimbriae | F: TGCAGAACGGATAAGCCGTGG | 508 | 62 | |
| R: GCAGTCACCTGCCCTCCGGTA | |||||
| PAI | Marker for pathogenicity associated island | F: GGACATCCTGTTACAGCGCGCA | 930 | 63 | |
| R: TCGCCACCAATCACAGCCGAAC | |||||
| papAH | P fimbriae major and minor structural subunits | F: ATGGCAGTGGTGTCTTTTGGTG | 720 | 63 | |
| R: CGTCCCACCATACGTGCTCTTC | |||||
| fyuA | Yersinia associated siderophore system | F: TGATTAACCCCGCGACGGGAA | 880 | 63 | |
| R: CGCAGTAGGCACGATGTTGTA | |||||
| usp | Uropathogenic specific protein | F: ATGCTACTGTTTCCGGGTAGTGTGT | 1000 | 62 | (15) |
| R: CATCATGTAGTCGGGGCGTAACAAT | |||||
| OmpT | Serum resistance associated outer membrane protein | F: TCATCCCGGAAGCCTCCCTCACTACTAT | 556 | 58 | (16) |
| R: TAGCGTTTGCTGCACTGGCTTCTGATAC | |||||
| traT | Serum resistance associated outer membrane protein | F: GGTGTGGTGCGATGAGCACAG | 290 | ||
| R: CACGGTTCAGCCATCCCTGAG | |||||
| iutA | Aerobactin iron transport system | F: GGCTGGACATCATGGGAACTGG | 300 | ||
| R: CGTCGGGAACGGGTAGAATCG |