Table 4 List of primers used to validate genotyping target and genomic features in S. Virchow
From: Genome analysis and CRISPR typing of Salmonella enterica serovar Virchow
Name | Primer sequence | Length (bp) | Direction | Product size (bp) | Target |
|---|---|---|---|---|---|
SopE-A/F | GAGTCGGCATAGCACACTCA | 20 | Forward | 474 | SopE (Sesv_0764) |
SopE-A/R | CAACACACTTTCACCGAGGA | 20 | Reverse | Â | Â |
SopE-B/F | GGCGTGGGAAAGTTTCAGTA | 20 | Forward | 1328 | SopE cassette (3′ region) |
SopE-B/R | ATGACGTTTTTACGCCAAGC | 20 | Reverse | Â | Â |
SopE-C/F | CGGGGTCTTTACTCGCACTA | 20 | Forward | 923 | SopE cassette (5′ region) |
SopE-C/R | CACTCAACCACCACAACAGG | 20 | Reverse | Â | Â |
leuX-A/F | TTAAATGTGGCGAACAGCAG | 20 | Forward | 2239 | GI-leuX (internal) |
leuX-A/R | AGTGCCCGGAAAGAAACTCT | 20 | Reverse | Â | Â |
leuX-B/F | CGGACGCCATATCCATATTC | 20 | Forward | 1120 | GI-leuX (5′ boundary) |
leuX-B/R | CCTGAATACTGGTCGGGAAA | 20 | Reverse | Â | Â |
leuX-C/F | GTAGATTGGCAACCGAAAGG | 20 | Forward | 876 | GI-leuX (3′ boundary) |
leuX-C/R | GAGATGAAACGTTCGTGCAA | 20 | Reverse | Â | Â |
pheV-A/F | GCGGCAAGGTAAAATGTGTT | 20 | Forward | 1687 | GI-pheV (internal) |
pheV-A/R | GGTGATTTACGTGCGGTCTT | 20 | Reverse | Â | Â |
pheV-B/F | TTCTGCTGGTGATGAAGTGC | 20 | Forward | 1138 | GI-pheV (5′ boundary) |
pheV-B/R | TCCAGATATGGGCTTTCAGG | 20 | Reverse | Â | Â |
pheV-C/F | GATAGTTTCCGCCACCTGAA | 20 | Forward | 1337 | GI-pheV (3′ boundary) |
pheV-C/R | GAGAGAACTGGAGCCACAGG | 20 | Reverse | Â | Â |
SV-0065-F | GCAGAAAGCCTGTCAGGAAC | 20 | Forward | 856 | Sesv_0065 |
SV-0065-R | CACCGGGTTAAAAGGGATCT | 20 | Reverse | Â | Â |
SV-1374-F | TTTTACGGTCTGGGAAGCGAC | 21 | Forward | 623 | Sesv_1374 |
SV-1374-R | TATGCGGATTAACCGCCTGC | 20 | Reverse | Â | Â |
SV-0106-F | GGGCCTGCATTTCTTGTCTA | 20 | Forward | 935 | Sesv_0106 |
SV-0106-R | GCCCTTTCTGGATAAGACGA | 20 | Reverse | Â | Â |
SV-0279-F | CGCAGGTACGCGTGTTATTA | 20 | Forward | 814 | Sesv_0279 |
SV-0279-R | CCGTCGGTGATATTTTCCAC | 20 | Reverse | Â | Â |
SV-0317-F | GCGCTTAGTCGGCTATTGAC | 20 | Forward | 805 | Sesv_0317 |
SV-0317-R | TACAACCGAATTCACGGACA | 20 | Reverse | Â | Â |
SV-1243-F | GTTTTGCTGGTTTGGCATTTG | 21 | Forward | 742 | Sesv_1243 |
SV-1243-R | GTCGAACGAACCCAGTCCATG | 21 | Reverse | Â | Â |
SV-1046-F | GTATGGCGGCAATCATCGTTG | 21 | Forward | 804 | Sesv_1046 |
SV-1046-R | CCTCCTTGAGGACAGCCAACG | 21 | Reverse | Â | Â |
SV-1509-F | CCAACCGCCTGTACACTTCT | 20 | Forward | 720 | Sesv_1509 |
SV-1509-R | TCGCAGACAACGACTTCATC | 20 | Reverse | Â | Â |
SV-0512-F | GAAGGTGTACCCGCCAGATA | 20 | Forward | 714 | Sesv_0512 |
SV-0512-R | GGTGGTAACGCTGATGGACT | 20 | Reverse | Â | Â |
SV-1129-F | CGTTGTTAAATGCGTGGTTG | 20 | Forward | 987 | Sesv_1129 |
SV-1129-R | GGCTGGTAACGACTGGAAAA | 20 | Reverse | Â | Â |
SV-0619-F | TTTCACCGATGAACCCGTGAC | 21 | Forward | 760 | Sesv_0619 |
SV-0619-R | CGACGGATATGATCGCTCCAG | 21 | Reverse | Â | Â |
C1-F1 | GATGTAGTGCGGATAATGCT | 20 | Forward | 1405 | CRISPR-1 |
C1-R1 | CTCATCTCCCCAGATTTTTG | 20 | Reverse | Â | Â |
C1-F2 | CGTAACGTTTAAGCGTGGAAAG | 22 | Forward | 399 | CRISPR-1 |
C1-R2 | CGCTTACGATACAATGATGGTC | 22 | Reverse | Â | Â |
C1-F3 | CAGTCACAATCTTTTGCGGC | 20 | Forward | 1497 | CRISPR-1 |
C1-R3 | GTTTCTTTTCTTCCTGTTG | 19 | Reverse | Â | Â |
C1-F4 | TCCCACTTATCAAATTTAGCC | 21 | Forward | 578 | CRISPR-1 |
C1-R4 | GCCATCGTAGCGGATTTCAGA | 21 | Reverse | Â | Â |