TABLE 3.
Overview of the eight Vibrio anguillarum-related gene loci studied and primer sequences
| Locus and size (bp) | Description | Z-scorea | P | Primer name | Primer sequence (5′ to 3′) | Amplicon size (bp) | Source |
|---|---|---|---|---|---|---|---|
| atpA (1,038) | ATP synthase A subunit | −4.039 | 0 | Vib-atpA-01-F | GACGTGATGCAAGGTGAAAT | 1,167 | This study (LMG 4437) |
| Vib-atpA-02-R | TTTCTGCTTCATCAGCTCTG | ||||||
| Vib-atpA-03-R | ACAATCAGTGCATCTTCACC | ||||||
| Vib-atpA-04-F | AGGTTGTGCAATGGGTGAAT | ||||||
| Vib-atpA-05-F | TCATTCGCATTCACGGCCTA | 1,247 | |||||
| Vib-atpA-06-R | CGCTCTGCCGCAAAGATAA | ||||||
| ftsZ (459) | Cell division protein | −5.095 | 0 | Vib-ftsZ-F | CACTAAAGGTTTGGGTGCTGG | 536 | This study (LMG 4437) |
| Vib-ftsZ-R | CCATCTCTGCCGCTTCTTCT | ||||||
| Vib-ftsZ-03-F | TTGGTGGTGGTGGCGGTAA | 678 | |||||
| Vib-ftsZ-04-R | TTGCCATCTCTGCCGCTT | ||||||
| gapA (483) | Glyceraldehyde-3-phosphate dehydrogenase | −2.972 | 0.004 | Vib-gapA-F | AACAGGTCTATTCCTAGACGA | 570 | This study (LMG 4437) |
| Vib-gapA-R | CCGATGAAGTCTTGAGAAAC | ||||||
| gyrB (936) | DNA gyrase subunit B | −4.861 | 0 | Vib-gyrB-F | GTCTGCATGGTGTCGGTGT | 1,092 | Colquhoun et al. 2007 (5) |
| Vib-gyrB-R | CACAGCCTAATGGCGGTATA | ||||||
| Vib-gyrB-1 | CATTTACTGCTTTACCAA | ||||||
| Vib gyrB-4 | CTAGAGAACTTAGGATCC | ||||||
| mreB (543) | Rod shape-determining protein | −4.221 | 0 | Vib-mreB-F | AAGCGTTGCTGCTGTCGGTC | 772 | This study (LMG 4437) |
| Vib-mreB-R | GCAACCATCACCGCAGAAAC | ||||||
| pyrH (513) | Uridylate kinase | −3.249 | 0.002 | pyrH-02-R | GTRAABGCNGMYARRTCCA | Thompson et al. (17) | |
| pyrH-04-F | ATGASNACBAAYCCWAAACC | ||||||
| Vib-pyrH-05-F | AGCCTATCAACGTATCCTGT | 587 | This study (ATCC 43312) | ||||
| Vib-PyrH-06-R | CAGGTCCATCACTTTTAGCT | ||||||
| rpoA (801) | RNA polymerase alpha subunit | −2.251 | 0.03 | Vib-rpoA-07-F | TCTTAAGCCACGTCTTGTTG | 919 | This study (LMG 4437) |
| Vib-rpoA-08-R | AGATAGACCACGTGATGCAA | ||||||
| Vib-rpoA-09-R | TGGGCTGTAAGTAGCATCTA | ||||||
| Vib-rpoA-10-F | GATCGCTATGCGTATCAAAG | ||||||
| topA (438) | Topoisomerase I | −2.941 | 0.004 | Vib-topA-F | GTTTCATGGACCGTGTGGTG | 532 | This study (LMG 4437) |
| Vib-topA-R | GCTTGTCCAAACTCACTCCC | ||||||
| Vib-topA-03-F | CAATCCAACAAGCCTTCCAA | 621 | |||||
| Vib-topA-04-R | CGGATTCTCAGGTAAGTAGGCTT |
a
Results of a codon-based Z-test of selection for each gene locus.