Table 3.
Primers used to amplify the VNTR regions included in the study.
| Primer-name | Sequence | Tm°C | Target | Optimized Tm° | Amplicon size |
|---|---|---|---|---|---|
| Fnn-VNTR1F | ATCTTGGAAATTAACTACTTTC | 46.1 | VNTR no 1 | 55 | 211 |
| Fnn-VNTR1R | ACCTTTTTCTACACCAATAG | 47.2 | |||
| Fnn-VNTR2F | GTAAACGTAGTTTTTGGAAGTCCAT | 53.7 | VNTR no 2 | 54 | 217 |
| Fnn-VNTR2R | GGATGGCAATCTTGTGTAAA | 50.7 | |||
| Fnn-VNTR3F | CAAACCTTCATCTCCACTAC | 50.4 | VNTR no 3 | 50 | 212 |
| Fnn-VNTR3R | TGCTCTTTTCCCTCTATATA | 47.2 | |||
| Fnn-VNTR4F | AGTTTCATTTATCAGGTGAC | 47.5 | VNTR no4 | 54 | 311 |
| Fnn-VNTR4R | AGACTAATAGCCTTCCAAAA | 48.5 | |||
| Fnn-VNTR5F | CTGGACATTAGTATCAGGAT | 48.3 | VNTR no 5 | 55 | 312 |
| Fnn-VNTR5R | GCAGTGGTAACAATTTTAAG | 47.2 | |||
| Fnn-VNTR6F | GCTGTTGGAGATAGTAAATAATTGC | 52.3 | VNTR no 6 | 55 | 301 |
| Fnn-VNTR6R | TTAGCTTCTTTAAGACCAAG | 47.2 | |||
| Fnn-VNTR7F | CTTCTTCTCAACCATACCAG | 50.1 | VNTR no 7 | 54 | 439 |
| Fnn-VNTR7R | ACAAGCATATAGACTTATATTGA | 46.9 | |||
| Fnn-VNTR1-2F | AAATGTAGAGTTTCCATCCAAC | 47.1 | VNTR no 1 | 55 | 613 |
| Fnn-VNTR1-2R | AGTCGTATTTCTGCTTCAATC | 45.6 | |||
| Fnn-VNTR2-2F | CATGGGCTACTTTTGGAATATATAC | 47.7 | VNTR no 2 | 55 | 559 |
| Fnn-VNTR2-2R | TCGGTTTGACTGATGTCATG | 44.6 |
Flanking primers were designed based on preliminary data of the whole genome sequence of F. noatunensis ssp. noatunensis isolate GM2212. The attributes of the primers in the study; primer sequence, optimized annealing temperature (Tm°) and amplicon size of the GM2212 isolate.