Multiple-locus, variable number of tandem repeat analysis (MLVA) of the fish-pathogen Francisella noatunensis

BMC Veterinary Research

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.

ISSN: 1746-6148