TABLE 1.
VNTR markers attributes and primers selected for amplification of VNTRsa
| Locus (alias) and primer | Sequence (5′ to 3′) | Locus name in CT18 | Product size (bp) in CT18 (copy no.) | Alias in Ty2 | Product size (bp) in Ty2 (copy no.) | Alias in LT2 | Product size (bp) in LT2 (copy no.) |
|---|---|---|---|---|---|---|---|
| Sal02 L | GGAAAGACTGGCGAACAAAT | CT18_0666_6 bp | 149 (10) | Ty2_2315_6 bp | 179 (15) | LT2_0681_6 bp | 107 (3) |
| Sal02 R | TCGCCAATACCATGAGTACG | ||||||
| Sal04 L | TCGCACAGATGACCAATTTT | CT18_0740_20 bp | 194 (2) | Ty2_2240_20 bp | 194 (2) | LT2_0764_20 bp | 174 (1) |
| Sal04 R | GATCGACGCTCACTGCTTC | ||||||
| Sal06 L | TTGGTCGCGGAACTATAACTG | CT18_0764_6 bp | 174 (5) | Ty2_2216_6 bp | 180 (6) | LT2_0789_6 bp | 162 (3) |
| Sal06 R | CTTCGTCTGATTGCCACTCC | ||||||
| Sal10 L | AAGCGACGTTCTTCTGCAAC | CT18_2016_12 bp | 196 (2) | Ty2_1009_12 bp | 196 (2) | LT2_2053_12 bp | 208 (3) |
| Sal10 R | TGGAATATGATGGCATGACG | ||||||
| TR1c (Sal11) L | GCCAACGATCGCTACTTTTT | CT18_2017_7 bp | 239 (12) | Ty2_1009_7 bp | 232 (11) | LT2_2053_7 bp | 169 (2) |
| TR1c (Sal11) R | GCGCATACTACACCGATCAC | ||||||
| Sal15 L | GTGACCGGTTGAGTTTGCAT | CT18_2917_12 bp | 189 (2) | Ty2_2903_12 bp | 189 (2) | LT2_3067_12 bp | 201 (3) |
| Sal15 R | GGCAGGTTGTACCAGTTCGT | ||||||
| STTR5d (Sal16) L | CCATGGCTGCAGTTAATTTCT | CT18_3041_6 bp | 224 (14) | Ty2_3027_6 bp | 236 (16) | LT2_3184_6 bp | 230 (15b) |
| STTR5d (Sal16) R | TGATACGCTTTTGACGTTGC | ||||||
| Sal20 L | CAGCCGACACAACTTAACGA | CT18_3643_3 bp | 193 (16) | Ty2_3629_3 bp | 196 (17) | LT2_4301_3 bp | 175 (10) |
| Sal20 R | ACTGTACCGTGCGCGTTT | ||||||
| TR5c (Sal22) L | GCCAGAGGGTTCATTTTCAA | CT18_4624_7 bp | 184 (6) | Ty2_4607_7 bp | 170 (4) | LT2_4645_7 bp | 163 (3) |
| TR5c (Sal22) R | ATGCGACGCCGTTTTACTAC | ||||||
| Sal23 L | CCCGCACACTAAGGAGAGAC | CT18_4738_12 bp | 262 (3.3) | Ty2_4721_12 bp | 262 (3.3) | LT2_4774_12 bp | 250 (3b) |
| Sal23 R | ACCGCGTTAGTGGCTAACAT |
a
Description and nomenclature refer to genome sequence data for serovars Typhi (CT18 and Ty2) and Typhimurium (LT2) and tandem repeat finder analysis.
b
The LT2 strain used in the study as a reference control (CIP 86-62, ATCC 43971) harbors 13 and 4 repetitions at loci STTR5 and Sal23, respectively.
c
Previously characterized (18).
d
Previously characterized (20).