Table 1 Genetic diversity of 206 S.enterica isolates assessed by MLVA using 11 markers
Locus (alias) | Reference strain _genome position_ repeat (bp) _ copy number | Number of alleles | Allele size range in bp | HGDIa | |||
|---|---|---|---|---|---|---|---|
All (n = 206) | Human (n = 45) | Animal (n = 133) | Food (n = 28) | ||||
Sal06 | LT2_789139_6bp_3U | 3 | 3, 5 (162 - 174) | 0.463 | 0.524 | 0.200 | 0.359 |
Sal10 | LT2_2053093_12bp_3U | 3 | 1, 2, 3 (184 - 208) | 0.128 | 0.044 | 0.178 | 0.000 |
Sal15 | LT2_3067414_12bp_3U | 3 | 2, 3 (189 - 201) | 0.367 | 0.411 | 0.139 | 0.313 |
Sal20 | LT2_4301685_3bp_10U | 11 | 10,12, 13, 15, 16, 17, 18, 19, 20, 21, 24 (175 - 217) | 0.805 | 0.627 | 0.743 | 0.761 |
Sal23 | LT2_4774034_12bp_3U | 3 | 3, 4 (250 - 262) | 0.520 | 0.244 | 0.485 | 0.519 |
STTR3 | LT2_3629458_33bp_14U | 12 | 9, 10, 11.5, 12, 13, 14, 15, 16, 17, 18, 22 (325 - 754) | 0.828 | 0.548 | 0.782 | 0.815 |
STTR5 (Sal16) | LT2_3184503_6bp_15U | 17 | 6, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 19, 20, 21, 22, 23, 25 (205 - 319) | 0.882 | 0.855 | 0.845 | 0.915 |
STTR7 | LT2_1039431_39bp_8U | 8 | 2, 5, 6, 7, 8, 9, 10 (360 - 672) | 0.739 | 0.455 | 0.779 | 0.735 |
STTR8 | LT2_3414008_116bp_7U | 10 | 2, 3, 4, 5, 6, 7,10 (345 - 1273) | 0.830 | 0.551 | 0.830 | 0.755 |
TR1 (Sal 11) | LT2_2053579_7bp_3U | 2 | 3, 5 (191 - 205) | 0.243 | 0.469 | 0.000 | 0.000 |
TR5(Sal 22) | LT2_4645085_7bp_3U | 2 | 3, 4 (173 - 180) | 0.243 | 0.469 | 0.000 | 0.000 |
Total | 0.988 | 0.894 | 0.985 | 0.985 | |||
Genotypes | 107 | 16 | 75 | 24 | |||