Table 1.
Description of Yersinia polymorphic markers
| Expected | Estimated | Number | Total | |||||||
| Marker | U | N | % GC | V | Primer sequences | PCR | product | size range | of Alleles | number |
| length (bp) | (bp) | in | of | |||||||
| Y.pestis | alleles | |||||||||
| Markers polymorphic in Yersinia pestis strains | ||||||||||
| yp0120ms01 | 18 | 8 | 34 | 86 | L: CTAAGCACAATTGTTATGCTGAACC | 228 | 180 - 280 | 3 | 4 | |
| R: TACTGAATCTGCTTCATTGTTCAAA | ||||||||||
| yp1290ms04 | 17 | 8 | 27 | 96 | L: CGCTGTTGAAGTTTTAGTGTAAGAA | 230 | 160 - 240 | 3 | 5 | |
| R: AAATGTAACCTGCCAAACGTG | ||||||||||
| yp1935ms05 | 17 | 11 | 36 | 87 | L: CCTCAGTTCATTGTGTAAAATCTCA | 291 | 190 - 300 | 2 | 4 | |
| R: GTATTAGCGAGATCACAGATGAGC | ||||||||||
| yp2769ms06 | 60 | 9 | 48 | 64 | L: AATTTTGCTCCCCAAATAGCAT | 90 s | 606 | 370 - 2500 | 3 | 5 |
| R: TTTTCCCCATTAGCGAAATAAGTA | ||||||||||
| yp2916ms07 | 10 | 9 | 44 | 85 | L: ATACCGCTACGATCAGCCTCTAT | 184 | 150 - 200 | 2 | 4 | |
| R: ATTTAATATTGATTTTGGGACTTGC | ||||||||||
| yp3057ms09 | 18 | 33 | 65 | 91 | L: CGTTACCCTTGTTGCCAATAGT | 90 s | 682 | 500 - 820 | 3 | 5 |
| R: ACGCAGAACATGCTTACCTTTTAT | ||||||||||
| yp0559ms15 | 15 | 10 | 30 | 62 | L: TTGACCAAGTGTAAAAGGCATAAAT | 237 | 225 - 250 | 2 | 2 | |
| R: AAACTATCGCCAGCCATTTTAGTA | ||||||||||
| yp1814ms20 | 15 | 9 | 47 | 74 | L: ACAACCTCAGTTTGCCCTTG | 253 | 230 - 250 | 2 | 2 | |
| R: GTAAAGAGCGCAATGATCGTACT | ||||||||||
| yp1895ms21 | 18 | 9 | 51 | 76 | L: GCTTAAAGCAGATTGATACTCACG | 278 | 220 - 350 | 3 | 5 | |
| R: CTGCATGTTCACCGGTTCAG | ||||||||||
| yp4042ms35 | 15 | 8 | 41 | 59 | L: CTGTTACCGGTCAAAGTGGATATT | 204 | 195 - 225 | 2 | 3 | |
| R: AGGCTCTCCTTATCATTATTTGGTC | ||||||||||
| yp4425ms38 | 16 | 8 | 41 | 86 | L: GTGAGGTATAGCTAAACGGTGATGT | 233 | 200 - 380 | 3 | 5 | |
| R: CGCCGTAGATTATTTGTCACTTTAT | ||||||||||
| yp0581ms40 | 17 | 7 | 28 | 76 | L: GCAATCATTCACCTAACCATATCTC | 214 | 220 - 240 | 2 | 2 | |
| R: GTGCAATAGGCGTTGTTGTGTA | ||||||||||
| yp0718ms41 | 17 | 7 | 41 | 75 | L: GAAGAAAGCCAGCTAATCTGATG | 217 | 180 - 220 | 2 | 2 | |
| R: TAATGAATAGCAACGACAACCAATA | ||||||||||
| yp1018ms44 | 17 | 7 | 38 | 61 | L: CAATTCCAACAGCTATTAATGCAA | 233 | 220 - 260 | 2 | 3 | |
| R: GAATTTTCATAACACGTTCTTCCTG | ||||||||||
| yp1108ms45 | 12 | 7 | 65 | 79 | L: GCATCGGAGACTGGGTAAAC | 161 | 120 - 170 | 3 | 4 | |
| R: TTTCTGAGGATTTATCGGTGTGAT | ||||||||||
| yp1335ms46 | 17 | 7 | 33 | 73 | L: CAGGTTTTACGTTATTTTCTGAAGG | 252 | 230 - 310 | 3 | 4 | |
| R: CAGCATGAAGTATGACGGGTATATTA | ||||||||||
| yp2058ms51 | 18 | 7 | 37 | 65 | L: GGTTTTTACCGATATAAATCCTGAG | 207 | 190 - 210 | 2 | 2 | |
| R: GACCAAGAAGTTAAGTTGCTTATCG | ||||||||||
| yp2612ms54 | 22 | 7 | 28 | 82 | L: GTCCACCATTTTCATACTGTCACTT | 281 | 250 - 300 | 2 | 3 | |
| R: GCTCTTTGTTCGATTTTATTGAATG | ||||||||||
| yp3060ms56 | 16 | 7 | 21 | 81 | L: AACCGACTGACTCACTTTATATTGG | 220 | 180 - 250 | 2 | 4 | |
| R: TTCTTTTCCATTACTCAGCCTGTT | ||||||||||
| yp4280ms62 | 9 | 7 | 33 | 60 | L: TTTAGTCTTGATTAAGCTGCGTTTT | 240 | 220 - 310 | 3 | 5 | |
| R: ACGGAAGACAACCTTATTATTGATG | ||||||||||
| yp1118ms69 | 16 | 6 | 39 | 82 | L: GACGTTGCAACTGCAAAAATAAG | 179 | 165 - 180 | 2 | 2 | |
| R: ACTTGTTGTGAAGACCATCACTCT | ||||||||||
| yp1580ms70 | 9 | 6 | 32 | 97 | L: AAACCAACGGTTCATATTGAATAAA | 146 | 140 - 170 | 3 | 5 | |
| R: CTTCTTCCGCTATTTTCCTACAGA | ||||||||||
| yp1925ms71 | 14 | 6 | 45 | 91 | L: GCTACTCGAATATGAGTTAGCCAAA | 171 | 145 - 210 | 2 | 4 | |
| R: ATTGCCATATTGGATGCTAAAATAA | ||||||||||
| yp3236ms73 | 18 | 6 | 40 | 89 | L: AATACCCTGTGGGTGATAATGAAC | 225 | 175 - 230 | 2 | 3 | |
| R: ATCGATTTAGGTACCACCAATTCA | ||||||||||
| yp3245ms74 | 15 | 6 | 44 | 83 | L: CCCCGACTTATATCAAGCACTG | 195 | 180 - 225 | 3 | 3 | |
| R: AACTGACGATCTTTTTCACTGAGTT | ||||||||||
| Markers polymorphic in 5 Yersinia strains (monomorphic in pestis) | ||||||||||
| yp0802ms02 | 18 | 12 | 49 | 86 | L: CTGACACAAAACGAGAGCCTATTT | 53°C | 314 | 240 - 315 | 1 | 2 |
| R: AGCGTGAGTGGGCTATCAATAC | 1 min | |||||||||
| yp2925ms08 | 15 | 12 | 39 | 63 | L: AGCCTTTTTGTTGATTATCAGTCAT | 270 | 270 - 290 | 1 | 2 | |
| R: CGATAATAATACTGAATTACCGGATG | ||||||||||
| yp4411ms10 | 14 | 8 | 32 | 69 | L: ATCATGCTTTTGCCTCAATATAATC | 191 | 190 - 210 | 1 | 2 | |
| R: GAAACGCAGTCCCTGTTGTAG | ||||||||||
| yp0813ms16 | 17 | 8 | 39 | 64 | L: GTTGGTTATCCGACAGTCTTCAATA | 235 | 230 - 270 | 1 | 2 | |
| R: GCAATTCGTTATGGCTTAGTAAAAA | ||||||||||
| yp1269ms18 | 27 | 9 | 54 | 55 | L: GCAAAAGCTGAAGCAGATAAAATAG | 303 | 220 - 250 | 1 | 2 | |
| R: AAACCACCAAACAAATCATCAAC | ||||||||||
| yp2196ms22 | 20 | 8 | 12 | 55 | L: AAACCAACAAGAAAACTGTAACCAC | 90 s | 265 | 270 - 1500 | 1 | 2 |
| R: CATTCACCATTGATGTCCTTAGAC | ||||||||||
| yp2324ms24 | 19 | 8 | 34 | 65 | L: TTCACCGGGTTACCTTAATTACATA | 255 | 215 - 255 | 1 | 2 | |
| R: CTACCTTGCTGTCAACACTCGAC | ||||||||||
| yp2331ms25 | 17 | 9 | 36 | 76 | L: AACGCGTTAATAAAACAATAAAGTG | 181 | 190 - 230 | 1 | 3 | |
| R: CAATATCCTTTTACTCAGCCGATG | ||||||||||
| yp2679ms27 | 16 | 8 | 20 | 76 | L: ATGATTACTGGCAAGAGCACTATGT | 217 | 200 - 220 | 1 | 2 | |
| R: AACAAGATCACCTGGTCGTTAAA | ||||||||||
| yp2908ms28 | 18 | 8 | 40 | 69 | L: GCAGAAATAATCTTCAGGAGAAACA | 242 | 190 - 290 | 1 | 2 | |
| R: AGATCGTCGTTAGTCCATGTCAG | ||||||||||
| yp2958ms29 | 16 | 8 | 23 | 61 | L: AAAATAGTCTGTGTTTCAGCAAAGC | 215 | 215 - 245 | 1 | 2 | |
| R: CCTTAAAAACCCTAAGTGGGTAAAA | ||||||||||
| yp3225ms30 | 54 | 11 | 51 | 52 | L: CAATAATACCATCGTGCGTGATAC | 683 | 680 - 900 | 1 | 2 | |
| R: TATTAATGGTGGTGTTAGTCGCTGT | ||||||||||
| yp3532ms31 | 14 | 8 | 30 | 67 | L: GTTATTTATTTTTGCCCCAACTTGT | 217 | 215- 245 | 1 | 2 | |
| R: TTAGCCTGTTTGTTCTTCAAATAGC | ||||||||||
| yp3787ms32 | 18 | 8 | 49 | 65 | L: CGATAACGTTAATGCCATCAGTAG | 218 | 190 - 240 | 1 | 3 | |
| R: GCGCCGGTAAGTTTTGTTTATTA | ||||||||||
| yp3795ms33 | 15 | 8 | 43 | 67 | L: CCCTTCTTTTTATGCTTGAAGATACT | 210 | 210 - 225 | 1 | 2 | |
| R: GTTGAACCACAGGCTGTTGAG | ||||||||||
| yp4371ms37 | 18 | 8 | 35 | 82 | L: TACTTAGGCATTGTCTCTTCACTCC | 235 | 235 - 255 | 1 | 2 | |
| R: CTGAAATTATCAGTAGGTGGTTCGT | ||||||||||
| yp0999ms43 | 17 | 7 | 38 | 80 | L: ATTCCACCACCAACAATTATCAC | 211 | 220 - 300 | 1 | 3 | |
| R: GGTATTCGTATTGAAGATGACATTG | ||||||||||
| yp1962ms50 | 18 | 7 | 34 | 71 | L: TACCGAGGTATTCCCTGGTCTAAT | 225 | 225 - 240 | 1 | 2 | |
| R: AGTTGACTCCCAGTCACTTTTCC | ||||||||||
| yp3734ms59 | 16 | 7 | 36 | 69 | L: ATTATCATGACCCTTCCAGTGCTAT | 218 | 200 - 220 | 1 | 2 | |
| R: CATCAAAATGCCAGGAGAGTAAC | ||||||||||
| yp4338ms63 | 17 | 7 | 38 | 72 | L: ATTAACGATTTCTTGTCGCTCAGT | 194 | 190 - 275 | 1 | 3 | |
| R: AATCAGTAACGGCATGTGTCAGTA | ||||||||||
| yp0549ms66 | 18 | 6 | 41 | 83 | L: TAAAAGCGTCAACAAAGTAGGTCAT | 212 | 200 - 220 | 1 | 2 | |
| R: GTTCCTGTTGTTGAAAATGCTG | ||||||||||
| yp0782ms67 | 18 | 6 | 40 | 90 | L: TTCCAGGCTAAAGATATTGACTTTG | 248 | 250 - 270 | 1 | 2 | |
| R: CTCGGCTTGTTCTACGTTTAATG | ||||||||||
| yp1053ms68 | 18 | 6 | 32 | 82 | L: CCGTTATCTGGTGAAAGTGAACAG | 182 | 175 - 205 | 1 | 3 | |
| R: GTCCGGTAGCCTGATTGTTTATT | ||||||||||
| yp3634ms75 | 15 | 6 | 36 | 80 | L: ATGTGAGCTTGATTGCTGAGTAGT | 210 | 180 - 210 | 1 | 3 | |
| R: TCATATTTTAGGTGTTTTGCCTTTG | ||||||||||
Some structural characteristics of the tandem repeats are presented : U (unit length), N (number of repeats), %GC, V (% of conservation). PCR and electrophoresis conditions are as described in the material and methods section : annealing temperature is 60°C, elongation time is 60 seconds and gels are 2% agarose except when indicated otherwise. Total number of alleles means number of alleles in 3 Y. pestis and 2 Y. pseudotuberculosis strains.