Table 1.
Primary CAPS marker panel for bulked segregant analysis
| Marker name | Primers | Amplicon (Contig #: bp coordinates) | DNA fragment sizes (bp) | |
|---|---|---|---|---|
| Oak Ridge | Mauriceville | |||
| 1–23-MspI | CACAAGTTCACGCCTTGTCC
CTCGTTCATGGCGTAGAAGC |
7.39: 245326–245800 | 144/331 | 475 |
| 1–30-BamHI | TTCTTTCTCCGCTACTTCCGT
TCACAGAGTCCATGCCAGAAA |
7.59: 119075–119538 | 176/177 | 353 |
| 1–59-HaeIII | CACCGTCCCTAAACTCCATAA
TTGACTGTTCATCTGCCCACT |
7.3: 817717–818265 | 249/300 | 549 |
| 1–110-HaeIII | CCGTTGATCATGATGTGACA
ACAAAAAGAACGCTGCTCCC |
7.9: 362428–362948 | 228/293 | 521 |
| 1–185-TaqI | CGAGGCACATATCCGCAGA
AATAGCACCGCTCTTGCCA |
7.2: 274637–274940 | 148/156 | 304 |
| 1–226-DpnII | AATATCAATGGTCTGGCCCT
TCTCTACACTGTCAAGCACGG |
7.7: 802187–802427 | 110/131 | 241 |
| 2–36-PvuI | CTCCGGATGAGGTTGCCG
GTGCGGGCTTAACCGCTG |
7.8: 792192–793755 | 768/784 | 1552 |
| 2–60-DpnII | TCCTTCTCTACACCTCTGGCT
TGGGAGCAACGTAGAACTGA |
7.33: 287494–287790 | 297 | 148/149 |
| 2–88-TaqI | CCGACAAGCATCTGGCTCT
TTCTTCCTCGCACCCTCCTT |
7.5: 62054–62327 | 98/176 | 274 |
| 2–105-HhaI | TGCAACGAGATCCCAGACTAT
ACTGGTCCAAGGTCACCAAAT |
7.71: 66401–66681 | 132/149 | 281 |
| 3–17-AluI | CTTTGGGCGGTCAACTCCA
CAGGGCAACTTGTTTGGGC |
7.42: 202777–203079 | 96/207 | 303 |
| 3–52-EcoRI | GGGCGATGAGCAACAAATAA
ACAAAGTCTTACTGCCATGCG |
7.25: 33816–34195 | 189/191 | 380 |
| 3–102-Tsp509I | GAGCCAGAACTTGGTTGTGAT
ATTCTTCCATATTCCACCCCC |
7.67: 55700– 555988 | 152/137 | 289 |
| 4–2-MspI | CCATCCCCAAGCTTCTCAA
TGTGTGGTATCGCTTTCAACT |
7.79: 61171–61527 | 357 | 175/182 |
| 4–35-AluI | TGTCGATGGCACCCGTCT
TGAGGAGTTCGCCGTCAA |
7.18: 35189–35487 | 299 | 142/157 |
| 4–70-BamHI | TGGAGGGATTTGTGTCAAGGT
CGTATAGCTTGCCTCGTCGA |
7.53: 90510–90919 | 410 | 201/209 |
| 4–120-BglII | AATATCCTTCACCACCGTGGC
AATCCTTAAGCACCCCTTGG |
7.19: 771981–772470 | 242/248 | 490 |
| 5–27-TaqI | TCCTCTCCCTGTACTCGTCCA
CCCCCTTGTCCGTCAAGTA |
7.64: 47023–47419 | 198/199 | 397 |
| 5–98-Tsp509I | AAACCCATACCGAGGAGGA
GCGTGGTCTGTGACATCTACA |
7.11: 6101398–610423 | 113/173 | 286 |
| 5–135-HpaI | ATCCCTCCATCTAAAAGCTCA
CCCCTGATCATCGATCTCGT |
7.31: 259764–260117 | 170/184 | 354 |
| 5–175-DpnII | CCGAGCCAGGATTGTCA
ATCTGCATGTTGCCATCCGT |
7.13: 40616–40913 | 298 | 88/210 |
| 5–220-MspI | TAAGCCCAACGGCACTGT
AAAAAAGACCGTTGACGCCA |
7.48: 153273–153700 | 181/247 | 428 |
| 6–12-XhoI | GGTCCGCAGGTCTTACTTTAA
TCCGACAATGTTCAAACGCT |
7.16: 154977–155546 | 283/287 | 570 |
| 6–39-HaeIII | CCCGCTCCAAGTTCTACTCTT
GGTCTTCGGTCTGGACGTG |
7.22: 187185–187397 | 213 | 92/121 |
| 6–68-MspI | ATGTCTTGGGTGTTTGGCAT
TCCTCAAGATCGTCACTCAGC |
7.4: 334316–335039 | 724 | 216/508 |
| 6–95-KpnI | GAAAATGTCAACTTTGTTGCG
ATGAACGAATCAATGCCTCC |
7.4: 1131921–1132292 | 163/209 | 372 |
| 7–15-HaeIII | TAGCCATACCTGGTTTGAGGG
AACAGGTCCTTCCAGCGAGAT |
7.66: 11810–12098 | 289 | 125/164 |
| 7–40-DpnII | AAAGCTTGCGAGACGTCGGAT
TTAGAGCGCCAAGACACCAA |
7.21: 577678–578059 | 155/227 | 382 |
| 7–68-Tsp509I | ATGTTGCCTTTAAGCCCCA
GACCCATAGCCGCAAGGAT |
7.10: 232320–232919 | 600 | 295/305 |
| 7–94-HhaI | ATTGTCTCCTTGCATCCCGTT
CGAGGAGGAGGAGTCCAAGTA |
7.23: 348305–348727 | 68/355 | 423 |