From: Association mapping in sunflower for sclerotinia head rot resistance
Source of selection | Target locus | Sunflower gene IDa | Sequence lengthb | SNPs in CSc | Indels in CSd | Haplotypes in CSe | Genotyping methodf | Primers for AMP genotyping |
---|---|---|---|---|---|---|---|---|
B. napus expression | At1g34580 | HaMT | 580 (191) | 8 (8) | 3 (11) | 3 (2) | FCE | F:5′GAAAGGACATGCTACTTTATGG3′ |
R:5′CTTTACTTGAATTAAAGTTACT3′ | ||||||||
profile | At5g51550 | HaPRP1 | 431 | 0 | - | 1 | ||
HaPRP2 | 437 (166) | 11 (11) | - | 3 (2) | dHPLC | F: 5′GGACGGGAACGTAAAATAATG3′ | ||
R: 5′CCGTCTGTCCGTACAATCG3′ | ||||||||
At3g48310 | HaCYP450A | 786 | 1 (0) | - | 2 | |||
HaCYP450B | 310 | 2 (0) | - | 2 | ||||
HaCYP450C | 400 (260) | 2 (2) | 1 (1) | 2 (6) | dHPLC | F: 5′AAGTGACTTTAGCAACGTCC3′ | ||
R: 5′GAGTTGGTATGGGTGGATGAA3′ | ||||||||
At5g05940 | HaROPGEF1 | 447 | 12 (11) | 3 (50) | 4 | |||
HaROPGEF2 | 403 (197) | 2 (2) | 2 (11) | 2 (2) | FCE | F: 5′TGCGTAGTGGTTCTAAAATTGG3′ | ||
R: 5′CGTCAATCATTACCCCAACC3′ | ||||||||
HaROPGEF3 | 801 | 0 | - | 1 | ||||
At1g48040 | HaPP2C | 514 (398) | 4 (4) | - | 2 (4) | Direct sequencing | F: 5′ACTGGGACTACGGCATTGAC3′ | |
R: 5′TGCTGAATTTCTGGCTCTGA3′ | ||||||||
At1g04450 | HaRIC_A | 940 (261) | 8 (8) | 4 (6) | 3 (2) | FCE | F: 5′GCACGAATAGTGACATTGAAAC3′ | |
R:5′ACATAAAACAGTTTTCGGTCC3′ | ||||||||
HaRIC_B | 1424 (537) | 12 (0) | 2 (15) | 3 (3) | FCE | F: 5′GGCTTGCGTTACATCTCTGA3′ | ||
R: 5′CCCAACTAGGAGCATTGGAA 3′ | ||||||||
At1g03687 | HaHP1 | 198 | 0 | 1(1) | 1 | |||
At4g09180 | HaHP2 | 309 (256) | 1 (1) | - | 2 (5) | Direct sequencing | F: 5′CTGCTATCCAGGCTCATTCA3′ | |
R: 5′AGAATGGCAGGGCGACCAAG3′ | ||||||||
At1g13200 | HaFbox1 | 265 | 11 (11) | - | 3 | |||
HaFbox2 | 262 | 8 (5) | 1 (1) | 5 | ||||
At1g14687 | HaZFHD | 166 (166) | 9 (7) | - | 4 (9) | Direct sequencing | F:5′TCATGCCCTCACTAACATGC 3′ | |
R: 5′TTTGTCCGGAATCTTTTTCG 3′ | ||||||||
Sunflower EST library | TC49193 | HaDRP | 587 | 14 (12) | 1 (1) | 2 | ||
BQ973243 | HaCP | 542 | 14 (10) | - | 3 | |||
- | HaGDPDI | 620 (707) | 18 (14) | 2 (2) | 3 (10) | Direct sequencing | F: 5′CAGAAACTGATCAACCCGAAA 3′ | |
R: 5′TGCATGCATCTTGGAAAATAG 3′ | ||||||||
- | HaCWP | 351 (177) | 4 (4) | 3 (10) | 2 (2) | FCE | F: 5′CAGGAATCACGGTCCCTAGT3′ | |
R: 5′TGAAACATGAGGGATGAGCA3′ | ||||||||
TC42391 | HaPI | 658 (235) | 14 (9) | 3 (4) | 5 (2) | FCE | F: 5′TCCAACAGTGTGTGACCTTTG3′ | |
R: 5′CATTAGTTACGTTACAAAGCTAT3′ | ||||||||
TC57179 | HaPAL | 343 (343) | 2 (2) | - | 2 (2) | dHPLC | F:5′TGTGGTCTTCAAATTCATTAATAAC3′ | |
R: 5′GGCCATTCCTAACAGGATCA3′ | ||||||||
Defense responses | CF088675 | HaWRKY5 | 1395 (227) | 39 (33) | 14 (56) | 8 (6) | FCE | F: 5′CCGATCAAAGGCTCAATCTA3′ |
R: 5′CACATCCGCTAGTTCACACC3′ | ||||||||
BU016906 | HaWRKY7 | 1163 (174) | 1 (1) | 2 (22) | 3 (2) | FCE | F: 5′CATTGTTGGTCAACCCTGTG3′ | |
R: 5′AGGGAAGCATAACCATGACG3′ | ||||||||
EU112647 | HaGLP1 | 876 | 0 | 3 (3) | 3 | |||
AJ540203 | HaGLP2 | 794 | 6 (6) | - | 2 | |||
TC17527 | HaGLP3 | 621 | 13 (9) | - | 6 | |||
TC18217 | HaGLP4 | 761 (209) | 9 (2) | 3 (11) | 4 (4) | FCE | F: 5′TGGCTGCAACAACTTTCCTT3′ | |
R: 5′TTCAATCCAGAAACAAACTTCTAA3′ | ||||||||
TC17648 | HaGLP5 | 1710 | 2 (1) | 2 (3) | 3 |