Supplementary data: Association mapping for partial resistance to Phytophthora sojae in soybean (Glycine max (L.) Merr.) Jutao Sun, Na Guo, Jun Lei, Lihong Li, Guanjun Hu and Han Xing J. Genet. 93, 355–363 Table 1. Two-hundred and fourteen soybean genotypes used in this study. ID Source (province) Province code ZDD04918 ZDD04959 ZDD20340 ZDD08018 ZDD06358 ZDD06363 ZDD06375 ZDD06377 ZDD06378 ZDD06410 ZDD06413 ZDD06438 ZDD14125 ZDD14190 ZDD21485 ZDD11092 ZDD11159 ZDD19579 ZDD16675 ZDD16682 ZDD16743 ZDD16756 ZDD16771 ZDD16846 ZDD22145 ZDD22188 ZDD22191 ZDD22207 ZDD06803 ZDD16954 ZDD17233 ZDD06562 ZDD14911 ZDD14920 ZDD15357 ZDD16282 ZDD04572 ZDD04604 ZDD04620 ZDD11226 Anhui Anhui Anhui Peking Fujian Fujian Fujian Fujian Fujian Fujian Fujian Fujian Fujian Fujian Fujian Gansu Gansu Gansu Guangdong Guangdong Guangdong Guangdong Guangdong Guangdong Guangdong Guangdong Guangdong Guangdong Guangxi Guangxi Guangxi Guizhou Guizhou Guizhou Guizhou Guizhou Jiangsu Jiangsu Jiangsu Jiangsu AH AH AH BJ FJ FJ FJ FJ FJ FJ FJ FJ FJ FJ FJ GS GS GS GD GD GD GD GD GD GD GD GD GD GX GX GX GZ GZ GZ GZ GZ JS JS JS JS ID Source (province) ZDD16362 ZDD16874 ZDD01612 ZDD01629 ZDD01683 ZDD01720 ZDD08190 ZDD08228 ZDD08238 ZDD08251 ZDD08352 ZDD08472 ZDD18524 ZDD18529 ZDD18558 ZDD18632 ZDD18771 ZDD18835 ZDD03153 ZDD03237 ZDD03293 ZDD03533 ZDD03540 ZDD03570 ZDD10100 ZDD19409 ZDD00041 ZDD00294 ZDD00310 ZDD00326 ZDD06851 ZDD07088 ZDD05494 ZDD05502 ZDD05572 ZDD05920 ZDD02990 ZDD03026 ZDD03106 ZDD19131 Guizhou Hainan Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Hebei Henan Henan Henan Henan Henan Henan Henan Henan Heilongjiang Heilongjiang Heilongjiang Heilongjiang Heilongjiang Heilongjiang Hubei Hubei Hubei Hubei Shandong Shandong Shandong Shandong Province code GZ HN HeB HeB HeB HeB HeB HeB HeB HeB HeB HeB HeB HeB HeB HeB HeB HeB HeN HeN HeN HeN HeN HeN HeN HeN HLJ HLJ HLJ HLJ HLJ HLJ HuB HuB HuB HuB SD SD SD SD Journal of Genetics, Vol. 93, No. 2, August 2014 ID ZDD11581 ZDD11586 ZDD11588 ZDD11624 ZDD11703 ZDD11866 ZDD11951 ZDD12023 ZDD12322 ZDD20532 ZDD06515 ZDD06528 ZDD06543 ZDD14505 ZDD14782 ZDD14783 ZDD00603 ZDD00610 ZDD00638 ZDD00698 ZDD00709 ZDD07218 ZDD07610 ZDD03728 ZDD03733 ZDD03739 ZDD03740 ZDD03741 ZDD03776 ZDD03842 ZDD03868 ZDD03969 ZDD04092 ZDD04275 ZDD04429 ZDD04430 ZDD12386 ZDD12389 ZDD12400 ZDD12407 Source (province) Province code Hubei Hubei Hubei Hubei Hubei Hubei Hubei Hubei Hubei Hubei Hunan Hunan Hunan Hunan Hunan Hunan Jilin Jilin Jilin Jilin Jilin Jilin Jilin Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Jiangsu Sichuan Sichuan Sichuan Sichuan HuB HuB HuB HuB HuB HuB HuB HuB HuB HuB HuN HuN HuN HuN HuN HuN JL JL JL JL JL JL JL JS JS JS JS JS JS JS JS JS JS JS JS JS SC SC SC SC Supplementary data, J. Genet. 93, 355–363 Table 1 (contd) ID Source (province) Province code ZDD11255 ZDD11323 ZDD19699 ZDD06454 ZDD06461 ZDD06475 ZDD06494 ZDD06501 ZDD14228 ZDD14240 ZDD14252 ZDD14409 ZDD21907 ZDD00854 ZDD00921 ZDD00932 ZDD01060 ZDD01124 ZDD01169 ZDD01402 ZDD01421 ZDD01489 ZDD08120 ZDD02626 ZDD02764 ZDD02864 ZDD02866 ZDD02891 ZDD02892 ZDD02913 ZDD02921 ZDD02940 Jiangsu Jiangsu Jiangsu Jiangxi Jiangxi Jiangxi Jiangxi Jiangxi Jiangxi Jiangxi Jiangxi Jiangxi Jiangxi liaoning liaoning liaoning liaoning liaoning liaoning liaoning liaoning liaoning Ningxia Shandong Shandong Shandong Shandong Shandong Shandong Shandong Shandong Shandong JS JS JS JX JX JX JX JX JX JX JX JX JX LN LN LN LN LN LN LN LN LN NX SD SD SD SD SD SD SD SD SD ID Source (province) Province code ZDD19144 ZDD19293 ZDD19381 ZDD01983 ZDD02096 ZDD02114 ZDD02134 ZDD02149 ZDD02159 ZDD02315 ZDD02400 ZDD08633 ZDD08690 ZDD08697 ZDD08728 ZDD08928 ZDD08986 ZDD09136 ZDD09279 ZDD19027 ZDD03603 ZDD10186 ZDD10252 ZDD10270 ZDD10359 ZDD10430 ZDD10539 ZDD10572 ZDD10615 ZDD10812 ZDD19464 ZDD12331 Shandong Shandong Shandong Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shanxi Shaanxi Shaanxi Shaanxi Shaanxi Shaanxi Shaanxi Shaanxi Shaanxi Shaanxi Shaanxi Shaanxi Sichuan SD SD SD SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX1 SX2 SX2 SX2 SX2 SX2 SX2 SX2 SX2 SX2 SX2 SX2 SC Journal of Genetics, Vol. 93, No. 2, August 2014 ID ZDD12415 ZDD12436 ZDD12453 ZDD12527 ZDD12635 ZDD12680 ZDD12688 ZDD12828 ZDD12836 ZDD12845 ZDD12872 ZDD12910 ZDD13233 ZDD13341 ZDD13401 ZDD13441 ZDD13560 ZDD13636 ZDD13666 ZDD20652 ZDD20671 ZDD20676 ZDD08124 ZDD17325 ZDD17375 ZDD17457 ZDD17574 ZDD17622 ZDD06067 ZDD21440 Source (province) Province code Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Sichuan Xinjiang Yunnan Yunnan Yunnan Yunnan Yunnan Zhejiang Zhejiang SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC SC XJ YN YN YN YN YN ZJ ZJ Journal of Genetics, Vol. 93, No. 2, August 2014 A1 A1 A1 A1 A1 A1 A2 A2 A2 B1 B1 B1 B1 B1 B1 B2 B2 B2 B2 B2 C1 C1 C1 C1 C1 C2 C2 C2 C2 C2 C2 C2 C2 C2 C2 D1a Satt684 Satt572 Satt300 Sat_356 Satt717 SOYNOD26A BE820148 Satt187 Satt214 Satt426 Satt197 Satt332 Sat_123 Satt359 BE801538 Satt577 Satt126 Satt066 Sct_064 Satt726 SOYGPATR Satt396 Satt195 Satt338 Satt164 Satt681 Satt640 Satt281 Sat_336 Satt170 Satt286 Satt277 Satt460 Satt316 Satt357 Sat_332 3.54 14.65 30.93 42.8 51.95 66.8 35.93 54.92 128.44 28.33 46.39 80.89 100.88 102.56 126.51 6.05 27.63 78.84 89.31 100.55 10.34 24.11 84.81 123.79 132.46 3.15 30.47 40.3 51.84 70.56 101.75 107.59 117.77 127.67 151.91 5.25 position 4 8 7 5 4 3 3 8 4 5 6 3 8 3 3 4 2 6 3 4 2 3 5 5 3 4 3 7 2 7 7 10 7 7 3 8 AN 0.421 0.612 0.746 0.504 0.422 0.414 0.539 0.704 0.419 0.662 0.632 0.351 0.731 0.378 0.517 0.492 0.338 0.651 0.249 0.569 0.307 0.409 0.553 0.656 0.389 0.56 0.408 0.767 0.352 0.538 0.722 0.792 0.77 0.688 0.378 0.721 PIC Satt184 Satt221 Satt516 Satt468 Satt077 Sat_227 Satt634 Satt542 Satt189 Satt041 Sat_069 staga002 sct_192 Satt135 Satt372 Satt002 Satt154 Satt207 Sat_222 Satt301 Satt672 Satt256 Satt411 Satt720 Satt573 Satt185 Satt685 Satt146 Satt114 Satt490 Satt522 Sat_074 Satt163 Sat_141 Satt235 Sat_131 Loci D1a D1a D1a D1a D1a D1b D1b D1b D1b D1b D1b D1b D2 D2 D2 D2 D2 D2 D2 D2 D2 D2 E E E E E F F F F F G G G G LG 17.52 47.04 55.68 69.91 77.49 11.14 46.62 53.02 76.32 84.04 102.6 126.45 11.77 26.05 39.35 47.73 57.07 67.91 76.69 93.71 114.97 124.31 12.92 20.8 35.79 44.76 56.7 1.92 63.69 97.97 119.19 142.35 0 9.18 21.89 31.33 position LG, linkage group; AN, allele number; PIC, polymorphic information content. LG Loci 7 3 4 3 3 6 5 3 5 5 9 2 10 3 7 6 5 7 5 11 4 5 3 4 2 8 3 4 7 4 6 13 4 6 4 11 AN 0.671 0.363 0.465 0.58 0.43 0.758 0.541 0.26 0.565 0.457 0.8 0.32 0.815 0.383 0.676 0.697 0.562 0.556 0.674 0.811 0.4 0.663 0.504 0.512 0.342 0.824 0.38 0.554 0.699 0.645 0.672 0.858 0.432 0.506 0.561 0.845 PIC Satt012 Satt288 AF162283 Satt472 Sat_117 Sat_372 Satt666 Satt353 Satt442 Satt541 Sat_158 Satt434 Satt571 Satt367 Satt239 Sat_418 sct_189 Satt405 Sat_228 Sat_366 Satt431 Satt242 Sat_119 Satt102 Satt178 Sat_044 Satt499 Satt260 Satt495 Satt313 Satt481 Sat_099 Satt373 Sat_389 Satt590 Satt567 Loci G G G G G G H H H H H H I I I I I J J J J K K K K K K K L L L L L M M M LG 66.55 76.77 87.94 94.84 100 107.75 0.59 8.48 46.95 53.35 73.46 105.74 18.5 27.98 36.94 74.26 113.77 12.41 23.91 52.84 78.57 14.35 17.11 30.28 40.86 58.01 71.01 80.12 0 34.54 54.57 78.23 107.24 0 7.84 33.47 position 10 10 6 6 9 5 2 4 4 6 6 4 3 6 6 9 7 2 5 7 4 3 8 3 4 5 4 8 5 4 5 7 6 5 6 4 AN 0.716 0.801 0.569 0.528 0.834 0.667 0.344 0.477 0.58 0.558 0.752 0.573 0.538 0.702 0.564 0.824 0.71 0.223 0.75 0.637 0.66 0.529 0.79 0.381 0.47 0.615 0.275 0.766 0.409 0.218 0.383 0.761 0.72 0.543 0.674 0.474 PIC Satt463 Sct_147 Satt551 Sat_121 Satt308 sat_330 Sat_236 Satt521 Satt312 Satt257 Satt022 Satt358 Satt487 Satt445 Satt653 Satt420 Satt550 Satt576 Satt094 Satt173 Satt345 Satt241 Sat_341 Sat_242 Satt477 Satt331 Satt592 Satt581 Satt153 Sat_231 Loci M M M M M M N N N N N O O O O O O O O O O O O O O O O O O O LG 50.1 73.88 95.45 103.98 130.76 140.69 57.59 65.46 79.86 92.56 102.06 5.44 9.53 20.43 38.09 49.71 55.09 55.81 56.58 58.4 59.43 59.49 67.93 74.05 82.09 93.37 100.38 106.03 118.14 128.44 Mean Range position Table 2. One hundred and thirty-eight SSR markers used in genotyping the 175 soybean accessions and the allele numbers and PIC for SSR loci found in accessions. 8 2 3 10 7 6 8 4 5 3 6 3 2 8 6 5 8 5 6 7 6 5 7 5 3 3 4 5 4 5 5.3 2∼13 AN 0.744 0.37 0.348 0.742 0.772 0.568 0.799 0.391 0.502 0.378 0.594 0.251 0.361 0.795 0.655 0.482 0.679 0.704 0.64 0.812 0.676 0.569 0.653 0.615 0.422 0.381 0.556 0.497 0.46 0.49 0.566 0.218 ∼0.858 PIC Supplementary data, J. Genet. 93, 355–363 Supplementary data, J. Genet. 93, 355–363 Figure 1. Plot of the log-likelihood value (A) and K (B) for the number of subgroups (K). K was the number of the inferred subpopulations. K calculated as K = m (|L (K + 1) − 2L (K) + L (K−1)|)/s (L (K)). Ln P (D) was the value of the posterior probability of the data for a given K. Journal of Genetics, Vol. 93, No. 2, August 2014
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