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Table 2 QTL for cottonseed traits identified across three environments

From: A high density SLAF-seq SNP genetic map and QTL for seed size, oil and protein content in upland cotton

Traita QTL Envb Flanking markers Location Nearest locus LOD Additivec PVEd(%)
HSW qHSWA01.1 2016CQ Marker1095Marker1475 83.385 Marker1766 3.34 0.52 17.1
2017AY Marker1050Marker1444 80.444 Marker1682 3.07 0.45 15.2
qHSWA01.2 2016CQ Marker2119Marker2188 105.852 Marker2140 2.33 0.44 12.3
2017AY Marker2060Marker2271 108.794 Marker2270 2.76 0.43 13.7
qHSWA09.1 2016CQ Marker11851Marker11864 117.677 Marker11859 2.18 0.43 11.5
qHSWA11.1 2016CQ Marker13572Marker13721 59.099 Marker13615 3.87 0.60 19.5
2016HN Marker13572Marker13746 75.349 Marker13740 2.68 0.38 14
2017AY Marker13720Marker13746 75.349 Marker13740 2.65 0.44 13.2
qHSWD02.1 2017AY Marker18193Marker18204 40.414 Marker18200 2.07 0.38 10.5
qHSWD02.2 2016CQ Marker18224Marker18299 51.754 Marker18289 2.03 0.41 10.8
qHSWD03.1 2016CQ Marker18918Marker18934 107.899 Marker18928 9.22 0.83 40.4
2016HN Marker18918Marker18934 106.722 Marker18921 9.37 0.66 40.9
2017AY Marker18918Marker18940 107.899 Marker18928 9.01 0.76 38.3
qHSWD05.1 2017AY Marker19701Marker19762 119.944 Marker19721 2.48 0.56 12.4
qHSWD05.2 2016CQ Marker20000Marker20073 217.105 Marker20039 3.36 0.61 17.2
qHSWD09.1 2016HN Marker22228Marker22277 17.959 Marker22254 2.27 0.34 12
2017AY Marker22228Marker22277 18.555 Marker22255 3.75 0.50 18.2
qHSWD09.2 2017HN Marker22575Marker22599 116.855 Marker22592 2.23 0.35 11.8
2017AY Marker22575Marker22599 114.931 Marker22590 3.81 0.51 18.5
qHSWD13.1 2017HN Marker25633Marker25644 24.158 Marker25641 2.54 0.36 13.3
2017AY Marker25633Marker25662 24.158 Marker25641 4.07 0.52 19.6
HKW qHKWA01.1 2016CQ Marker1095Marker1248 83.973 Marker1779 3.14 0.32 17.6
2016HN Marker1095Marker1796 82.797 Marker1750 2.44 0.28 12.9
2017AY Marker1095Marker1796 83.973 Marker1777 3.51 0.39 18.3
qHKWA01.2 2016CQ Marker2060Marker2271 107.029 Marker2195 2.77 0.30 15.6
2016HN Marker2119Marker1822 107.029 Marker2195 2.32 0.28 12.4
2017AY Marker2060Marker2271 108.794 Marker2270 2.89 0.36 15.3
qHKWA11.1 2016CQ Marker13724Marker13746 75.349 Marker13740 2.47 0.30 14.1
2016HN Marker13572Marker13746 75.349 Marker13740 2.94 0.32 15.4
2017AY Marker13721Marker13746 75.349 Marker13740 2.4 0.34 12.9
qHKWD01.1 2016HN Marker17803Marker17824 69.664 Marker17810 2.05 0.27 11
qHKWD01.2 2016CQ Marker18034Marker18045 106.31 Marker18037 2.15 0.27 12.4
qHKWD03..1 2016CQ Marker18922Marker18940 107.899 Marker18928 14.15 0.61 58.1
2016HN Marker18918Marker18934 107.899 Marker18928 15.25 0.62 58
2017AY Marker18922Marker18940 112.14 Marker18935 10.64 0.65 45.8
qHKWD09..1 2017AY Marker22228Marker22290 18.555 Marker22255 3.83 0.41 19.8
qHKWD13..1 2016CQ Marker25627Marker25644 24.158 Marker25641 2.52 0.29 14.3
2017AY Marker25627Marker25644 24.158 Marker25641 3.15 0.38 16.6
TKL qTKLA05.1 2016CQ Marker6368Marker6440 49.956 Marker6433 4.04 1.27 20.8
2016HN Marker6391Marker6437 49.956 Marker6433 2.18 1.00 11.5
2017AY Marker6368Marker6437 45.089 Marker6388 3.82 1.45 19.1
qTKLA11.1 2016CQ Marker12954Marker13001 29.286 Marker12983 2.3 0.99 12.4
qTKLA12.1 2016CQ Marker13902Marker13921 6.443 Marker13906 2.5 1.05 13.4
2016HN Marker13904Marker13922 6.443 Marker13906 2.11 1.01 11.2
qTKLD02.1 2016CQ Marker18466Marker18541 72.256 Marker18639 3.83 1.25 19.8
2016HN Marker18541Marker18658 83.832 Marker18645 2.73 1.16 14.2
2017AY Marker18441Marker18643 72.256 Marker18639 3.22 1.35 16.3
qTKLD08.1 2016HN Marker21909Marker21965 49.622 Marker21942 2.24 1.02 11.8
qTKLD13.1 2016CQ Marker25619Marker25633 18.006 Marker25627 2.29 0.98 12.4
2017AY Marker25619Marker25633 17.389 Marker25620 2.53 1.22 13.1
TKW qTKWA01.1 2016CQ Marker1095Marker1796 80.444 Marker1683 2.58 0.76 14
2016HN Marker1651Marker1785 82.797 Marker1761 2.26 0.89 11.9
2017AY Marker1581Marker1599 77.502 Marker1590 2.1 0.72 11
qTKWA08.1 2017AY Marker10504Marker10552 69.174 Marker10502 2.05 0.72 10.7
qTKWA11.1 2016CQ Marker13572Marker13746 55.26 Marker13613 3.03 0.88 16.2
2016HN Marker13604Marker13722 57.005 Marker13614 2.56 1.01 13.4
2017AY Marker13572Marker13718 55.26 Marker13613 2.29 0.80 11.9
qTKWD01.1 2017AY Marker18034Marker18037 103.839 Marker18038 2.14 0.74 11.2
qTKWD03.1 2016CQ Marker18922Marker18940 107.899 Marker18928 14.86 1.63 58
2016HN Marker18918Marker18934 107.899 Marker18928 12.88 1.93 51.5
2017AY Marker18933Marker18978 112.14 Marker18935 9 1.43 39.3
qTKWD09.1 2017AY Marker22575Marker22599 114.931 Marker22588 2.85 0.85 14.6
KOC qKOCA01.1 2016CQ Marker990Marker1248 82.797 Marker1750 2.83 1.13 14.9
2017AY Marker1734Marker1798 83.973 Marker1774 2.43 1.07 12.2
qKOCA01.2 2016CQ Marker2014Marker2271 105.852 Marker2138 3.49 1.25 18
qKOCA03.1 2017AY Marker4951Marker5025 44.143 Marker4961 2.3 1.04 11.6
qKOCA08.1 2016CQ Marker10503Marker10582 72.718 Marker10567 2.69 1.11 14.2
qKOCA09.1 2016HN Marker10981Marker11001 37.502 Marker10991 3.69 1.24 18.7
qKOCA11.1 2017AY Marker13724Marker13746 72.492 Marker13726 2.07 1.04 10.5
qKOCA13.1 2017AY Marker16773Marker16984 136.821 Marker16970 2.4 1.07 12.1
qKOCA13.2 2016CQ Marker17148Marker17212 164.157 Marker17150 3.32 1.22 17.2
qKOCD02.1 2016CQ Marker18421Marker18439 62.907 Marker18431 3.2 1.20 16.6
qKOCD03.1 2016CQ Marker18933Marker18940 112.14 Marker18935 11.48 2.13 47.9
2016HN Marker18933Marker18940 112.14 Marker18935 3.54 1.26 18
2017AY Marker18918Marker18978 135.298 Marker18977 4.84 1.54 22.8
qKOCD05.1 2017AY Marker19712Marker19766 125.411 Marker19762 2.24 1.40 11.3
qKOCD09.1 2016CQ Marker22592Marker22602 120.918 Marker22600 2.02 0.99 10.8
2017AY Marker22600Marker22609 128.058 Marker22603 2.25 1.07 11.4
KPC qKPCA01.1 2016CQ Marker1050Marker1599 75.135 Marker1105 2.87 0.61 15.1
qKPCA01.2 2017AY Marker1766Marker1796 83.973 Marker1777 2.1 1.23 10.7
qKPCA01.3 2016CQ Marker2119Marker2271 105.852 Marker2140 3.95 0.70 20.1
qKPCA08.1 2016CQ Marker10273Marker10297 47.49 Marker10290 2.16 0.54 11.6
qKPCA08.2 2016CQ Marker10511Marker10600 72.13 Marker10561 2.75 0.59 14.5
qKPCA09.1 2016HN Marker10981Marker11001 37.502 Marker10991 2.88 1.51 14.9
qKPCA11.1 2017AY Marker13724Marker13740 72.492 Marker13726 2.12 1.29 10.7
qKPCA13.1 2017AY Marker17035Marker17090 151.357 Marker17079 2.12 1.25 10.7
qKPCD02.1 2016CQ Marker18429Marker18433 62.907 Marker18431 4.82 0.77 24
qKPCD02.2 2016HN Marker18645Marker18658 84.427 Marker18646 2.05 1.32 10.9
qKPCD03.1 2016CQ Marker18922Marker18940 112.14 Marker18935 8.81 1.03 39.4
2016HN Marker18933Marker18940 112.14 Marker18935 11.78 2.81 48.4
2017AY Marker18933Marker18940 112.14 Marker18935 9.91 2.52 41.2
qKPCD09.1 2017AY Marker22586Marker22599 116.855 Marker22592 2.53 1.39 12.7
  1. aHSW hundred seed weight, HKW hundred kernel weight, TKL ten kernel length, TKW ten kernel width, KOC kernel oil content, KPC kernel protein content
  2. b2016CQ, 2016 at Chongqing; 2016HN, 2016 at Hainan; 2017AY, 2017 at Anyang
  3. cPositive additive effects indicated that Yumian 1 alleles increased the phenotypic value, negative additive effects suggested that M11 alleles increased the phenotypic value
  4. dphenotypic variance explained