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Table 2 16 QTL hotspots associated with leaf chlorophyll-content traits detected in the ZH RIL population

From: QTL mapping for soybean (Glycine max L.) leaf chlorophyll-content traits in a genotyped RIL population by using RAD-seq based high-density linkage map

QTL hotspota QTL nameb Chrc Bin name CIv1.1 (bp)d Bin length (bp) Position (cM) LODe ADDf R2 (%)g CIv2.0 (bp)h
qCT1Z-1 qBSP1e 1 Bin23 3,014,519-3,035,286 20,768 22.9 2.51 −1.08 5.81 3,037,245-3,038,559
qASP1f 1 Bin24 3,035,287-3,300,327 265,041 24.8 4.02 −1.06 9.76 3,060,271-3,302,133
qCT1Z-2 qASP1b-1 1 Bin46 11,517,849-26,055,466 14,537,618 50.6 6.84 1.47 16.55 11,591,808-24,499,599
qTSP1b 1 Bin46 11,517,849-26,055,466 14,537,618 50.6 5.13 1.66 11.97 11,591,808-24,499,599
qCT2Z-1 qASP2e 2 Bin28 6,826,912-6,946,505 119,594 33.6 2.60 −0.84 5.84 6,909,163-7,031,971
qBSP2d 2 Bin30 7,060,106-7,152,841 92,736 34.8 3.66 −1.07 8.79 7,145,546-7,228,940
qTSP2e 2 Bin30 7,060,106-7,152,841 92,736 34.8 4.23 −1.25 10.08 7,145,546-7,228,940
qBSP2f 2 Bin33 7,454,452-9,601,062 2,146,611 38.6 2.77 −1.00 6.93 7,539,451-9,689,680
qCT2Z-2 qChl_A/B2f 2 Bin54 15,046,557-15,213,830 167,274 59.1 3.10 0.13 7.54 15,251,037-15,422,632
qChl_B2f 2 Bin62 16,848,795-27,416,648 10,567,854 67.2 2.50 −0.16 5.10 17,128,244-26,385,905
qCT3Z qMSP3e 3 Bin73 36,603,803-36,725,014 121,212 59.4 3.94 1.41 10.06 34,589,840-347,02,370
qASP3e 3 Bin75 37,109,279-37,138,700 29,422 61.7 3.07 0.92 6.85 35,106,012-35,113,620
qCT6Z-1 qASP6f 6 Bin34 5,908,302-5,959,466 51,165 37.1 2.54 −0.80 6.07 5,914,573-5,964,561
qASP6d 6 Bin42 6,959,298-7,246,025 286,728 44.2 3.92 −0.75 9.14 6,972,002-7,247,613
qCT6Z-2 qTSP6b 6 Bin89 15,950,387-16,194,517 244,131 109.8 3.10 0.93 7.45 16,011,413-16,229,680
qMSP6e-1 6 Bin92 16,664,681-16,817,080 152,400 112.4 3.66 1.82 8.86 16,709,212-16,859,338
qCT7Z qMSP7a-1 7 Bin73 15,667,842-15,734,307 66,466 54.3 3.23 −1.18 7.21 15,769,608-15,813,498
qASP7a 7 Bin80 16,504,261-16,803,624 299,364 60.4 2.74 −0.84 6.07 16,597,814-16,889,324
qChl_B7e-1 7 Bin80 16,504,261-16,803,624 299,364 60.4 5.05 −0.39 12.75 16,597,814-16,889,324
qChl_A/B7d 7 Bin80 16,504,261-16,803,624 299,364 60.4 2.83 −0.18 8.69 16,597,814-16,889,324
qMSP7a-2 7 Bin80 16,504,261-16,803,624 299,364 60.4 2.58 −1.06 5.81 16,597,814-16,889,324
qCT8Z qTSP8f-1 8 Bin7 2,225,026-2,271,343 46,318 12.6 3.10 1.30 7.64 2,238,240-2,275,653
qMSP8b 8 Bin10 2,712,995-2,737,327 24,333 15.4 2.80 0.98 7.05 2,719,028-2,741,745
qCT11Z qChl_A/B11e-2 11 Bin77 16,152,967-16,449,587 296,621 61.4 2.91 0.14 7.16 26,145,820-26,431,037
qBSP11e 11 Bin78 16,449,588-16,610,503 160,916 62.6 3.07 −1.18 7.10 26,412,450-26,574,724
qCT13Z qASP13b-1 13 Bin133 39,361,093-39,386,817 25,725 134.5 2.74 −0.67 6.30 40,532,836-40,567,479
qASP13b-2 13 Bin143 40,173,283-40,428,061 254,779 143.3 2.71 −0.66 6.25 41,618,514-41,874,899
qCT15Z-1 qASP15a 15 Bin94 16,683,420-17,383,420 700,001 100.2 5.27 −1.19 11.94 16,695,707-17,350,040
qChl_B15f-1 15 Bin94 16,683,420-17,383,420 700,001 100.2 2.55 −0.17 5.71 16,695,707-17,350,040
qMSP15a-1 15 Bin94 16,683,420-17,383,420 700,001 100.2 5.94 −1.63 13.86 16,695,707-17,350,040
qCT15Z-2 qChl_A15f 15 Bin128 48,582,583-48,741,529 158,947 124.4 3.68 0.23 8.99 49,382,502-49,534,743
qChl_B15f-2 15 Bin128 48,582,583-48,741,529 158,947 124.4 3.97 0.20 8.94 49,382,502-49,534,743
qCT16Z qTSP16e 16 Bin17 5,525,628-5,588,607 62,980 34.4 3.29 1.08 7.69 5,551,673-5,607,211
qASP16e 16 Bin18 5,588,608-5,809,086 220,479 34.9 3.30 0.96 7.61 5,618,869-5,828,808
qCT18Z qMSP18f-1 18 Bin32 3,157,973-3,350,322 192,350 20.4 3.41 1.24 7.68 3,182,661-3,349,093
qMSP18f-2 18 Bin40 4,116,314-4,142,492 26,179 25.6 3.30 1.21 7.44 4,139,387-4,161,508
qCT19Z qTSP19f 19 Bin77 40,662,371-40,701,058 38,688 70.1 3.28 1.33 8.17 40,859,609-40,891,331
qMSP19d 19 Bin78 40,701,059-40,809,377 108,319 71.4 2.66 −0.85 6.57 40,896,924-41,007,822
  1. aThe name of the QTL hotspot is a composite of multiple chlorophyll-content traits (CT); Zhonghuang 24 × Huaxia 3 RIL population (Z)
  2. bThe name of the QTL is a composite of the chlorophyll-content traits: TSP: Top leaves SPAD value, MSP: Mid leaves SPAD value, BSP: Bottom leaves SPAD value, ASP: Average SPAD value, Chl_A: Chlorophyll a content, Chl_B: Chlorophyll b content, Chl_A/B: Chlorophyll a/b ratio; a: the R1 growth stage in the spring of 2017 at Zengcheng; b: the R4 growth stage in the spring of 2017 at Zengcheng; c: the R6 growth stage in the spring of 2017 at Zengcheng; d: the R1 growth stage in the summer of 2017 at Zengcheng; e: the R4 growth stage in the summer of 2017 at Zengcheng; f: the R6 growth stage in the summer of 2017 at Zengcheng
  3. cChr refers to the chromosome
  4. dThe physical position corresponding to the 95% confidence interval for the detected QTL based on Glyma.Wm82. a1. v1. 1 gene model
  5. eLOD indicates the logarithm of the odds score
  6. fPositive and negative values indicated additive effect by the alleles of ‘Zhonghuang 24’ and ‘Huaxia 3’, respectively
  7. gR2 indicates the phenotypic variance explained by individual QTL
  8. hThe most proximal Glyma.Wm82. a2. v1 gene model physical intervals of the detected QTLs were transformed by focusing on the positions of the interval nearest 3′ and 5′ ending genes
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BMC Genomics

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