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Table 1 Table of Multiple Trait QTL

From: Multiple Cold Tolerance Trait Phenotyping Reveals Shared Quantitative Trait Loci in Oryza sativa

QTL Chr Start End Mapping Phenotypes Cluster Overlap Peak LOD Peak SNP gene Published QTL
qMT1–1 1 10,527,625 11,389,874 E10 + L10 TvS 5.444609   Locus2 a
qMT1–2 1 13,105,151 14,895,303 E10 + E16 + L12 TvS 4.769976   
qMT1–3 1 15,272,806 17,301,559 E10 + L12 TvS 5.906907   
qMT1–4 1 19,518,259 20,986,910 E8 + E12 TvS 6.768674   Locus4 a, qCTS1–3 c
qMT2–1 2 17,820,486 18,028,915 L4 + L8   4.680601 LOC_Os02g30270  
qMT2–2 2 20,805,063 21,772,969 E10 + L4 TvS 7.292885   
qMT3–1 3 21,728,962 23,622,225 E10 + E12 + L8 + L10 + L12 + L16 S + TvS 6.272784   qCTS3–11 c
qMT3–2 3 23,729,655 25,203,390 E10 + L10 + L12 S + TvS 7.380266   qLTSS3–3/qLTS3–2 b
qMT4–1 4 9,599,400 11,394,804 L10 + L12 TvS 6.484325   
qMT4–2 4 28,197,218 29,473,755 E10 + L12 TvS 12.14515   Locus47 a, qLTSS4–2 b, qCTS4–3 e
qMT4–3 4 34,467,694 35,089,971 E4 + L10 S + TvS 6.47215 LOC_Os04g58780 qLTSS4–3/qLTS4 b
qMT5–1 5 69,986 1,409,302 E8 + L10 + L16 + LT50 TvS 7.38114   Locus51 a
qMT5–2 5 6,600,746 8,783,967 E10 + L10 + L12 TvS 6.324189   qLTS5 b, qCTS5–3 c
qMT5–3 5 27,413,208 29,075,588 E16 + L16   4.955528 LOC_Os05g48960 Locus56 a
qMT6–1 6 690,949 1,804,604 E16 + L12 S + TvS 7.250662 LOC_Os06g02710 Locus57 a, qPGC6–1 b
qMT6–2 6 3,567,142 4,288,870 E16 + L12 TvS 5.286129 LOC_Os06g07420  
qMT6–3 6 22,367,941 23,364,932 E10 + L4 + L12   5.466931   qLTG6 b
qMT7–1 7 592,074 1,198,046 L12 + L16 TvS 7.1194   qCTS7–1 c
qMT7–2 7 1,452,372 2,559,101 E8 + L10 S + TvS 10.08297   Locus69 a, qLTSS7–1 b
qMT7–3 7 3,402,347 3,683,917 E12 + L12 TvS 6.412739 LOC_Os07g07240  
qMT7–4 7 6,870,947 7,663,360 E16 + L12 TvS 5.970675 LOC_Os07g12330  
qMT7–5 7 7,997,910 8,776,532 L12 + L16 TvS 6.408   qLTSS7–2 b
qMT7–6 7 15,627,934 16,632,053 E16 + L10 S + TvS 5.094292   Locus75 a, qCTS7 d
qMT7–7 7 22,505,330 23,930,131 E10 + L8 TvS 7.906038   qCTS7–4 c
qMT8–1 8 4,409,763 5,060,164 E12 + L12 TvS 7.134518   qLSS8–1 b
qMT8–2 8 9,468,694 10,399,998 L4 + L12 TvS 7.793283   qCTS8–2 c
qMT8–3 8 16,369,660 16,896,911 L4 + L12 TvS 6.393616 LOC_Os08g27240 Locus84 a, qLTSS8–2/qLTS8 b
qMT8–4 8 26,014,290 27,371,604 E8 + E10 + L16 TvS 5.37007 LOC_Os08g41830 Locus87 a, COLD2f
qMT9–1 9 3,149,137 4,733,475 E8 + E10 TvS 6.185335   Locus91 a, qCTS9–3/qCTS9–4/qCTS9–5 c
qMT9–2 9 5,186,978 6,076,169 E8 + E10 TvS 8.264567   Locus93 a, qPGCG9–1 b
qMT9–3 9 6,569,358 7,630,726 E4 + L10 TvS 5.145748   qPGCG9–1 b
qMT9–4 9 15,055,972 15,835,730 E4 + L10 TvS 5.000415 LOC_Os09g25220 Locus97 a, qLTG-9 d, qPGCG9–2/qLTSS9–2 b
qMT10–1 10 1,740,269 3,057,764 E16 + L10 TvS 6.125558   
qMT10–2 10 3,909,466 5,322,884 L8 + L10 S + TvS 10.35381   Locus101 a, qLTSS10–1 b
qMT10–3 10 6,299,787 6,300,600 L12 + LT50 TvS 7.180984 LOC_Os10g11354 qLTSS10–1 b
qMT10–4 10 12,242,058 15,899,908 L10 + L12 + LT50 S + TvS 7.843522   Locus104 a, qLTSS10–2 b
qMT11–1 11 15,593,585 16,583,082 L12 + L16   5.455106 LOC_Os11g28184  
qMT11–2 11 17,316,314 18,487,194 E10 + L12 S + TvS 5.02026 LOC_Os11g31620 Locus111 a, qLTSS11–3 b, qCTS11–5 c
qMT11–3 11 25,159,572 25,809,234 L10 + L12   5.266234   Locus116 a, qCTS11–10 c
qMT12 12 2,192,895 4,043,986 E8 + L10 + L12 S + TvS 8.710121 LOC_Os12g06270 Locus121 a
  1. qMT Multi-Trait QTL containing overlapping individual QTL mapped with cold tolerance traits
  2. E Electrolyte Leakage
  3. L Low-Temperature Seedling Survivability
  4. LT50: median low temperature of seedling survival
  5. 4, 8, 10, 12, 16: 4 °C, 8 °C, 10 °C, 12 °C, 16 °C
  6. TvS: Tolerant cluster vs Sensitive cluster QTL overlapping with qMT QTL
  7. T Tolerant cluster QTL overlapping with qMT QTL
  8. S Sensitive cluster QTL overlapping with qMT QTL
  9. LOD: -log10(p) values of peak SNPs within qMT QTL
  10. Peak SNP gene: gene within a qMT QTL containing a peak SNP
  11. aLv et al. 2016
  12. bSchläppi et al. 2017
  13. cWang et al. 2016
  14. dLiu et al. 2013
  15. eAndaya and Mackill 2003
  16. fMa et al. 2015