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Table 2 QTLs analysis of seed germination traits among BC1F2 population under H2O and 300 mM NaCl conditions

From: Identification and fine mapping of qGR6.2, a novel locus controlling rice seed germination under salt stress

Treatments Traits QTLs Days after imbibition Chr. Left Marker Right Marker LOD PVE (%) Add Dom
H2O (control) GR qGR3.1 3 3 Y25 W33 3.22 7.32 −4.92 5.87
qGR3.2 3 3 RM6832 RM3513 4.00 9.36 −5.52 6.08
qGR3.3 3 3 RM3513 RM8277 3.57 9.75 −5.35 4.77
qGR6.1 3 6 RM190 Z602 6.11 23.99 −8.51 3.73
qGR8.1 2 8 RM3572 RM6208 3.32 15.75 −6.69 −14.58
qGR8.2 2 8 RM6208 Y61 3.42 14.97 −8.81 −11.51
qGR10.1 2 10 W13 W20 3.33 9.25 −9.95 −1.11
3 10 W13 W20 3.33 8.95 −3.93 2.89
qGR10.2 3 10 W20 RM6824 3.36 8.66 −4.01 3.10
GI qGI6.1   6 RM190 Z602 3.69 10.39 −0.44 0.04
qGI10.1   10 W13 W20 3.28 8.86 −0.36 0.06
300 mM NaCl GR qGR6.1 13 6 RM190 Z602 3.14 7.07 −5.40 4.54
qGR6.2 7 6 Z604 RM276 8.80 20.14 −1.86 −19.02
9 6 Z604 RM276 10.56 23.82 −1.30 −18.69
11 6 Z604 RM276 9.93 22.18 −1.24 −15.48
13 6 Z604 RM276 10.58 23.54 −1.19 −12.69
qGR8.1 5 8 RM3572 RM6208 4.00 18.80 −7.76 −8.00
qGR8.2 5 8 RM6208 Y61 3.84 14.48 −7.17 −6.24
qGR10.1 5 10 W13 W20 3.89 11.74 −7.65 −3.37
7 10 W13 W20 5.69 14.07 −11.00 2.90
9 10 W13 W20 6.19 14.90 −9.81 3.75
11 10 W13 W20 6.59 16.22 −8.63 4.33
13 10 W13 W20 5.94 14.35 −6.54 3.15
qGR10.2 7 10 W20 RM6824 4.40 9.49 −9.66 0.59
9 10 W20 RM6824 5.35 11.20 −9.30 0.92
11 10 W20 RM6824 5.78 12.16 −8.36 1.08
13 10 W20 RM6824 5.53 11.52 −6.52 1.19
qGI6.2   6 Z604 RM276 11.20 24.39 −0.05 −0.72
GI qGI10.1   10 W13 W20 7.50 17.41 −0.41 0.14
qGI10.2   10 W20 RM6824 6.50 13.18 −0.38 0.05
  1. GR germination rate, GI germination index, Chr. chromosome, LOD the likelihood of odds, PVE phenotypic variation explained by each QTL, ADD additive effect is the effect of substituting a WJZ allele for a Nip allele, and its negative value indicates that WJZ contains the positive allele, DOM dominance effect