Table 5 Di-genic epistatic QTLs for traits related to salt tolerance at seedling stage in Bengal/Pokkali F6 RIL population identified by interval mapping
Phenotype | QTL1 | Chr.1 | Position1 | LeftMarker1 | RightMarker1 | QTL2 | Chr.2 | Position2 (cM) | LeftMarker2 | RightMarker2 | LOD | PVE(%) | Add1 | Add2 | Add x Add |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Na+ concentration | qNa4.25 | 4 | 90 | S4_25549517 | S4_26622324 | qNa4.29 | 4 | 110 | S4_29966056 | S4_29968457 | 3.08 | 11.02 | 57.92 | -21.10 | -102.91 |
| Â | qNa3.26 | 3 | 135 | S3_26536286 | S3_26542118 | qNa5.008 | 5 | 0 | S5_87749 | S5_96410 | 3.24 | 7.90 | -13.88 | -0.72 | 78.59 |
| Â | qNa1.12 | 1 | 75 | S1_12583448 | S1_12685974 | qNa6.2 | 6 | 10 | S6_2266152 | S6_2272501 | 3.34 | 9.09 | 43.52 | -14.46 | 90.61 |
| Â | qNa6.17 | 6 | 80 | S6_17631626 | S6_17780076 | qNa6.19 | 6 | 85 | S6_19446057 | S6_19585327 | 3.10 | 15.64 | 106.90 | -89.69 | -208.67 |
| Â | qNa6.4a | 6 | 25 | S6_4631489 | S6_4771954 | qNa10.21 | 10 | 85 | S10_21364298 | S10_21407693 | 3.83 | 13.99 | 86.22 | 46.66 | 88.20 |
| Â | qNa6.4b | 6 | 30 | S6_4890290 | S6_5269698 | qNa11.1 | 11 | 5 | S11_1086712 | S11_1293020 | 3.26 | 13.91 | 58.04 | 39.35 | 80.06 |
| Â | qNa3.2 | 3 | 15 | S3_2171559 | S3_2250307 | qNa11.23 | 11 | 100 | S11_23611942 | S11_23708208 | 3.16 | 8.69 | 5.27 | 10.52 | 82.87 |
K+ concentration | qK1.7 | 1 | 60 | S1_7778029 | S1_8656025 | qK2.3 | 2 | 15 | S2_3207423 | S2_3207477 | 3.50 | 21.42 | -44.62 | -22.75 | 36.16 |
| Â | qK2.25 | 2 | 115 | S2_25166702 | S2_25192275 | qK3.22 | 3 | 115 | S3_22976923 | S3_23020366 | 3.04 | 8.02 | 5.08 | -5.45 | 31.47 |
| Â | qK1.40 | 1 | 190 | S1_40584495 | S1_40894634 | qK7.19 | 7 | 70 | S7_19334046 | S7_19406235 | 3.14 | 9.07 | -12.92 | 1.97 | -32.60 |
| Â | qK1.7 | 1 | 50 | S1_7520182 | S1_7569628 | qK12.17 | 12 | 55 | S12_17065005 | S12_17195754 | 3.23 | 9.03 | -13.81 | 8.04 | -32.71 |
| Â | qK11.19 | 11 | 70 | S11_19222100 | S11_19245359 | qK12.18 | 12 | 60 | S12_18687038 | S12_18741493 | 3.63 | 10.31 | 16.55 | -3.15 | -34.00 |
NaK ratio | qNaK1.42 | 1 | 195 | S1_42138516 | S1_42310908 | qNaK3.21 | 3 | 110 | S3_21445493 | S3_21628785 | 3.08 | 8.71 | 0.10 | 0.02 | -0.24 |
| Â | qNaK6.30 | 6 | 145 | S6_30296317 | S6_30370989 | qNaK8.2 | 8 | 20 | S8_2341829 | S8_2949528 | 3.09 | 8.68 | 0.07 | -0.13 | 0.26 |
| Â | qNaK6.4a | 6 | 25 | S6_4631489 | S6_4771954 | qNaK10.213 | 10 | 85 | S10_21364298 | S10_21407693 | 3.58 | 17.65 | 0.34 | 0.12 | 0.26 |
| Â | qNaK7.22 | 7 | 90 | S7_22936622 | S7_22936634 | qNaK10.217 | 10 | 90 | S10_21749293 | S10_21786307 | 3.47 | 8.73 | -0.03 | 0.03 | -0.26 |
| Â | qNaK5.16 | 5 | 65 | S5_16290294 | S5_16307102 | qNaK11.2 | 11 | 15 | S11_2838776 | S11_3716306 | 3.55 | 10.80 | -0.05 | 0.09 | -0.26 |
| Â | qNaK3.2 | 3 | 20 | S3_2776106 | S3_2780171 | qNaK11.24 | 11 | 105 | S11_24319577 | S11_24335733 | 3.46 | 9.89 | 0.00 | -0.12 | 0.26 |
| Â | qNaK1.5 | 1 | 35 | S1_5501756 | S1_5792183 | qNaK12.19 | 12 | 65 | S12_19926993 | S12_20016304 | 3.01 | 8.66 | 0.06 | -0.08 | 0.24 |
Salt injury score | qSIS6.2a | 6 | 15 | S6_2927160 | S6_2962502 | qSIS6.30 | 6 | 145 | S6_30296317 | S6_30370989 | 3.82 | 15.04 | 0.04 | 0.04 | 0.07 |
| Â | qSIS5.18 | 5 | 80 | S5_18942631 | S5_18997491 | qSIS9.9 | 9 | 15 | S9_9351804 | S9_9857266 | 3.16 | 12.06 | 0.05 | 0.05 | 0.06 |
| Â | qSIS3.10 | 3 | 65 | S3_10992290 | S3_11053944 | qSIS10.2 | 10 | 5 | S10_2799960 | S10_2837737 | 4.11 | 11.59 | 0.01 | 0.04 | 0.07 |
| Â | qSIS2.20 | 2 | 85 | S2_20153436 | S2_20182321 | qSIS10.11 | 10 | 25 | S10_11045261 | S10_11244588 | 3.07 | 14.67 | -0.07 | 0.02 | -0.06 |
| Â | qSIS3.11 | 3 | 70 | S3_11848358 | S3_11865689 | qSIS12.2 | 12 | 15 | S12_2315570 | S12_2397199 | 3.33 | 7.96 | 0.00 | 0.00 | 0.06 |
Chlorophyll | qCHL1.20 | 1 | 90 | S1_20242882 | S1_21276489 | qCHL1.21 | 1 | 95 | S1_21276489 | S1_21352851 | 7.27 | 29.81 | -4.09 | 4.17 | -5.07 |
content | qCHL3.17 | 3 | 105 | S3_17083355 | S3_17143997 | qCHL3.21 | 3 | 110 | S3_21445493 | S3_21628785 | 4.59 | 28.05 | 4.16 | -4.42 | -4.73 |
| Â | qCHL3.21 | 3 | 110 | S3_21445493 | S3_21628785 | qCHL7.7 | 7 | 50 | S7_7781645 | S7_7839200 | 3.31 | 8.45 | -0.29 | -0.20 | -1.23 |
| Â | qCHL8.23 | 8 | 90 | S8_23657286 | S8_24738259 | qCHL8.24 | 8 | 95 | S8_24763939 | S8_25110888 | 5.38 | 35.72 | -4.73 | 5.06 | -3.76 |
| Â | qCHL9.12 | 9 | 25 | S9_12217170 | S9_12366675 | qCHL9.12 | 9 | 30 | S9_12915373 | S9_14359383 | 3.89 | 34.51 | -4.77 | 4.51 | -4.09 |
| Â | qCHL2.5 | 2 | 40 | S2_5800279 | S2_5848583 | qCHL9.18 | 9 | 60 | S9_18667894 | S9_18669560 | 3.04 | 7.74 | -0.17 | -0.44 | -1.20 |
| Â | qCHL10.18 | 10 | 65 | S10_18819950 | S10_19941928 | qCHL10.18 | 10 | 70 | S10_18819950 | S10_19941928 | 5.68 | 34.16 | -4.44 | 4.32 | -4.33 |
| Â | qCHL7.27 | 7 | 110 | S7_27772814 | S7_27803479 | qCHL10.21 | 10 | 90 | S10_21749293 | S10_21786307 | 3.52 | 13.31 | 1.14 | 0.91 | 1.28 |
| Â | qCHL11.4 | 11 | 35 | S11_4854309 | S11_4863888 | qCHL11.6 | 11 | 40 | S11_6970703 | S11_7012013 | 3.97 | 11.76 | -1.18 | 1.25 | -2.15 |
| Â | qCHL3.4 | 3 | 25 | S3_4116916 | S3_4311471 | qCHL11.24 | 11 | 105 | S11_24319577 | S11_24335733 | 3.68 | 11.82 | 0.28 | -0.53 | -1.30 |
Shoot length | qSHL2.1 | 2 | 10 | S2_1653448 | S2_2064517 | qSHL2.5 | 2 | 40 | S2_5800279 | S2_5848583 | 3.84 | 9.77 | -0.12 | -0.48 | -2.02 |
| Â | qSHL4.25 | 4 | 95 | S4_25549517 | S4_26622324 | qSHL5.008 | 5 | 0 | S5_87749 | S5_96410 | 4.32 | 10.89 | -0.16 | -0.22 | -2.07 |
| Â | qSHL4.27 | 4 | 100 | S4_27678052 | S4_27715999 | qSHL8.1 | 8 | 15 | S8_1995144 | S8_2005542 | 3.81 | 10.15 | -0.23 | 0.09 | 1.97 |
| Â | qSHL2.32 | 2 | 155 | S2_32339457 | S2_32429009 | qSHL9.12 | 9 | 25 | S9_12217170 | S9_12366675 | 3.67 | 11.31 | 0.82 | -1.54 | 2.23 |
| Â | qSHL1.28 | 1 | 130 | S1_28157998 | S1_28247178 | qSHL9.19 | 9 | 65 | S9_19628929 | S9_19696641 | 3.09 | 11.19 | -0.72 | -0.54 | 1.75 |
| Â | qSHL2.34 | 2 | 165 | S2_34519074 | S2_34545438 | qSHL10.20 | 10 | 80 | S10_20682624 | S10_20733813 | 3.34 | 9.36 | -0.15 | 0.46 | 1.83 |
| Â | qSHL4.32 | 4 | 130 | S4_32867449 | S4_33074444 | qSHL10.21 | 10 | 90 | S10_21749293 | S10_21786307 | 3.47 | 10.80 | -1.40 | -0.05 | -1.86 |
Root length | qRTL1.32 | 1 | 145 | S1_32327040 | S1_32418346 | qRTL3.10 | 3 | 65 | S3_10992290 | S3_11053944 | 4.80 | 17.47 | -0.03 | 0.30 | 0.41 |
| Â | qRTL4.16 | 4 | 35 | S4_16669714 | S4_16706375 | qRTL6.25 | 6 | 115 | S6_25296416 | S6_25363541 | 3.79 | 12.10 | 0.19 | -0.12 | 0.37 |
| Â | qRTL3.28 | 3 | 145 | S3_28513488 | S3_29240341 | qRTL8.23 | 8 | 90 | S8_23657286 | S8_24738259 | 3.26 | 9.34 | -0.11 | -0.05 | -0.38 |
| Â | qRTL6.15 | 6 | 75 | S6_15734275 | S6_15881397 | qRTL9.16 | 9 | 50 | S9_16775205 | S9_16882286 | 3.02 | 11.22 | 0.15 | -0.29 | 0.36 |
| Â | qRTL4.33 | 4 | 135 | S4_33557881 | S4_33861248 | qRTL10.19 | 10 | 75 | S10_19941928 | S10_20082337 | 4.15 | 10.32 | -0.01 | 0.02 | -0.41 |
Dry weight | qDWT3.17 | 3 | 105 | S3_17083355 | S3_17143997 | qDWT6.7 | 6 | 50 | S6_7662391 | S6_7749349 | 3.20 | 10.64 | 0.00 | 0.00 | -0.01 |
| Â | qDWT6.4 | 6 | 30 | S6_4890290 | S6_5269698 | qDWT6.30 | 6 | 145 | S6_30296317 | S6_30370989 | 3.06 | 12.61 | 0.00 | -0.01 | -0.01 |
| Â | qDWT7.1 | 7 | 5 | S7_1021298 | S7_1051320 | qDWT7.27 | 7 | 110 | S7_27772814 | S7_27803479 | 3.43 | 10.08 | 0.00 | 0.00 | 0.01 |
| Â | qDWT5.2 | 5 | 20 | S5_2483311 | S5_2495045 | qDWT10.16 | 10 | 50 | S10_16848745 | S10_16898283 | 3.30 | 16.39 | -0.01 | 0.00 | -0.01 |
| Â | qDWT4.16 | 4 | 35 | S4_16669714 | S4_16706375 | qDWT10.19 | 10 | 75 | S10_19941928 | S10_20082337 | 3.34 | 9.61 | 0.00 | 0.00 | 0.01 |
| Â | qDWT3.5 | 3 | 35 | S3_5859095 | S3_5904925 | qDWT12.09 | 12 | 10 | S12_977852 | S12_1386213 | 3.80 | 12.95 | 0.00 | 0.00 | -0.01 |
| Â | qSRR2.1 | 2 | 5 | S2_1103758 | S2_1653448 | qSRR4.27 | 4 | 100 | S4_27678052 | S4_27715999 | 3.47 | 11.08 | 0.00 | -0.19 | 0.35 |
Shoot-root ratio | qSRR5.2 | 5 | 15 | S5_2116055 | S5_2167880 | qSRR5.5 | 5 | 40 | S5_5798670 | S5_5909747 | 3.85 | 9.93 | 0.12 | -0.07 | -0.39 |
| Â | qSRR2.3 | 2 | 25 | S2_3978527 | S2_4234638 | qSRR9.14 | 9 | 40 | S9_14976723 | S9_15092089 | 3.20 | 10.65 | -0.14 | 0.24 | -0.39 |
| Â | qSRR1.20 | 1 | 90 | S1_20242882 | S1_21276489 | qSRR9.21 | 9 | 75 | S9_21030508 | S9_21083576 | 3.09 | 10.97 | -0.11 | -0.13 | 0.37 |
| Â | qSRR4.18 | 4 | 45 | S4_18779374 | S4_18826971 | qSRR10.001 | 10 | 0 | S10_103050 | S10_160013 | 3.18 | 9.97 | -0.13 | -0.16 | 0.34 |