Table 4.
QTLs for yield components identified in the R998 × Francis RILs population.
| QTL | Chr | LOD value | peak marker | genetic position (cM) | physical position(bp*) | marker length(bp) | additive | Percentage of variance explained(%) |
|---|---|---|---|---|---|---|---|---|
| qPPP1 | 1 | 4.45 | chr01_bin50 | 28.3 | 3857577–3925287 | 67711 | −0.37 | 7.3 |
| qPPP4 | 4 | 5.65 | chr04_bin267 | 389.8 | 34229022–34276617 | 47596 | −0.41 | 9.07 |
| qPPP5 | 5 | 3.13 | chr05_bin23 | 34.2 | 2073261–2110577 | 37317 | −0.31 | 5.54 |
| qPPP6 | 6 | 2.72 | chr06_bin154 | 182.4 | 23728747–23828415 | 99669 | −0.28 | 4.63 |
| qGPP4.1 | 4 | 2.51 | chr04_bin238 | 349.2 | 31749920–31774872 | 24953 | 9.98 | 6.9 |
| qGPP4.2 | 4 | 2.72 | chr04_bin248 | 365.5 | 32374932–32588914 | 213983 | 9.98 | 7.47 |
| qGY1 | 1 | 3.94 | chr01_bin29 | 18.11 | 2119506–2215651 | 96146 | −1.44 | 5.45 |
| qGY5 | 5 | 3.59 | chr05_bin141 | 229.51 | 19881099–19940641 | 59543 | −1.50 | 6.37 |
| qGY8 | 8 | 13.46 | chr08_bin94 | 130.21 | 16465630–16590676 | 125047 | −2.70 | 21.22 |
| qGY10 | 10 | 4.39 | chr10_bin146 | 294.51 | 20352219–20619333 | 267115 | −1.51 | 6.84 |
| qGY12 | 12 | 4.33 | chr12_bin135 | 209.91 | 23675639–23803476 | 127838 | −1.54 | 6.81 |
| qTGW2.1 | 2 | 2.56 | chr02_bin57 | 90.11 | 5657047–5869449 | 212403 | −0.12 | 4.05 |
| qTGW2.2 | 2 | 3.55 | chr02_bin169 | 208.81 | 22277253–22374393 | 97141 | −0.16 | 4.97 |
| qTGW2.3 | 2 | 3.08 | chr02_bin291 | 334.71 | 32504342–32555810 | 51469 | 0.16 | 4.27 |
| qTGW3 | 3 | 6.7 | chr03_bin247 | 171.81 | 28494281–28520941 | 26661 | −0.20 | 11.52 |
| qTGW7 | 7 | 2.66 | chr07_bin6 | 14.21 | 1190683–1237988 | 47306 | 0.11 | 3.12 |
| qTGW8 | 8 | 12.53 | chr08_bin109 | 147.11 | 18841775–19053506 | 211732 | −0.26 | 18.64 |
| qTGW9 | 9 | 3.88 | chr09_bin182 | 207.31 | 21438495–21495270 | 56776 | −0.14 | 5.71 |
| qTGW12 | 12 | 4.97 | chr12_bin173 | 274.41 | 27146979–27257344 | 110366 | 0.17 | 8.56 |
| qAGB6 | 6 | 2.7 | chr06_bin118 | 142.3 | 19988889–20195160 | 206272 | 4.02 | 6.09 |
| qAGB7 | 7 | 2.54 | chr07_bin125 | 237.4 | 19443803–19498463 | 54661 | −3.99 | 5.87 |
| qAGB8 | 8 | 3.36 | chr08_bin69 | 103.9 | 5855674–5897395 | 41722 | −5.11 | 8.51 |
| qAGB9 | 9 | 2.72 | chr09_bin30 | 26.7 | 6793297–6873993 | 80697 | 9.00 | 11.66 |
| qAGB10 | 10 | 3.16 | chr10_bin162 | 314.4 | 21818948–21843781 | 24834 | −4.15 | 6.19 |
| qHI8 | 8 | 9.31 | chr08_bin94 | 130.2 | 16465630–16590676 | 125047 | −0.05 | 19.92 |
| qHI9 | 9 | 2.95 | chr09_bin55 | 61.4 | 9269614–9407427 | 137814 | −0.03 | 6.89 |
Note:“*” denote physical positions based on the MSU Rice Genome Annotation Project release 7 (http://rice.plantbiology.msu.edu/). PPP, panicles per plant; GPP, grains per panicle; GY, grain yield per plant; TGW, thousand grain weight; AGB, above-ground biomass; HI, harvest index.