Verification and dissection of one quantitative trait locus for grain size and weight on chromosome 1 in rice

Grain size and weight are the key traits determining rice quality and yield and are mainly controlled by quantitative trait loci (QTL). In this study, one minor QTL that was previously mapped in the marker interval of JD1009-JD1019 using the Huanghuazhan/Jizi1560 (HHZ/JZ1560) recombinant inbred line (RIL) population, qTGW1-2, was validated to regulate grain size and weight across four rice-growing seasons using twenty-one near isogenic line (NIL)-F-2 populations. The twenty-one populations were in two types of genetic background that were derived from the same parents HHZ and JZ1560. Twelve F-9, F-10 or F-11 NIL-F-2 populations with the sequential residual heterozygous regions covering JD1009-RM6840 were developed from one residual heterozygote (RH) in the HHZ/ JZ1560 RIL population, and the remaining nine BC3F3, BC3F4 or BC3F5 NIL-F-2 populations with the sequential residual heterozygous regions covering JD1009-RM6840 were constructed through consecutive backcrosses to the recurrent parent HHZ followed with marker assistant selection in each generation. Based on the QTL analysis of these genetic populations, qTGW1-2 was successfully confirmed to control grain length, width and weight and further dissected into two QTLs, qTGW1-2a and qTGW1-2b, which were respectively narrowed down to the marker intervals of J D1139-J D1127 (similar to 978.2-kb) and JD1121-JD1102 (similar to 54.8-kb). Furthermore, the two types of NIL-F-2 populations were proved to be able to decrease the genetic background noise and increase the detection power of minor QTL. These results provided an important basis for further map-based cloning and molecular design breeding with the two QTLs in rice.

Automated summary

This study validated the role of qTGW1-2 in regulating grain size and weight across different genetic backgrounds, and further dissected it into two QTLs. The results demonstrated that using NIL-F-2 populations with sequential residual heterozygous regions can decrease genetic background noise and increase the detection power of minor QTLs.