Both overlapping and independent loci underlie seed number per pod and seed weight in Brassica napus by comparative quantitative trait loci analysis

Shuangshuang Xin; Hongli Dong; Lei Yang; Dengwen Huang; Fajing Zheng; Yixin Cui; Shuang Wu; Jinghang Liao; Yajun He; Huafang Wan; Zhi Liu; Xiaorong Li; Wei Qian

doi:10.1007/s11032-021-01232-1

Both overlapping and independent loci underlie seed number per pod and seed weight in Brassica napus by comparative quantitative trait loci analysis

Mol Breed. 2021 Jun 17;41(6):41. doi: 10.1007/s11032-021-01232-1. eCollection 2021 Jun.

Authors

Shuangshuang Xin^#¹, Hongli Dong^#¹, Lei Yang¹, Dengwen Huang¹, Fajing Zheng¹, Yixin Cui¹, Shuang Wu¹, Jinghang Liao¹, Yajun He¹, Huafang Wan¹, Zhi Liu¹, Xiaorong Li¹, Wei Qian^{1

2}

Affiliations

¹ College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715 China.
² Engineering Research Center of South Upland Agriculture, Ministry of Education, Chongqing, 400715 China.

^# Contributed equally.

Abstract

Seed number per pod (SNPP) and seed weight (SW) are two components of seed yield in rapeseed (Brassica napus). Here, a natural population of rapeseed was employed for genome-wide association analysis for SNPP and SW across multi-years. A total of 101 and 77 SNPs significantly associated with SNPP and SW with the phenotypic variances (R²) ranging from 1.35 to 29.47% and from 0.78 to 34.58%, respectively. And 43 and 33 homologs of known genes from model plants were located in the 65 and 49 haplotype blocks (HBs) for SNPP and SW, respectively. Notably, we found 5 overlapping loci and 3 sets of loci with collinearity for both SNPP and SW, of which 4 overlapping loci harbored the haplotypes with the same direction of genetic effects on SNPP and SW, indicating high possibility to simultaneously improve SNPP and SW in rapeseed. Our findings revealed both overlapping and independent loci controlling seed number per pod and seed weight in rapeseed.

Supplementary information: The online version contains supplementary material available at 10.1007/s11032-021-01232-1.

Keywords: Brassica napus; Haplotypes; Independent loci; Overlapping loci; Seed number per pod; Seed weight.