Genome-Wide Association Study of Xian Rice Grain Shape and Weight in Different Environments

Author:

Wang Nansheng1,Zhang Wanyang12,Wang Xinchen1,Zheng Zhenzhen12,Bai Di1,Li Keyang1,Zhao Xueyu1,Xiang Jun1,Liang Zhaojie1,Qian Yingzhi1,Wang Wensheng2,Shi Yingyao1

Affiliation:

1. College of Agronomy, Anhui Agricultural University, Hefei 230000, China

2. Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China

Abstract

Drought is one of the key environmental factors affecting the growth and yield potential of rice. Grain shape, on the other hand, is an important factor determining the appearance, quality, and yield of rice grains. Here, we re-sequenced 275 Xian accessions and then conducted a genome-wide association study (GWAS) on six agronomic traits with the 404,411 single nucleotide polymorphisms (SNPs) derived by the best linear unbiased prediction (BLUP) for each trait. Under two years of drought stress (DS) and normal water (NW) treatments, a total of 16 QTLs associated with rice grain shape and grain weight were detected on chromosomes 1, 2, 3, 4, 5, 7, 8, 11, and 12. In addition, these QTLs were analyzed by haplotype analysis and functional annotation, and one clone (GSN1) and five new candidate genes were identified in the candidate interval. The findings provide important genetic information for the molecular improvement of grain shape and weight in rice.

Funder

The Improved Varieties Joint Research (Rice) Project of Anhui Province

the Scientific Research Plan Major Projects of Anhui Province

the Science and Technology Major Project of Anhui Province

the National Natural Science Foundation of China

Publisher

MDPI AG

Subject

Plant Science,Ecology,Ecology, Evolution, Behavior and Systematics

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