---
identifier: mixed.gwas.Fang_Ma_2017

taxid: 3847

scientific_name: Glycine max

scientific_name_abbrev: glyma

genotype:
  - 809 soybean accessions

genotyping_platform: Fang_Ma_2017

genotyping_method: GATK SNP and INDEL calls on re-sequencing reads

synopsis: "GWAS of 84 agronomic traits, conducted on 809 soybean accessions, with genotyping by resequencing."

description: "To understand the genetic networks underlying phenotypic correlations, we collected 809 soybean accessions worldwide and phenotyped them for two years at three locations for 84 agronomic traits. Genome-wide association studies identified 245 significant genetic loci, among which 95 genetically interacted with other loci. We determined that 14 oil synthesis-related genes are responsible for fatty acid accumulation in soybean and function in line with an additive model. Network analyses demonstrated that 51 traits could be linked through the linkage disequilibrium of 115 associated loci and these links reflect phenotypic correlations. We revealed that 23 loci, including the known Dt1, E2, E1, Ln, Dt2, Fan, and Fap loci, as well as 16 undefined associated loci, have pleiotropic effects on different traits."

publication_title: "Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean"

publication_doi: 10.1186/s13059-017-1289-9

citation: "Fang, C. et al. Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean. Genome Biol. 18, 161 (2017)"

contributors: "Chao Fang, Yanming Ma, Shiwen Wu, Zhi Liu, Zheng Wang, Rui Yang, Guanghui Hu, Zhengkui Zhou, Hong Yu, Min Zhang, Yi Pan, Guoan Zhou, Haixiang Ren, Weiguang Du, Hongrui YanYanping Wang, Dezhi Han, Yanting Shen, Shulin Liu, Tengfei Liu, Jixiang Zhang, Hao Qin, Jia Yuan, Xiaohui Yuan, Fanjiang Kong, Baohui Liu, Jiayang Li, Zhiwu Zhang, Guodong Wang, Baoge Zhu, Zhixi Tian"