title: Loci and candidate gene identification for resistance to Phytophthora sojae via association analysis in soybean [Glycine max (L.) Merr].
abstract: Phytophthora sojae is an oomycete soil-borne plant pathogen that causes the serious disease Phytophthora root rot in soybean, leading to great loss of soybean production every year. Understanding the genetic basis of this plant-pathogen interaction is important to improve soybean disease resistance. To discover genes or QTLs underlying naturally occurring variations in soybean P.sojae resistance, we performed a genome-wide association study using 59,845 single-nucleotide polymorphisms identified from re-sequencing of 279 accessions from Yangtze-Huai soybean breeding germplasm. We used two models for association analysis. The same strong peak was detected by both two models on chromosome 13. Within the 500-kb flanking regions, three candidate genes (Glyma13g32980, Glyma13g33900, Glyma13g33512) had SNPs in their exon regions. Four other genes were located in this region, two of which contained a leucine-rich repeat domain, which is an important characteristic of R genes in plants. These candidate genes could be potentially useful for improving the resistance of cultivated soybean to P.sojae in future soybean breeding.
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China.
authors.forename: Lihong
authors.initials: L
authors.lastname: Li
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China.
authors.forename: Na
authors.initials: N
authors.lastname: Guo
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China.
authors.forename: Jingping
authors.initials: J
authors.lastname: Niu
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China.
authors.forename: Zili
authors.initials: Z
authors.lastname: Wang
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China.
authors.forename: Xiaoxia
authors.initials: X
authors.lastname: Cui
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China.
authors.forename: Jutao
authors.initials: J
authors.lastname: Sun
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China. tjzhao@njau.edu.cn.
authors.forename: Tuanjie
authors.initials: T
authors.lastname: Zhao
authors.affiliation: National Center for Soybean Improvement/National Key Laboratory of Crop Genetics and Germplasm Enhancement/Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, People's Republic of China. xingyuan_2013@163.com.
authors.forename: Han
authors.identifier: http://orcid.org/0000-0003-3200-2572
authors.initials: H
authors.lastname: Xing
mesh_terms: D002874:Chromosome Mapping; D032461:Chromosomes, Plant; D060467:Disease Resistance / Q000235:genetics; D056426:Genetic Loci; D055106:Genome-Wide Association Study / Q000379:methods*; D010838:Phytophthora; D010935:Plant Diseases / Q000235:genetics / Q000469:parasitology; D010940:Plant Proteins / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide; D040641:Quantitative Trait Loci; D013025:Glycine max / Q000235:genetics*
chemical_list: D010940:Plant Proteins
keywords: Genome-wide association mapping; Phytophthora sojae; Single-nucleotide polymorphisms; Soybean