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Loci and candidate gene identification for resistance to Phytophthora sojae via association analysis in soybean [Glycine max (L.) Merr.]
- Li, Lihong, Guo, Na, Niu, Jingping, Wang, Zili, Cui, Xiaoxia, Sun, Jutao, Zhao, Tuanjie, Xing, Han
- Molecular genetics and genomics 2016 v.291 no.3 pp. 1095-1103
- Glycine max, Phytophthora sojae, breeding, crop production, disease resistance, exons, genes, genome-wide association study, germplasm, loci, models, plant pathogens, quantitative trait loci, root rot, single nucleotide polymorphism, soybeans
- 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.