Genome-wide association mapping of quantitative resistance to sudden death syndrome in soybean

BMC Genomics

Dechun Wang²  Perry B Cregan³  Qijian Song³  Cathy Schmidt¹  Martin I Chilvers²  Shichen Zhang²  Wenyan Du²  Carmille Bales²  Jiazheng Yuan²  Ruijuan Tan²  Zixiang Wen² 

[1] Agronomy Research Center, Southern Illinois University Carbondale, Carbondale, Illinois 62903-7002, USA;Department of Plant, Soil and Microbial Sciences, Michigan State University, 1066 Bogue St., Rm. A384-E, East Lansing, MI 48824, USA;USDA, Agricultural Research Service, Soybean Genomics and Improvement Laboratory, Beltsville, Maryland 20705, USA

关键词: Quantitative trait loci mapping;    SNPs;    Fusarium virguliforme;    Glycine max;    Genome wide association mapping;   

Others  :  1139552
DOI  :  10.1186/1471-2164-15-809

 received in 2014-05-08, accepted in 2014-08-18,  发布年份 2014

【 摘 要 】

Background

Sudden death syndrome (SDS) is a serious threat to soybean production that can be managed with host plant resistance. To dissect the genetic architecture of quantitative resistance to the disease in soybean, two independent association panels of elite soybean cultivars, consisting of 392 and 300 unique accessions, respectively, were evaluated for SDS resistance in multiple environments and years. The two association panels were genotyped with 52,041 and 5,361 single nucleotide polymorphisms (SNPs), respectively. Genome-wide association mapping was carried out using a mixed linear model that accounted for population structure and cryptic relatedness.

Result

A total of 20 loci underlying SDS resistance were identified in the two independent studies, including 7 loci localized in previously mapped QTL intervals and 13 novel loci. One strong peak of association on chromosome 18, associated with all disease assessment criteria across the two panels, spanned a physical region of 1.2 Mb around a previously cloned SDS resistance gene (GmRLK18-1) in locus Rfs2. An additional variant independently associated with SDS resistance was also found in this genomic region. Other peaks were within, or close to, sequences annotated as homologous to genes previously shown to be involved in plant disease resistance. The identified loci explained an average of 54.5% of the phenotypic variance measured by different disease assessment criteria.

Conclusions

This study identified multiple novel loci and refined the map locations of known loci related to SDS resistance. These insights into the genetic basis of SDS resistance can now be used to further enhance durable resistance to SDS in soybean. Additionally, the associations identified here provide a basis for further efforts to pinpoint causal variants and to clarify how the implicated genes affect SDS resistance in soybean.

【 授权许可】

   
2014 Wen et al.; licensee BioMed Central Ltd.

【 图 表 】

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