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United States Department of Agriculture

Agricultural Research Service


Location: Corn Host Plant Resistance Research

Title: Genetic analysis and characterization of a new maize association mapping panel for quantitative trait loci dissesction

item Yang, Xiaohong
item Yan, Jianging
item Shah, Trushar
item Warburton, Marilyn
item Li, Qing
item Li, Lin
item Gao, Yufeng
item Chai, Yuchao
item Fu, Zhiyuan
item Zhou, Yi
item Xu, Shutu
item Bai, Guanghong
item Yijiang, Meng
item Zheng, Yanping
item Li, Jiansheng

Submitted to: Theoretical and Applied Genetics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 3/5/2010
Publication Date: 8/1/2010
Citation: Yang, X., Yan, J., Shah, T., Warburton, M.L., Li, Q., Li, L., Gao, Y., Chai, Y., Fu, Z., Zhou, Y., Xu, S., Bai, G., Yijiang, M., Zheng, Y., Li, J. 2010. Genetic Analysis and Characterization of a New Maize Association Mapping Panel for Quantitative Trait Loci Dissesction. Theoretical and Applied Genetics. 121:417-431.

Interpretive Summary: Crop improvement relies on the existence and identification of DNA sequence variation within the genes encoding traits of interest. Association mapping allows the identification of genes that encode these traits, including complex traits. This allows more efficient improvement of these complex traits, which have always been recalcitrant to traditional breeding methods. A new temperate maize association mapping panel is presented here that contains germplasm not yet incorporated into previously published mapping panels. This study documents sufficient new phenotypic and marker diversity present in this panel to make it useful for association for multiple agronomic and quality traits, and can be used to identify new genes and new sequence variation not present in the previously published panels.

Technical Abstract: Association mapping based on linkage disequilibrium provides a promising method to identify genes responsible for quantitative variation underlying complex traits. Presented here is a maize association mapping panel consisting of 155 diverse (mainly temperate inbred lines) suitable for marker-trait analysis. This association panel encompasses broad genetic diversity and a wide variation of phenotypic diversity. A model-based analysis using 82 SSRs assigned all inbred lines to two groups with eight subgroups. Genetic diversity within groups identified by the model was similar, but varied within subgroups. The relative kinship analysis using 884 SNPs with minor allele frequency over 20% indicated complex familial relationship in this association panel. A total of 89 data sets related to 35 traits with high broad-sense heritability (65.3% to 97.8%), was collected in this association panel. All the measured traits showed a high level of variability with the maximum fold-change ranging from 1.4 to 145.2. In general, the measured traits were weakly correlated with population structure, with the percentage of phenotypic variation explained by population structure ranging from 0 to 23%. All these features make this association panel suitable for association mapping targeting multiple agronomic and quality traits.

Last Modified: 06/21/2017
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