23605 Population Structure Analysis and Association Mapping of Seed Antioxidant Content in USDA Cowpea (Vigna unguiculata L. Walp.) Core Collection Using SNPs

Tuesday, August 9, 2016
Georgia Ballroom (Sheraton Hotel Atlanta)
Jun Qin , University of Arkansas, Fayetteville, AR
Haizheng Xiong , University of Arkansas, Fayetteville, AR
Ainong Shi , University of Arkansas, Fayetteville, AR
Beiquan Mou , USDA-ARS, Salinas, CA, United States
Dennis Motes , University of Arakansas, Alma, AR
J. Creighton Miller Creighton Jr , Texas A&M University, College Station
Douglas C. Scheuring , Texas A&M University, College Station
M. Ndambe Nzaramba , Texas A&M University, College Station
Yuejin Weng , University of Arkansas, Fayetteville, AR
Wei Yang , University of Arkansas, Fayetteville, AR
Poster Presentations
  • CowpeaAntioxidant_Jun_update_05142016.pdf (694.2 kB)
    • Cowpea (Vigna unguiculata (L) Walp.) is an important legume, and the antioxidant content in cowpea seeds has been recognized as a health-promoting compound for humans. The objectives of this study were to analyze the population structure of cowpea collections using single nucleotide polymorphism (SNP) and to identify SNP markers associated with the seed antioxidant content in cowpea. A total of 1,047 SNPs were used to analyze 369 cowpea accessions from the core collection, originally collected from 47 countries. The STRUCTURE, TASSEL, and MEGA software programs were used to analyze the population structure and genetic diversity. Single marker regression (SMR), general linear model (GLM), and mixed linear model (MLM) in Tassel were used for association analysis between the SNPs and the phenotypic data of the seed antioxidant context and seed coat color. Results indicated that: (1) There was wide genetic variation in seed antioxidant content and coat color in the cowpea population and there were three clusters in the 369 entries based on SNP data; and the germplasm collected from India, South Africa, and the US showed broader genetic backgrounds. (2) Although different SNP markers were found to be associated with seed antioxidant content and seed coat colors with different models, the two SNP markers, Scaffold7139_14363 and scaffold29110_4657 were strongly associated with antioxidant content, and  three SNP markers, C35063613_1497, scaffold81493_886, and scaffold84620_6785, were  strongly associated with seed coat color across three models; (3)  Significant correlations were detected between the seed antioxidant content and black seed color (correlation coefficient= 0.45), between seed antioxidant content and red seed coat color (r = 0.50); and (4) Two SNP markers, Scaffold42008_191 and C35082838_2258, were associated with both seed antioxidant content and seed coat color, simultaneously. The SNP markers identified in this study could potentially be used in marker-assisted breeding to accelerate genetic improvement of cowpea for higher seed antioxidant content.
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