Open access resources for genome-wide association mapping in rice

Susan R. McCouch (), Mark H. Wright, Chih-Wei Tung, Lyza G. Maron, Kenneth L. McNally, Melissa Fitzgerald, Namrata Singh, Genevieve DeClerck, Francisco Agosto-Perez, Pavel Korniliev, Anthony J. Greenberg, Ma. Elizabeth B. Naredo, Sheila Mae Q. Mercado, Sandra E. Harrington, Yuxin Shi, Darcy A. Branchini, Paula R. Kuser-Falcão, Hei Leung, Kowaru Ebana, Masahiro Yano, Georgia Eizenga, Anna McClung and Jason Mezey
Additional contact information
Susan R. McCouch: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Mark H. Wright: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Chih-Wei Tung: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Lyza G. Maron: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Kenneth L. McNally: International Rice Research Institute
Melissa Fitzgerald: International Rice Research Institute
Namrata Singh: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Genevieve DeClerck: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Francisco Agosto-Perez: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Pavel Korniliev: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Anthony J. Greenberg: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Ma. Elizabeth B. Naredo: International Rice Research Institute
Sheila Mae Q. Mercado: International Rice Research Institute
Sandra E. Harrington: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Yuxin Shi: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Darcy A. Branchini: Transnational Learning Center, Cornell University
Paula R. Kuser-Falcão: School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University
Hei Leung: International Rice Research Institute
Kowaru Ebana: National Institute of Agrobiological Sciences
Masahiro Yano: National Institute of Agrobiological Sciences
Georgia Eizenga: USDA–ARS Dale Bumpers National Rice Research Center
Anna McClung: USDA–ARS Dale Bumpers National Rice Research Center
Jason Mezey: Cornell University

Nature Communications, 2016, vol. 7, issue 1, 1-14

Abstract: Abstract Increasing food production is essential to meet the demands of a growing human population, with its rising income levels and nutritional expectations. To address the demand, plant breeders seek new sources of genetic variation to enhance the productivity, sustainability and resilience of crop varieties. Here we launch a high-resolution, open-access research platform to facilitate genome-wide association mapping in rice, a staple food crop. The platform provides an immortal collection of diverse germplasm, a high-density single-nucleotide polymorphism data set tailored for gene discovery, well-documented analytical strategies, and a suite of bioinformatics resources to facilitate biological interpretation. Using grain length, we demonstrate the power and resolution of our new high-density rice array, the accompanying genotypic data set, and an expanded diversity panel for detecting major and minor effect QTLs and subpopulation-specific alleles, with immediate implications for rice improvement.

Date: 2016
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DOI: 10.1038/ncomms10532

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