Genome-wide SNP Genotyping Resolves Signatures of Selection and Tetrasomic Recombination in Peanut
Genome-wide SNP Genotyping Resolves Signatures of Selection and Tetrasomic Recombination in Peanut作者机构：Department of Horticulture and Institute of Plant Breeding Genetics & Genomics The University of Georgia 2356 Rainwater Road Tifton GA 31793 USA Center for Applied Genetic Technologies and Institute of Plant Breeding Genetics & Genomics The University of Georgia Athens GA 30602 USA International Crops Research Institute for the Semi-Arid Tropics (ICRISAT) Hyderabad 502324 India University of Brasilia Institute of Biological Sciences Campus Darcy Ribeiro 70910-900 Brasilia DF Brazil Embrapa Genetic Resources and Biotechnology 70770-917 Brasflia DF Brazil eUSDA-ARS PGRCU Griffin GA 30223 USA Agricultural Research Organization Plant Sciences Institute 7528809 Rishon LeZion Israel Department of Plant and Soil Science Texas Tech University Lubbock TX 79409-2122 USA Department of Crop and Soil Sciences North Carolina State University Box 7629 Raleigh NC 28695-7629 USA USDA-ARS Tifton GA 31793. USA
出 版 物：《Molecular Plant》 (分子植物（英文版）)
年 卷 期：2017年第10卷第2期
页 面：309-322页
核心收录：
学科分类：0710[理学-生物学] 071010[理学-生物化学与分子生物学] 081704[工学-应用化学] 07[理学] 08[工学] 0817[工学-化学工程与技术] 09[农学] 0901[农学-作物学]
基 金：the Feed the Future Innovation Lab for Collaborative Research on Peanut Productivity and Mycotoxin Control (Peanut and Mycotoxin Innovation Lab) supported by funding from the United States Agency for International Development (USAID) (P.O.-A.,S.A.J., D.J.B., R.K.V., M.B.) the US-Israel Binational Agricultural R&D Fund (BARD) project (P.O.-A., R.H., S.A.J.) the Agriculture and Food Research Initiative competitive of the USDA National Institute of Food and Agriculture (P.O.-A., C.C.H.) the Peanut Foundation (P.O.-A., S.A.J., R.K.V.), and Bill & Melinda Gates Foundation funded Tropical Legumes III project (R.K.V.)
主 题：single nucleotide polymorphism groundnut Arachis hypogaea
摘 要：Peanut （Arachis hypogaea; 2n = 4x = 40） is a nutritious food and a good source of vitamins, minerals, and healthy fats. Expansion of genetic and genomic resources for genetic enhancement of cultivated peanut has gained momentum from the sequenced genomes of the diploid ancestors of cultivated peanut. To facil- itate high-throughput genotyping of Arachis species, 20 genotypes were re-sequenced and genome-wide single nucleotide poiymorphisms （SNPs） were selected to develop a large-scale SNP genotyping array. For flexibility in genotyping applications, SNPs polymorphic between tetraploid and diploid species were included for use in cultivated and interspecific populations. A set of 384 accessions was used to test the array resulting in 54 564 markers that produced high-quality polymorphic clusters between diploid species, 47 116 polymorphic markers between cultivated and interspecific hybrids, and 15 897 polymorphic markers within A. hypogaea germplasm. An additional 1193 markers were identified that illuminated genomic re- gions exhibiting tetrasomic recombination. Furthermore, a set of elite cultivars that make up the pedigree of US runner germplasm were genotyped and used to identify genomic regions that have undergone pos- itive selection. These observations provide key insights on the inclusion of new genetic diversity in culti- vated peanut and will inform the development of high-resolution mapping populations. Due to its efficiency, scope, and flexibility, the newly developed SNP array will be very useful for further genetic and breeding applications in Arachis.
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