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Genetic Characterization of the Soybean Nested Association Mapping Population

Qijian SongLong YanInstitute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences Shijiazhuang 050035 ChinaCharles QuigleyBrandon D. JordanDep. of Crop Sciences Univ. of Illinois 268 National Soybean Research Center, 1101 West Peabody Drive Urban IL 61801Edward FickusSteven SchroederUSDA–ARS, Animal Genomics and Improvement Laboratory Beltsville MD 20705Bao‐Hua SongDep. of Biological Sciences Univ. of North Carolina at Charlotte Charlotte NC 28223Yong‐qiang Charles AnUSDA–ARS, Plant Genetics Research Unit at Donald Danforth Plant Sciences Center Saint Louis MissouriDavid L. HytenDep. of Agronomy and Horticulture Univ. of Nebraska Lincoln NE 68583Randall L. NelsonUSDA–ARS, Soybean/Maize Germplasm, Pathology and Genetics Research Unit and Dep. of Crop Sciences Univ. of Illinois Urbana IL 61801Katy Martin RaineyDep. of Agronomy Purdue Univ. Lilly 2‐351 West Lafayette IN 47906William D. BeavisDep. of Agronomy Iowa State Univ. Ames Iowa 50011Jim SpechtDep. of Agronomy and Horticulture Univ. of Nebraska Lincoln NE 68583 USABrian W. DiersDep. of Crop Sciences Univ. of Illinois 268 National Soybean Research Center, 1101 West Peabody Drive Urban IL 61801Perry B. Cregan

2017en

ABI

Annotatsiya

A set of nested association mapping (NAM) families was developed by crossing 40 diverse soybean [ (L.) Merr.] genotypes to the common cultivar. The 41 parents were deeply sequenced for SNP discovery. Based on the polymorphism of the single-nucleotide polymorphisms (SNPs) and other selection criteria, a set of SNPs was selected to be included in the SoyNAM6K BeadChip for genotyping the parents and 5600 RILs from the 40 families. Analysis of the SNP profiles of the RILs showed a low average recombination rate. We constructed genetic linkage maps for each family and a composite linkage map based on recombinant inbred lines (RILs) across the families and identified and annotated 525,772 high confidence SNPs that were used to impute the SNP alleles in the RILs. The segregation distortion in most families significantly favored the alleles from the female parent, and there was no significant difference of residual heterozygosity in the euchromatic vs. heterochromatic regions. The genotypic datasets for the RILs and parents are publicly available and are anticipated to be useful to map quantitative trait loci (QTL) controlling important traits in soybean.

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Identifikatorlar

DOI: 10.3835/plantgenome2016.10.0109

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