title: Comparative Genetics of Seed Size Traits in Divergent Cereal Lineages Represented by Sorghum (Panicoidae) and Rice (Oryzoidae).
abstract: Seed size is closely related to fitness of wild plants, and its modification has been a key recurring element in domestication of seed/grain crops. In sorghum, a genomic and morphological model for panicoid cereals, a rich history of research into the genetics of seed size is reflected by a total of 13 likelihood intervals determined by conventional QTL (linkage) mapping in 11 nonoverlapping regions of the genome. To complement QTL data and investigate whether the discovery of seed size QTL is approaching "saturation," we compared QTL data to GWAS for seed mass, seed length, and seed width studied in 354 accessions from a sorghum association panel (SAP) that have been genotyped at 265,487 SNPs. We identified nine independent GWAS-based "hotspots" for seed size associations. Targeted resequencing near four association peaks with the most notable linkage disequilibrium provides further support of the role(s) of these regions in the genetic control of sorghum seed size and identifies two candidate causal variants with nonsynonymous mutations. Of nine GWAS hotspots in sorghum, seven have significant correspondence with rice QTL intervals and known genes for components of seed size on orthologous chromosomes. Identifying intersections between positional and association genetic data are a potentially powerful means to mitigate constraints associated with each approach, and nonrandom correspondence of sorghum (panicoid) GWAS signals to rice (oryzoid) QTL adds a new dimension to the ability to leverage genetic data about this important trait across divergent plants.
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602 Institute of Bioinformatics, University of Georgia, Athens, Georgia 30602.
authors.forename: Dong
authors.initials: D
authors.lastname: Zhang
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602 Institute of Bioinformatics, University of Georgia, Athens, Georgia 30602.
authors.forename: Jingping
authors.initials: J
authors.lastname: Li
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602.
authors.forename: Rosana O
authors.initials: RO
authors.lastname: Compton
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602.
authors.forename: Jon
authors.initials: J
authors.lastname: Robertson
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602.
authors.forename: Valorie H
authors.initials: VH
authors.lastname: Goff
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602.
authors.forename: Ethan
authors.initials: E
authors.lastname: Epps
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602 Department of Crop and Soil Sciences and Department of Genetics, University of Georgia, Athens, Georgia 30602.
authors.forename: Wenqian
authors.initials: W
authors.lastname: Kong
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602.
authors.forename: Changsoo
authors.initials: C
authors.lastname: Kim
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602 Institute of Bioinformatics, University of Georgia, Athens, Georgia 30602 Department of Crop and Soil Sciences and Department of Genetics, University of Georgia, Athens, Georgia 30602 Department of Plant Biology, University of Georgia, Athens, Georgia 30602.
authors.forename: Andrew H
authors.initials: AH
authors.lastname: Paterson
mesh_terms: D002874:Chromosome Mapping; D032461:Chromosomes, Plant; D060146:Ecotype; D002523:Edible Grain / Q000235:genetics; D056726:Genetic Association Studies; D055106:Genome-Wide Association Study; D005838:Genotype; D009929:Organ Size / Q000235:genetics; D012275:Oryza / Q000235:genetics*; D010641:Phenotype; D040641:Quantitative Trait Loci / Q000235:genetics; D019655:Quantitative Trait, Heritable; D012639:Seeds / Q000033:anatomy & histology* / Q000235:genetics*; D045868:Sorghum / Q000235:genetics*; D003313:Zea mays / Q000235:genetics
keywords: genome-wide association studies; quantitative trait locus
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