title: Genome wide analysis of flowering time trait in multiple environments via high-throughput genotyping technique in Brassica napus L.
abstract: The prediction of the flowering time (FT) trait in Brassica napus based on genome-wide markers and the detection of underlying genetic factors is important not only for oilseed producers around the world but also for the other crop industry in the rotation system in China. In previous studies the low density and mixture of biomarkers used obstructed genomic selection in B. napus and comprehensive mapping of FT related loci. In this study, a high-density genome-wide SNP set was genotyped from a double-haploid population of B. napus. We first performed genomic prediction of FT traits in B. napus using SNPs across the genome under ten environments of three geographic regions via eight existing genomic predictive models. The results showed that all the models achieved comparably high accuracies, verifying the feasibility of genomic prediction in B. napus. Next, we performed a large-scale mapping of FT related loci among three regions, and found 437 associated SNPs, some of which represented known FT genes, such as AP1 and PHYE. The genes tagged by the associated SNPs were enriched in biological processes involved in the formation of flowers. Epistasis analysis showed that significant interactions were found between detected loci, even among some known FT related genes. All the results showed that our large scale and high-density genotype data are of great practical and scientific values for B. napus. To our best knowledge, this is the first evaluation of genomic selection models in B. napus based on a high-density SNP dataset and large-scale mapping of FT loci.
authors: College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, China; Hubei Bioinformatics and Molecular Imaging Key Laboratory, Huazhong University of Science and Technology, Wuhan, China.
authors: Lun
authors: L
authors: Li
authors: National Key Lab of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, China.
authors: Yan
authors: Y
authors: Long
authors: College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, China; Hubei Bioinformatics and Molecular Imaging Key Laboratory, Huazhong University of Science and Technology, Wuhan, China.
authors: Libin
authors: L
authors: Zhang
authors: School of Agriculture & Food Sciences, The University of Queensland, Brisbane, Australia.
authors: Jessica
authors: J
authors: Dalton-Morgan
authors: School of Agriculture & Food Sciences, The University of Queensland, Brisbane, Australia.
authors: Jacqueline
authors: J
authors: Batley
authors: College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, China.
authors: Longjiang
authors: L
authors: Yu
authors: National Key Lab of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China.
authors: Jinling
authors: J
authors: Meng
authors: College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, China.
authors: Maoteng
authors: M
authors: Li
mesh_terms: D029688:Brassica napus / Q000235:genetics* / Q000254:growth & development; D002874:Chromosome Mapping; D035264:Flowers / Q000235:genetics* / Q000254:growth & development; D056726:Genetic Association Studies; D008040:Genetic Linkage; D018745:Genome, Plant; D005838:Genotype; D060005:Genotyping Techniques; D057166:High-Throughput Screening Assays; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D040641:Quantitative Trait Loci / Q000235:genetics*