Genome wide analysis of flowering time trait in multiple environments via high-throughput genotyping technique in Brassica napus L

PloS One
Lun LiMaoteng Li

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, e...Continue Reading

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Citations

Feb 27, 2016·The Plant Journal : for Cell and Molecular Biology·Luca BiancoMichela Troggio
Dec 14, 2017·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Qinghong ZhouYingjin Huang
Jun 17, 2020·The New Phytologist·Imre M JánosiPéter Csontos
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Jun 4, 2018·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Luke W PembletonNoel O I Cogan
May 26, 2021·Plant Biotechnology Journal·Dandan HuJun Zou

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Methods Mentioned

BETA
genotyping
chip

Software Mentioned

BLUP
DAVID Functional Annotation Table Tool
BGLR
BayesA
MARS
rrBLUP
rrBLUP ’
BLASTP
bowtie2
Genomestudio

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