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Whole-genome resequencing of a world-wide collection of rapeseed accessions reveals genetic basis of their ecotype divergence.
Mol Plant. 2018 Nov 22;:
Authors: Wu D, Liang Z, Yan T, Xu Y, Xuan L, Tang J, Zhou G, Lohwasser U, Hua S, Wang H, Chen X, Wang Q, Zhu L, Maodzeka A, Hussain N, Li Z, Li X, Shamsi IH, Jilani G, Wu L, Zheng H, Zhang G, Chalhoub B, Shen L, Yu H, Jiang L
Abstract
Rapeseed (Brassica napus L.), an important oilseed crop, has adapted to diverse climate zones and latitudes by forming three main ecotype groups, namely winter, semi-winter and spring types. Genomic variations underlying these ecotypes are largely unknown. Here, we report the global pattern of genetic polymorphisms of rapeseed by resequencing a world-wide collection of 991 germplasm accessions. A total of 5.56 or 5.53 million single nucleotide polymorphisms (SNPs) and 1.86 or 1.92 million InDels were identified by mapping reads to the reference genomes of 'Darmor-bzh' or 'Tapidor', respectively. We generated allelic drifting paths that show splits and mixtures of the main populations. The genetic diversity and linkage disequilibrium parameters indicate an asymmetric evolution of the two subgenomes of B. napus. The selective-sweep analysis revealed genetic changes in genes orthologous to those regulating various aspects of plant development and response to stresses. Further genome-wide association study identified SNPs in promoter regions of FLOWERING LOCUS T and FLOWERING LOCUS C orthologs, which specifically corresponded to different rapeseed ecotypes. Our study provides important insights into genomic footprints of the evolution of rapeseed and the flowering time divergence among three ecotypes, and will facilitate screening of molecular markers for accelerating rapeseed breeding.
PMID: 30472326 [PubMed - as supplied by publisher]
from PubMed via alexandrossfakianakis on Inoreader https://ift.tt/2DGWKoR
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