LIANG, Yi‐Ye; SHI, Yong; YUAN, Shuai; ZHOU, Biao‐feng; CHEN, Xue‐yan; AN, Qing‐qing; INGVARSSON, Pär; PLOMION, Christophe; WANG, Baosheng

doi:10.1111/nph.17793

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LIANG, Yi‐Ye
Key Laboratory of Plant Resources Conservation and Sustainable Utilization [Chinese Academy of Sciences]
University of Chinese Academy of Sciences [Beijing] [UCAS]

SHI, Yong
Research Center on Fictitious Economy & Data Science [FEDS]

YUAN, Shuai
Key Laboratory of Plant Resources Conservation and Sustainable Utilization [Chinese Academy of Sciences]

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Article de revue

Ce document a été publié dans

New Phytologist. 2021

Wiley

Date de soutenance

2021

Résumé en anglais

Natural selection shapes genome-wide patterns of diversity within species and divergence between species. However, quantifying the efficacy of selection and elucidating the relative importance of different types of selection in shaping genomic variation remain challenging. We sequenced whole genomes of 101 individuals of three closely related oak species to track the divergence history, and to dissect the impacts of selective sweeps and background selection on patterns of genomic variation. We estimated that the three species diverged around the late Neogene and experienced a bottleneck during the Pleistocene. We detected genomic regions with elevated relative differentiation ('F-ST-islands'). Population genetic inferences from the site frequency spectrum and ancestral recombination graph indicated that F-ST-islands were formed by selective sweeps. We also found extensive positive selection; the fixation of adaptive mutations and reduction neutral diversity around substitutions generated a signature of selective sweeps. Prevalent negative selection and background selection have reduced genetic diversity in both genic and intergenic regions, and contributed substantially to the baseline variation in genetic diversity. Our results demonstrate the importance of linked selection in shaping genomic variation, and illustrate how the extent and strength of different selection models vary across the genome.< Réduire

Mots clés en anglais

ancestral recombination graph

background selection

genomic variation

linked selection

Quercus

recombination rate

selective sweeps