Plant genome resequencing and population genomics:Current status and future prospects  

作　　者：Bo Song Weidong Ning Di Wei Mengyun Jiang Kun Zhu Xingwei Wang David Edwards Damaris AOdeny Shifeng Cheng 

机构地区：[1]Shenzhen Branch,Guangdong Laboratory of Lingnan Modern Agriculture,Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs,Agricultural Genomics Institute at Shenzhen,Chinese Academy of Agricultural Sciences,Shenzhen 518120,China [2]Huazhong Agricultural University,College of Informatics,Hubei Key Laboratory of Agricultural Bioinformatics,Wuhan,Hubei,China [3]Biotechnology Research Institute,Guangxi Academy of Agricultural Sciences,Nanning 53007,China [4]State Key Laboratory of Crop Stress Adaptation and Improvement,School of Life Sciences,Henan University,Kaifeng 475004,China [5]Shenzhen Research Institute of Henan University,Shenzhen 518000,China [6]School of Biological Sciences and Institute of Agriculture,University of Western Australia,Perth,WA,Australia [7]International Crops Research Institute for the Semi-Arid Tropics(ICRISAT)-Eastern and Southern Africa,Nairobi,Kenya

出　　处：《Molecular Plant》2023年第8期1252-1268,共17页分子植物（英文版）

基　　金：supported by the National Key Research and Development Program of China(2020YFE0202300);Science and Technology Major Project of Guangxi(GuiKeAA20108005-2);Guangdong Innovation Research Team Fund(grant number:2014ZT05S078);National Key Research and Development Program of China(2019YFA0707000).No conflict of interest declared.

摘　　要：Advances in DNA sequencing technology have sparked a genomics revolution,driving breakthroughs in plant genetics and crop breeding.Recently,the focus has shifted from cataloging genetic diversity in plants to exploring their functional significance and delivering beneficial alleles for crop improvement.This transformation has been facilitated by the increasing adoption of whole-genome resequencing.In this review,we summarize the current progress of population-based genome resequencing studies and how these studies affect crop breeding.A total of 187 land plants from 163 countries have been resequenced,comprising 54413 accessions.As part of resequencing efforts 367 traits have been surveyed and 86 genome-wide association studies have been conducted.Economically important crops,particularly cereals,vegetables,and legumes,have dominated the resequencing efforts,leaving a gap in 49 orders,including Lycopodiales,Liliales,Acorales,Austrobaileyales,and Commelinales.The resequenced germplasm is distributed across diverse geographic locations,providing a global perspective on plant genomics.We highlight genes that have been selected during domestication,or associated with agronomic traits,and form a repository of candidate genes for future research and application.Despite the opportunities for cross-species comparative genomics,many population genomic datasets are not accessible,impeding secondary analyses.We call for a more open and collaborative approach to population genomics that promotes data sharing and encourages contribution-based credit policy.The number of plant genome resequencing studies will continue to rise with the decreasing DNA sequencing costs,coupled with advances in analysis and computational technologies.This expansion,in terms of both scale and quality,holds promise for deeper insights into plant trait genetics and breeding design.

关 键 词：WGRS WGS RESEQUENCING genome variation ADAPTATION 

分 类 号：Q94[生物学—植物学]