Genome resources for the elite bread wheat cultivar Aikang 58 and mining of elite homeologous haplotypes for accelerating wheat improvement  

作　　者：Jizeng Jia Guangyao Zhao Danping Li Kai Wang Chuizheng Kong Pingchuan Deng Xueqing Yan Xueyong Zhang Zefu Lu Shujuan Xu Yuannian Jiao Kang Chong Xu Liu Dangqun Cui Guangwei Li Yijing Zhang Chunguang Du Liang Wu Tianbao Li Dong Yan Kehui Zhan Feng Chen Zhiyong Wang Lichao Zhang Xiuying Kong Zhengang Ru Daowen Wang Lifeng Gao 

机构地区：[1]College of Agronomy,Collaborative Innovation Center of Henan Grain Crops,State Key Laboratory of Wheat and Maize Crop Science,and Center for Crop Genome Engineering,Henan Agricultural University,Zhengzhou 450046,Henan,China [2]State Key Laboratory of Crop Gene Resources and Breeding,the National Key Facility for Crop Gene Resources and Genetic Improvement,Insttute of Crop Sciences,Chinese Academy of Agricultural Sciences,Beijing 100081,China [3]School of Life Science and Technology,Henan Institute of Science and Technology,Xinxiang,Henan 453003,China [4]xi'An Shansheng Biosciences Co.,Ltd.,Xi'an 71000,China [5]Zhejang Provincial Key Laboratory of Crop Genetic Resources,College of Agriculture and Biotechnology,Zhejang University,Hangzhou,Zhejiang 310058,China [6]State Key Laboratory of Systematic and Evolutionary Botany,Institute of Botany,Chinese Academy of Sciences,Beijing 100093,China [7]University of Chinese Academy of Sciences,Bejing 100049,China [8]Key Laboratory of Plant Molecular Physiology,Institute of Botany,Chinese Academy of Sciences,Bejing 100093,China [9]State Key Laboratory of Genetic Engineering,Colaborative Innovation Centerof Genetics and Development,Deparment of Biochemistry,Institute of Plant Biology,School of Life Sciences,Fudan University,Shanghai 200438,China [10]Hainan Yazhou Bay Seed Laboratory,Hainan Institute of Zhejiang University,Sanya,Hainan 56200,China [11]State Key Laboratory of Crop Stress Biology in Arid Areas,College of Agronomy,Northwest&F University,Yangling,Shaanxi 612100,China

出　　处：《Molecular Plant》2023年第12期1893-1910,共18页分子植物（英文版）

基　　金：the Collaborative Innovation Center for Henan Grain Crops,the Ministry of Science and Technology of the People's Republic of China(2021YFF1000200);the National Natural Science Foundation of China(Major Program,31991213);the Central Publicinterest Scientific Institution Basal Research Fund(Y2021YJ01);the Major Public Welfare Projects of Henan Province(201300110800);the Key Research and Development Program of China(2016YFD0100102);the CAAS Agricultural Science and Technology Innovation Program(CAASZDRW202002);the seed innovation program of the Ministry of Agriculture and Rural Affairs of China,and the Henan Provincial R&D Projects of Interregional Cooperation for Local Scientific and Technological Development Guided by the Central Government(YDZX20214100004191).

摘　　要：Despite recent progress in crop genomics studies,the genomic changes brought about by modern breeding selection are still poorly understood,thus hampering genomics-assisted breeding,especially in polyploid crops with compound genomes such as common wheat(Triticum aestivum).In this work,we constructed genome resources for the modern elite common wheat variety Aikang 58(AK58).Comparative genomics between AK58 and the landrace cultivar Chinese Spring(CS)shed light on genomic changes that occurred through recent varietal improvement.We also explored subgenome diploidization and divergence in common wheat and developed a homoeologous locus-based genome-wide association study(HGWAS)approach,which was more effective than single homoeolog-based GWAS in unraveling agronomic trait-associated loci.A total of 123 major HGWAs loci were detected using a genetic population derived from AK58 and cs.Elite homoeologous haplotypes(HHs),formed by combinations of subgenomic homoeologs of the associated loci,were found in both parents and progeny,and many could substantially improve wheat yield and related traits.We built a website where users can download genome assembly sequence and annotation data for AK58,perform blast analysis,and run JBrowse.Our work enriches genome resources for wheat,provides new insights into genomic changes during modern wheat improve-.ment,and suggests that efficientmining of elite HHs can make a substantial contribuutionto genomics-assisted breeding in common wheat and other polyploid crops.

关 键 词：common wheat genome sequencing subgenome diploidization and divergence homoeologous Iocus-based GWAs homoeologous haplotypes polyploid crops 

分 类 号：S512.1[农业科学—作物学] Q943.2[生物学—植物学]