文献类型： 外文期刊

作者： Varshney, Rajeev K. ¹ ; Roorkiwal, Manish ¹ ; Sun, Shuai ³ ; Bajaj, Prasad ¹ ; Chitikineni, Annapurna ¹ ; Thudi, Ma ¹ ;

作者机构： 1.Int Crops Res Inst Semi Arid Trop, Ctr Excellence Gen & Syst Biol, Hyderabad, India

2.Murdoch Univ, State Agr Biotechnol Ctr, Ctr Crop & Food Innovat, Murdoch, WA, Australia

3.BGI Qingdao, BGI Shenzhen, Qingdao, Peoples R China

4.China Natl GeneBank, BGI Shenzhen, Shenzhen, Peoples R China

5.Univ Chinese Acad Sci, Coll Life Sci, Beijing, Peoples R China

6.Inst Crop Germplasm Resources, Shandong Acad Agr Sci SAAS, Jinan, Peoples R China

7.Indian Inst Pulses Res, Kanpur, India

8.Genebank, ICRISAT, Hyderabad, India

9.Univ Georgia, Athens, GA USA

10.BGI Shenzhen, Shenzhen, Peoples R China

11.State Key Lab Agr Gen, BGI Shenzhen, Shenzhen, Peoples R China

12.Univ Western Australia, UWA Inst Agr, Perth, WA, Australia

13.Univ Western Australia, Sch Agr & Environm, Perth, WA, Australia

14.Int Maize & Wheat Improvement Ctr CIMMYT, Biometr & Stat Unit, Texcoco, Mexico

15.Skolkovo Inst Sci & Technol, Digital Agr Lab, Moscow, Russia

16.Univ Queensland, Queensland Alliance Agr & Food Innovat, St Lucia, Qld, Australia

17.Int Rice Res Inst IRRI, South Asia Hub, ICRISAT, Hyderabad, India

18.Univ Toulouse, Lab Ecol Fonct Environm, CNRS, Toulouse, France

19.Cornell Univ, Inst Gen Divers, Ithaca, NY USA

20.Univ Saskatchewan, Dept Plant Sci, Saskatoon, SK, Canada

21.Indian Agr Res Inst IARI, New Delhi, India

22.Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalay, Gwalior, India

23.Junagadh Agr Univ, Junagadh, India

24.Rajasthan Agr Res Inst RARI, Durgapur, India

25.Univ Nebraska Lincoln, Dept Agron & Hort, Lincoln, NE USA

26.Univ Montpellier, DIADE Divers Adaptat Dev Plants, Inst Rech Dev IRD, Montpellier, France

27.Int Ctr Agr Res Dry Areas ICARDA, Cairo, Egypt

28.Int Ctr Agr Res Dry Areas ICARDA, Rabat, Morocco

29.Rani Lakshmi Bai Cent Agr Univ, Jhansi, India

30.Natl Inst Plant Genome Res, New Delhi, India

31.Univ Nebraska Lincoln, Dept Stat, Lincoln, NE USA

32.Univ Arizona, Sch Plant Sci, Tucson, AZ USA

33.Univ Vermont, Dept Plant & Soil Sci, Burlington, VT USA

34.Univ Calcutta, Kolkata, India

35.Guangdong Prov Acad Workstat BGI Synthet Genom, BGI Shenzhen, Shenzhen, Peoples R China

36.Univ Missouri, Div Plant Sci, Columbia, MO USA

37.James D Watson Inst Genome Sci, Hangzhou, Peoples R China

38.Indian Council Agr Res ICAR, New Delhi, India

39.Univ Georgia, Dept Genet, Athens, GA USA

40.Guangdong Prov Key Lab Genome Read & Write, BGI Shenzhen, Shenzhen, Peoples R China

41.BGI Beijing, BGI Shenzhen, Beijing, Peoples R China

42.BGI Fuyang, BGI Shenzhen, Fuyang, Peoples R China

期刊名称：NATURE （ 影响因子：49.962； 五年影响因子：54.637 ）

ISSN： 0028-0836

年卷期： 2021 年 599 卷 7886 期

页码：

收录情况： SCI

摘要： Zero hunger and good health could be realized by 2030 through effective conservation, characterization and utilization of germplasm resources(1). So far, few chickpea (Cicerarietinum) germplasm accessions have been characterized at the genome sequence level(2). Here we present a detailed map of variation in 3,171 cultivated and 195 wild accessions to provide publicly available resources for chickpea genomics research and breeding. We constructed a chickpea pan-genome to describe genomic diversity across cultivated chickpea and its wild progenitor accessions. A divergence tree using genes present in around 80% of individuals in one species allowed us to estimate the divergence of Cicer over the last 21 million years. Our analysis found chromosomal segments and genes that show signatures of selection during domestication, migration and improvement. The chromosomal locations of deleterious mutations responsible for limited genetic diversity and decreased fitness were identified in elite germplasm. We identified superior haplotypes for improvement-related traits in landraces that can be introgressed into elite breeding lines through haplotype-based breeding, and found targets for purging deleterious alleles through genomics-assisted breeding and/or gene editing. Finally, we propose three crop breeding strategies based on genomic prediction to enhance crop productivity for 16 traits while avoiding the erosion of genetic diversity through optimal contribution selection (OCS)-based pre-breeding. The predicted performance for 100-seed weight, an important yield-related trait, increased by up to 23% and 12% with OCS- and haplotype-based genomic approaches, respectively.