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Resequencing of 429 chickpea accessions from 45 countries provides insights into genome diversity, domestication and agronomic traits

Rajeev K Varshney 1 Mahendar Thudi 1 Manish Roorkiwal 1 Weiming He 2 Hari D. Upadhyaya 1 Wei yang 2 Prasad Bajaj 1 Philippe Cubry 3 Abhishek Rathore 1 Jianbo Jian 2 Dadakhalandar Doddamani 1 Aamir Khan 1, 4 Vanika Garg 1, 5 Annapurna Chitikineni 1 Dawen Xu 2 Pooran M. Gaur 1 Narendra Pratap Singh 6 Sushil K. Chaturvedi 6 Gangarao V. P. R. Nadigatla Lakshmanan Krishnamurthy 1 Girish Prasad Dixit 6 Asnake Fikre Paul Kimurto 7 Sheshshayee M. Sreeman Chellapilla Bharadwaj 6 Shailesh Tripathi Jun Wang 2 Suk-Ha Lee 8 David Edwards 4 Kavi Kishor Bilhan Polavarapu 5 R. Varma Penmetsa 9 José Crossa 10 Henry T. Nguyen 11 Kadambot H. M. Siddique 4 Timothy D. Colmer 4 Tim Sutton 12 Eric von Wettberg 13 yves Vigouroux 3 Xun Xu 2 Xin Liu 2 
1 ICRISAT - International Crops Research Institute for the Semi-Arid Tropics [Inde]
2 BGI - Beijing Genomics Institute [Shenzhen]
3 UMR DIADE - Diversité, adaptation, développement des plantes
4 UWA - The University of Western Australia
5 Osmania University
6 ICAR - Indian Council of Agricultural Research
7 Egerton University
8 SNU - Seoul National University [Seoul]
9 UC Davis - University of California [Davis]
10 CIMMYT - International Maize and Wheat Improvement Center
11 Mizzou - University of Missouri [Columbia]
12 University of South Australia [Adelaide]
13 University of Vermont [Burlington]
Abstract : We report a map of 4.97 million single-nucleotide polymorphisms of the chickpea from whole-genome resequencing of 429 lines sampled from 45 countries. We identified 122 candidate regions with 204 genes under selection during chickpea breeding. Our data suggest the Eastern Mediterranean as the primary center of origin and migration route of chickpea from the Mediterranean/Fertile Crescent to Central Asia, and probably in parallel from Central Asia to East Africa (Ethiopia) and South Asia (India). Genome-wide association studies identified 262 markers and several candidate genes for 13 traits. Our study establishes a foundation for large-scale characterization of germplasm and population genomics, and a resource for trait dissection, accelerating genetic gains in future chickpea breeding.
Keywords : Domestication Genome-wide Association Studies Genetic markers Genetic variation Phylogeny Plant breeding Hight-throughput sequencing
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https://hal.umontpellier.fr/hal-03373029
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Soumis le : lundi 11 octobre 2021 - 11:49:13
Dernière modification le : mercredi 3 novembre 2021 - 07:59:55

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Rajeev K Varshney, Mahendar Thudi, Manish Roorkiwal, Weiming He, Hari D. Upadhyaya, et al.. Resequencing of 429 chickpea accessions from 45 countries provides insights into genome diversity, domestication and agronomic traits. Nature Genetics, Nature Publishing Group, 2019, 51 (5), pp.857-864. ⟨10.1038/s41588-019-0401-3⟩. ⟨hal-03373029⟩

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