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

Varshney, Rajeev K. and Thudi, Mahendar and Roorkiwal, Manish and He, Weiming and Upadhyaya, Hari D. and Yang, Wei and Bajaj, Prasad and Cubry, Philippe and Rathore, Abhishek and Jian, Jianbo and Doddamani, Dadakhalandar and Khan, Aamir W. and Garg, Vanika and Chitikineni, Annapurna and Xu, Dawen and Gaur, Pooran M. and Singh, Narendra P. and Chaturvedi, Sushil K. and Nadigatla, Gangarao V. P. R. and Krishnamurthy, Lakshmanan and Dixit, G. P. and Fikre, Asnake and Kimurto, Paul K. and Sreeman, Sheshshayee M. and Bharadwaj, Chellapilla and Tripathi, Shailesh and Wang, Jun and Lee, Suk-Ha and Edwards, David and Polavarapu, Kavi Kishor Bilhan and Penmetsa, R. Varma and Crossa, Jose and Nguyen, Henry T. and Siddique, Kadambot H. M. and Colmer, Timothy D. and Sutton, Tim and von Wettberg, Eric and Vigouroux, Yves and Xu, Xun and Liu, Xin (2019) Resequencing of 429 chickpea accessions from 45 countries provides insights into genome diversity, domestication and agronomic traits. Nature Genetics, 51. pp. 857-864. ISSN 1061-4036


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.


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Item Type: Article (Commonwealth Reporting Category C)
Refereed: Yes
Item Status: Live Archive
Additional Information: Files associated with this item cannot be displayed due to copyright restrictions.
Faculty/School / Institute/Centre: Current - Institute for Life Sciences and the Environment - Centre for Crop Health (24 Mar 2014 -)
Faculty/School / Institute/Centre: Current - Institute for Life Sciences and the Environment - Centre for Crop Health (24 Mar 2014 -)
Date Deposited: 02 Feb 2020 23:27
Last Modified: 03 Feb 2020 00:44
Uncontrolled Keywords: chickpea, Genome-wide association studies, whole-genome resequencing
Fields of Research : 07 Agricultural and Veterinary Sciences > 0703 Crop and Pasture Production > 070305 Crop and Pasture Improvement (Selection and Breeding)
Socio-Economic Objective: E Expanding Knowledge > 97 Expanding Knowledge > 970107 Expanding Knowledge in the Agricultural and Veterinary Sciences
Identification Number or DOI: 10.1038/s41588-019-0401-3
URI: http://eprints.usq.edu.au/id/eprint/37774

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