Whole-genome resequencing of 292 pigeonpea accessions identifies genomic regions associated with domestication and agronomic traits

Varshney, R K and Saxena, R K and Upadhyaya, H D and Khan, A W and Yu, Y and Kim, C and Rathore, A and Kim, D and Kim, J and An, S and Kumar, V and Anuradha, G and Yamini, K N and Zhang, W and Muniswamy, S and Kim, J S and Penmetsa, R V and von Wettberg, E and Datta, S K (2017) Whole-genome resequencing of 292 pigeonpea accessions identifies genomic regions associated with domestication and agronomic traits. Nature Genetics. pp. 1-9. ISSN 1061-4036

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Pigeonpea (Cajanus cajan), a tropical grain legume with low input requirements, is expected to continue to have an important role in supplying food and nutritional security in developing countries in Asia, Africa and the tropical Americas. From whole-genome resequencing of 292 Cajanus accessions encompassing breeding lines, landraces and wild species, we characterize genome-wide variation. On the basis of a scan for selective sweeps, we find several genomic regions that were likely targets of domestication and breeding. Using genome-wide association analysis, we identify associations between several candidate genes and agronomically important traits. Candidate genes for these traits in pigeonpea have sequence similarity to genes functionally characterized in other plants for flowering time control, seed development and pod dehiscence. Our findings will allow acceleration of genetic gains for key traits to improve yield and sustainability in pigeonpea.

Item Type: Article
Divisions: Research Program : Genetic Gains
CRP: CGIAR Research Program on Grain Legumes
Uncontrolled Keywords: Genome-wide association studies, Plant genetics, Genome resequencing, Pigeonpea accessions, Cajanus accessions, Phylogenetic relationships, genomic regions, agronomic traits, Cajanus cajan
Subjects: Mandate crops > Pigeonpea
Others > Genetics and Genomics
Others > Food and Nutrition
Others > Legume Crops
Depositing User: Mr Ramesh K
Date Deposited: 24 May 2017 03:50
Last Modified: 24 May 2017 03:50
URI: http://oar.icrisat.org/id/eprint/10021
Official URL: http://dx.doi.org/10.1038/ng.3872
Funders: USAID
Acknowledgement: The authors are thankful to the US Agency for International Development (USAID) for providing financial support to R.K.V. The authors would like to thank A. Gafoor, B. Poornima and P. Bajaj for their support in this work. This work has been undertaken as part of the CGIAR Research Program on Grain Legumes. ICRISAT is a member of the CGIAR Consortium.
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