Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement

Varshney, R K and Song, C and Saxena, R K and Azam, S and Yu, S and Sharpe, A G and Cannon, S and Baek, J and Rosen, B D and Tar'an, B and Millan, T and Zhang, X and Ramsay, L D and Iwata, A and Wang, Y and Nelson, W and Farmer, A D and Gaur, P M and Soderlund, C and Penmetsa, R V and Xu, C and Bharathi, A K and He, W and Winter, P and Zhao, S and Hane, J K and Carrasquilla-Garcia, N and Condie, J A and Upadhyaya, H D and Luo, M and Thudi, M and Gowda, C L L and Singh, N P and Lichtenzveig, J and Gali, K K and Rubio, J and Nadarajan, N and Dolezel, J and Bansal, K C and Xu, X and Edwards, D. and Zhang, G and Kahl, G and Gil, J and Singh, K B and Datta, S K and Jackson, S A and Wang, J and Cook, D R (2013) Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement. Nature Biotechnology, 31. pp. 240-246. ISSN 1546-1696

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Abstract

Chickpea (Cicer arietinum) is the second most widely grown legume crop after soybean, accounting for a substantial proportion of human dietary nitrogen intake and playing a crucial role in food security in developing countries. We report the ~738-Mb draft whole genome shotgun sequence of CDC Frontier, a kabuli chickpea variety, which contains an estimated 28,269 genes. Resequencing and analysis of 90 cultivated and wild genotypes from ten countries identifies targets of both breeding-associated genetic sweeps and breeding-associated balancing selection. Candidate genes for disease resistance and agronomic traits are highlighted, including traits that distinguish the two main market classes of cultivated chickpea—desi and kabuli. These data comprise a resource for chickpea improvement through molecular breeding and provide insights into both genome diversity and domestication.

Item Type: Article
Divisions: RP-Grain Legumes
CRP: CGIAR Research Program on Grain Legumes
Uncontrolled Keywords: Chickpea
Subjects: Mandate crops > Chickpea
Depositing User: Mr Sanat Kumar Behera
Date Deposited: 20 Jan 2013 07:43
Last Modified: 21 Oct 2016 05:55
URI: http://oar.icrisat.org/id/eprint/6444
Official URL: http://dx.doi.org/10.1038/nbt.2491
Projects: UNSPECIFIED
Funders: Generation Challenge Programme, US National Science Foundation, Saskatchewan Agriculture Development Fund , Rural Development Administration of the Republic of Korea, Indo-German Science Technology Centre, Grains Research Development Corporation , Australian Research Council, Saskatchewan Pulse Growers , University of Cordoba and National Institute for Agricultural and Food Research and Technology , Ministry of Education, Youth and Sports of the Czech Republic and the European Regional Development , Indian Council of Agricultural Research , International Crops Research Institute for the Semi-Arid Tropics
Acknowledgement: We would like to thank CGIAR Generation Challenge Programme (Theme Leader Discretionary grant to R.K.V., G7009.06 to D.R.C. and R.K.V.); US National Science Foundation (DBI 0605251 to D.R.C., IOS-0965531 to D.R.C. and R.K.V., and DBI 0822258 to S.A.J.); Rural Development Administration of the Republic of Korea (Woo Jang Choon Project No. PJ906910 to D.R.C.); Indo-German Science Technology Centre (R.K.V., G.K. and P.W.); BGI, Shenzhen Key Laboratory of Transomics Biotechnologies (CXB201108250096A); Grains Research Development Corporation (UWA00149 to K.S.B.), Australian Research Council (DP0985953, LP110100200 to D.E.); Saskatchewan Pulse Growers (B.T. and A.G.S.); Saskatchewan Agriculture Development Fund (to A.G.S.); University of Cordoba and National Institute for Agricultural and Food Research and Technology (INIA) (RTA2010-00059 to T.M.); National Research Initiative of US Department of Agriculture's National Institute of Food and Agriculture (#0214643 to M.-C.L.); Ministry of Education, Youth and Sports of the Czech Republic and the European Regional Development Fund (ED0007/01/01 to J.D. and J.A.C.); Indian Council of Agricultural Research (ICAR) and ICRISAT for financial support to undertake parts of research presented in this study. Thanks are due to K. Hobson of Pulse Breeding Australia (PBA) for providing seeds of some genotypes used in this study. We would also like to thank W.D. Dar (director general, ICRISAT), D.A. Hoisington (deputy director general–research, ICRISAT) and J.-M. Ribaut (director, CGIAR GCP) for their helpful advice and assistance, wherever required, during the course of the study.
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