Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers

Varshney, R. K., Chen, W. B., Li, Y. P., Bharti, A. K., Saxena, R. K., Schlueter, J. A., Donoghue, M. T. A., Azam, S., Fan, G. Y., Whaley, A. M., Farmer, A. D., Sheridan, J., Iwata, A., Tuteja, R., Penmetsa, R. V., Wu, W., Upadhyaya, H. D., Yang, S. P., Shah, T., Saxena, K. B., Michael, T., McCombie, W. R., Yang, B. C., Zhang, G. Y., Yang, H. M., Wang, J., Spillane, C., Cook, D. R., May, G. D., Xu, X., Jackson, S. A. (2012) Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers. Nature Biotechnology, 30 (1). 83-U128. ISSN 1087-0156

URL: http://www.ncbi.nlm.nih.gov/pubmed/22057054
DOI: 10.1038/nbt.2022

Abstract

Pigeonpea is an important legume food crop grown primarily by smallholder farmers in many semi-arid tropical regions of the world. We used the Illumina next-generation sequencing platform to generate 237.2 Gb of sequence, which along with Sanger-based bacterial artificial chromosome end sequences and a genetic map, we assembled into scaffolds representing 72.7% (605.78 Mb) of the 833.07 Mb pigeonpea genome. Genome analysis predicted 48,680 genes for pigeonpea and also showed the potential role that certain gene families, for example, drought tolerance-related genes, have played throughout the domestication of pigeonpea and the evolution of its ancestors. Although we found a few segmental duplication events, we did not observe the recent genome-wide duplication events observed in soybean. This reference genome sequence will facilitate the identification of the genetic basis of agronomically important traits, and accelerate the development of improved pigeonpea varieties that could improve food security in many developing countries.

Item Type: Paper
Uncontrolled Keywords: genes tool diversification software dynamics families database program dna l.
Subjects: bioinformatics > genomics and proteomics > analysis and processing
bioinformatics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics
bioinformatics > genomics and proteomics > Mapping and Rendering
bioinformatics > genomics and proteomics > analysis and processing > Sequence Data Processing
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > genomes
CSHL Authors:
Communities: CSHL labs > McCombie lab
Depositing User: Matt Covey
Date Deposited: 18 Jan 2013 14:56
Last Modified: 18 Jan 2013 14:56
Related URLs:
URI: http://repository.cshl.edu/id/eprint/27071

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