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

• Published in: Nature biotechnology Vol. 30; no. 1; pp. 83 - 89
• Main Authors: Varshney, Rajeev K, Chen, Wenbin, Li, Yupeng, Bharti, Arvind K, Saxena, Rachit K, Schlueter, Jessica A, Donoghue, Mark T A, Azam, Sarwar, Fan, Guangyi, Whaley, Adam M, Farmer, Andrew D, Sheridan, Jaime, Iwata, Aiko, Tuteja, Reetu, Penmetsa, R Varma, Wu, Wei, Upadhyaya, Hari D, Yang, Shiaw-Pyng, Shah, Trushar, Saxena, K B, Michael, Todd, McCombie, W Richard, Yang, Bicheng, Zhang, Gengyun, Yang, Huanming, Wang, Jun, Spillane, Charles, Cook, Douglas R, May, Gregory D, Xu, Xun, Jackson, Scott A
• Format: Journal Article
• Language: English
• Published: United States Nature Publishing Group 01.01.2012
• Subjects: Cajanus - genetics; Cajanus cajan; Chromosome Mapping; Chromosomes, Artificial, Bacterial - genetics; Food supply; Genes, Plant; Genetic aspects; Genetic Markers; Genetically altered foods; Genome, Plant; Genomes; Genomics; Glycine max - genetics; Legumes; Molecular Sequence Annotation; Pigeon pea; Repetitive Sequences, Nucleic Acid - genetics; Segmental Duplications, Genomic; Sequence Analysis, DNA - methods; Synteny - genetics; Transgenic plants; United States
• ISSN: 1087-0156; 1546-1696
• DOI: 10.1038/nbt.2022

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.