A draft genome sequence of the pulse crop chickpea (<i><scp>C</scp>icer arietinum</i> L.)

Mukesh Jain(National Institute of Plant Genome Research), Gopal Misra(National Institute of Plant Genome Research), Ravi K. Patel(National Institute of Plant Genome Research), Pushp Priya(National Institute of Plant Genome Research), Shalu Jhanwar(National Institute of Plant Genome Research), Aamir W. Khan(National Institute of Plant Genome Research), Niraj Shah(National Institute of Plant Genome Research), Vikas Kumar Singh(National Institute of Plant Genome Research), Rohini Garg(National Institute of Plant Genome Research), Ganga Jeena(National Institute of Plant Genome Research), Manju Yadav(National Institute of Plant Genome Research), Chandra Kant(National Institute of Plant Genome Research), Priyanka Sharma(National Institute of Plant Genome Research), Gitanjali Yadav(National Institute of Plant Genome Research), Sabhyata Bhatia(National Institute of Plant Genome Research), Akhilesh K. Tyagi(National Institute of Plant Genome Research), Debasis Chattopadhyay(National Institute of Plant Genome Research)
The Plant Journal
March 14, 2013
10.1111/tpj.12173
Cited by 410Open Access
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Abstract

Cicer arietinum L. (chickpea) is the third most important food legume crop. We have generated the draft sequence of a desi-type chickpea genome using next-generation sequencing platforms, bacterial artificial chromosome end sequences and a genetic map. The 520-Mb assembly covers 70% of the predicted 740-Mb genome length, and more than 80% of the gene space. Genome analysis predicts the presence of 27,571 genes and 210 Mb as repeat elements. The gene expression analysis performed using 274 million RNA-Seq reads identified several tissue-specific and stress-responsive genes. Although segmental duplicated blocks are observed, the chickpea genome does not exhibit any indication of recent whole-genome duplication. Nucleotide diversity analysis provides an assessment of a narrow genetic base within the chickpea cultivars. We have developed a resource for genetic markers by comparing the genome sequences of one wild and three cultivated chickpea genotypes. The draft genome sequence is expected to facilitate genetic enhancement and breeding to develop improved chickpea varieties.

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