Abstract
Expressed sequence tags (EST) are partial sequences of gene transcripts which represent the expressed portion of the genome. Identifying ESTs has often been a first step towards elucidation of complex regulatory network underlying varied biological processes and thus played major role in identifying array of genes involved in biological processes and stress responses. In this report, pigeonpea (Cajanus cajan) ESTs have been used to harness sequence variations in the form of single nucleotide polymorphism (SNP) and study their effect on proteins. Using coding sequences as query and ESTs as reference, total 23,317 raw SNPs were identified. To eliminate erroneous SNPs, stringent filters were applied. After removing possible erroneous and doubtful SNPs, a total of 328 high quality SNPs were selected for identification of non-synonymous SNPs (nsSNP). Sequence carrying nsSNPs included several transcription factors known to be involved in generating responses for biotic and abiotic stresses, genes involved in growth and development, signaling proteins etc. Effects of identified nsSNPs on protein structure and stability were studied. This bioinformatics study has uncovered genomic resources in the form of putative SNPs from ESTs in this important legume crop.
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Schedule a callMore From: Proceedings of the National Academy of Sciences, India Section B: Biological Sciences
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