Title: In-silico analysis of marker genes from gene expression data of solanaceous plants responsible for various abiotic stresses

Authors: Sanchita Gupta; Garima Singh; Swati Srivastava; Ashok Sharma

Addresses: Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Post Office CIMAP, Lucknow 226015, India ' Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Post Office CIMAP, Lucknow 226015, India ' Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Post Office CIMAP, Lucknow 226015, India ' Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Post Office CIMAP, Lucknow 226015, India

Abstract: Understanding the responses of plant against any environmental condition requires the expression analysis of transcriptome data. The present work focused on identifying the group of genes of Solanum tuberosum, differentially expressed in different abiotic stresses. The public database has assessed for the gene expression data in response to cold, heat and salt stresses, respectively. Furthermore, the common genes considered as marker genes, responding to all three abiotic conditions were analysed. The gene ontology classification of the marker genes and their visualisation in metabolic pathway was also analysed. The genes responsible for kunitz-type protease inhibitor precursor were found to be up-regulated, whereas the genes encoding lipid transfer protein showed down-regulation. These marker genes may be studied for further validation to see their role in stress responses to the medicinally important plants of solanaceae family.

Keywords: abiotic stress; co-expression; functional annotation; gene expression; gene ontology; metabolic pathway; microarray analysis; network analysis; solanaceae; Solanum tuberosum.

DOI: 10.1504/IJBRA.2017.087383

International Journal of Bioinformatics Research and Applications, 2017 Vol.13 No.4, pp.329 - 351

Received: 19 Jan 2016
Accepted: 07 Aug 2016
Published online: 14 Oct 2017 *

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