title: Stress induced MAPK genes show distinct pattern of codon usage in Arabidopsis thaliana, Glycine max and Oryza sativa.
abstract: Mitogen activated protein kinase (MAPK) genes provide resistance to various biotic and abiotic stresses. Codon usage profiling of the genes reveals the characteristic features of the genes like nucleotide composition, gene expressivity, optimal codons etc. The present study is a comparative analysis of codon usage patterns for different MAPK genes in three organisms, viz. Arabidopsis thaliana, Glycine max (soybean) and Oryza sativa (rice). The study has revealed a high AT content in MAPK genes of Arabidopsis and soybean whereas in rice a balanced AT-GC content at the third synonymous position of codon. The genes show a low bias in codon usage profile as reflected in the higher values (50.83 to 56.55) of effective number of codons (Nc). The prediction of gene expression profile in the MAPK genes revealed that these genes might be under the selective pressure of translational optimization as reflected in the low codon adaptation index (CAI) values ranging from 0.147 to 0.208.
authors.affiliation: Department of Biotechnology, Assam University, Silchar-788011, Assam, India.
authors.forename: H Surachandra
authors.initials: HS
authors.lastname: Singha
authors.affiliation: Department of Biotechnology, Assam University, Silchar-788011, Assam, India.
authors.forename: Supriyo
authors.initials: S
authors.lastname: Chakraborty
authors.affiliation: Department of Biotechnology, Assam University, Silchar-788011, Assam, India.
authors.forename: Himangshu
authors.initials: H
authors.lastname: Deka
keywords: Arabidopsis; MAPK; codon usage bias; mutational pressure; synonymous codons