Journal of Biotechnology & Biomaterials
Open Access

Abstract

Codon usage directly affects the expression level of protein in response to abiotic stresses as cold, drought, heat, salt, dehydration, heavy metals and oxidative stress that reduce the agricultural productivity of significant plants. The current research is based upon the relationship of the codon usage bias (CUB) and RNA secondary structures (RSS) analysis between abiotic stress related and housekeeping genes in Arabidopsis thaliana (ath) and Oryza sativa (osa). A total of 133 genes (including 129 abiotic stress resistant and four housekeeping genes) were subjected for the CUB and RSS analysis. The CUB analysis for abiotic stress resistant and housekeeping genes were carried through bioinformatics tools, that revealed the similarities and differences by more than 50% in the usage of codons for Arabidopsis thaliana and Oryza sativa. On the other hand, Mfold algorithms were used for RNA secondary structure prediction that revealed significant difference in minimum free energy, number of loops and in the number of stems of RNAs. Whereas for the housekeeping genes showed less significant difference in minimum free energy, number of loops and number of stems of RNA secondary structures. It can be concluded from the results that on the basis of RNA secondary structure, abiotic stress related genes show random behavior while housekeeping genes show uniform behavior. CUB analysis helps us to engineer the abiotic stress resistant crops through adjusting specific codon usage that enhance yield and productivity of significant plants.

Biography

Email: barozaikhan@gmail.com