MAIN


1996-2018 All Rights Reserved. Online Journal of Bioinformatics. You may not store these pages in any form except for your own personal use. All other usage or distribution is illegal under international copyright treaties. Permission to use any of these pages in any other way besides the before mentioned must be gained in writing from the publisher. This article is exclusively copyrighted in its entirety to OJB publications. This article may be copied once but may not be, reproduced or  re-transmitted without the express permission of the editors. This journal satisfies the refereeing requirements (DEST) for the Higher Education Research Data Collection (Australia). Linking: To link to this page or any pages linking to this page you must link directly to this page only here rather than put up your own page.


OJBTM

 

Online Journal of Bioinformatics

Volume 19 (2):96-106, 2018.


Synonymous codon usage analysis of 32 mycobacteriophage genomes.

 

Sameer Hassan, Vasantha Mahalingam, Vanaja Kumar.

 

Tuberculosis Research Centre, Chennai, India

 

ABSTRACT

 

Hassan S, Mahalingam V, Kumar V., Synonymous codon usage analysis of 32 mycobacteriophage genomes, Onl J Bioinform., 19 (2):96-106, 2018. Modification of codons of the luciferase gene with respect to optimal codons of the phage and the host could lead to better expression of the gene to improve the sensitivity of mycobacterial detection by luciferase reporter phage assay. We describe codon usage patterns of all the mycobacteriophages so far sequenced to optimize luciferase phage assay. Synonymous codon usage of protein coding genes of 32 completely sequenced mycobacteriophage genomes was determined by multivariate statistical analysis. One of the major factors influencing codon usage is compositional bias in highly expressed genes wherein codons ending in C are highly preferred over those ending in G. Translational selection shapes codon usage and translational accuracy. High level of heterogeneity was found amongst, and between the genomes. Length of genes influenced codon usage in 14 out of 32 phage genomes in a minor way. Mycobacteriophage Cooper was found to be a highly biased genome with better translation efficiency comparing well with the host specific tRNA genes.

 

Key words: Synonymous codons, translational selection, mutational bias, Nc, GC3s. Synonymous codon usage analysis of 32 mycobacteriophage genomes.


MAIN

 

FULL-TEXT (SUBSCRIBE OR PURCHASE ARTICLE)