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Title

Nucleotide composition determines the role of translational efficiency in human genes

 

Authors

Binata Halder, Arup Kumar Malakar, Supriyo Chakraborty*

 

Affiliation

Department of Biotechnology, Assam University, Silchar-788011, Assam, India; Dr. Supriyo Chakraborty - Phone :+919435700831; Fax: 03842-270802;

 

Email

supriyoch2008@gmail.com; supriyoch_2008@rediffmail.com

 

Article Type

Hypothesis

 

Date

Received December 15, 2016; Revised February 21, 2017; Accepted February 21, 2017; Published February 28, 2017

 

Abstract

The basic sequence features were analysed that influence gene expression via codon usage bias of the selected forty coding sequences of Homo sapiens in a simple prokaryotic model i.e. E. coli K-12 genome. The prime objective was to elucidate the interrelationships among tRNA gene copy numbers, synonymous codons, amino acids and translational efficiency using tRNA adaptation index. It was evident from RSCU scores and principal component analysis, that only those preferred codons were used by the isoacceptor tRNAs that had G and C base at their third codon position. Relationship between tRNA adaptation index and amino acids, revealed that valine, arginine, serine and isoleucine showed significant positive correlation with gene expression. Therefore, it could be inferred that GC content in these genes might have the major role in shaping the codon bias and affecting the translational efficiency of the coding sequences.

 

Keywords

codon usage bias; tRNA adaptation index; gene expression

 

Citation

Halder et al. Bioinformation 13(2): 46-53 (2017)

 

Edited by

P Kangueane

 

ISSN

0973-2063

 

Publisher

Biomedical Informatics

 

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.