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KMID : 1132720170150010038
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Genomics & Informatics
2017 Volume.15 No. 1 p.38 ~ p.48
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Comparative Analysis of Predicted Gene Expression among Crenarchaeal Genomes
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Das Shibsankar
Chottopadhyay Brajadulal
Sahoo Satyabrata
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Abstract
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Research into new methods for identifying highly expressed genes in anonymous genome sequences has been going on for more than 15 years. We presented here an alternative approach based on modified score of relative codon usage bias to identify highly expressed genes in crenarchaeal genomes. The proposed algorithm relies exclusively on sequence features for identifying the highly expressed genes. In this study, a comparative analysis of predicted highly expressed genes in five crenarchaeal genomes was performed using the score of Modified Relative Codon Bias Strength (MRCBS) as a numerical estimator of gene expression level. We found a systematic strong correlation between Codon Adaptation Index and MRCBS. Additionally, MRCBS correlated well with other expression measures. Our study indicates that MRCBS can consistently capture the highly expressed genes.
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KEYWORD
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Archaea, Codon Adaptation Index, codon bias index, codon usage, GC content, gene expression, predicted highly expressed genes
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