Dec 7, 2013

Comparative Genomics of Trypanosomatid Pathogens using Codon Usage Bias

Bioinformation
Mayank Rashmi, D Swati

Abstract

It is well known that an amino acid can be encoded by more than one codon, called synonymous codons. The preferential use of one particular codon for coding an amino acid is referred to as codon usage bias (CUB). A quantitative analytical method, CUB and a related tool, Codon Adaptative Index have been applied to comparatively study whole genomes of a few pathogenic Trypanosomatid species. This quantitative attempt is of direct help in the comparison of qualitative features like mutational and translational selection. Pathogens of the Leishmania and Trypanosoma genus cause debilitating disease and suffering in human beings and animals. Of these, whole genome sequences are available for only five species. The complete coding sequences (CDS), highly expressed, essential and low expressed genes have all been studied for their CUB signature. The codon usage bias of essential genes and highly expressed genes show distribution similar to codon usage bias of all CDSs in Trypanosomatids. Translational selection is the dominant force selecting the preferred codon, and selection due to mutation is negligible. In contrast to an earlier study done on these pathogens, it is found in this work that CUB and CAI may be used to distinguish the ...Continue Reading

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Mentioned in this Paper

Moebius Syndrome 1
Genus: Leishmania
Genome
Pathogenic Organism
Complement Component 2 Deficiency
Leishmania
Triplet Codon-amino Acid Adaptor Activity
Trypanosoma
Transfer RNA
Cell Differentiation Process

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