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Codon usage trend in mitochondrial CYB gene.

Arif Uddin1, Supriyo Chakraborty1

  • 1Departments of Biotechnology, Assam University, Silchar 788011, Assam, India.

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|April 12, 2016
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Summary
This summary is machine-generated.

Natural selection significantly shapes codon usage in the mitochondrial cytochrome B (MT-CYB) gene across diverse species. Mutation pressure and compositional constraints also influence this pattern, aiding in understanding gene evolution.

Keywords:
AvesCodon usageMT-CYB geneMammalsMutation pressureNatural selectionPisces

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Area of Science:

  • Molecular Biology
  • Evolutionary Biology
  • Genetics

Background:

  • Codon usage bias is a significant factor in gene expression and evolution.
  • The mitochondrial cytochrome B (MT-CYB) gene is crucial for cellular respiration and widely studied across taxa.

Purpose of the Study:

  • To investigate the codon usage patterns in the MT-CYB gene.
  • To identify the primary factors influencing codon usage in pisces, aves, and mammals.

Main Methods:

  • Correspondence analysis (CA) was employed to analyze codon usage patterns.
  • Neutrality plots were used to assess the relative contributions of mutation pressure and natural selection.

Main Results:

  • Correspondence analysis revealed significant correlations between codon usage and specific nucleotide bases (A3, C, C3, T, T3).
  • Neutrality plots indicated that natural selection plays a more dominant role than mutation pressure in shaping base composition at the first and second codon positions.
  • GC12 ratios varied across species (Pisces: 0.11, Aves: 0.0245, Mammals: 0.273), reflecting differential evolutionary pressures.

Conclusions:

  • Natural selection is the predominant force driving codon usage patterns in the MT-CYB gene.
  • Compositional constraints and mutation pressure also contribute significantly to codon usage bias.
  • Understanding these patterns provides insights into the evolutionary mechanisms of the MT-CYB gene.