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Codon usage patterns and evolution of HSP60 in birds.

Jianke Yang1, Hengwu Ding2, Xianzhao Kan2

  • 1The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu, Anhui, China; School of Preclinical Medicine, Wannan Medical College, Wuhu, Anhui, China.

International Journal of Biological Macromolecules
|May 10, 2021
PubMed
Summary

Heat shock protein 60 (HSP60) shows weak codon usage bias in birds. Evolutionary analysis reveals mutation, selection, and drift shape its patterns, with two sites under positive selection.

Keywords:
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Area of Science:

  • Molecular Biology
  • Evolutionary Biology
  • Genomics

Background:

  • Heat shock protein 60 (HSP60) is a conserved molecular chaperone crucial for various biological functions.
  • Understanding the evolutionary mechanisms and functional adaptations of HSP60 is essential.
  • Codon usage bias (CUB) analysis is a valuable tool for evolutionary studies.

Purpose of the Study:

  • To conduct a comprehensive analysis of codon usage and molecular evolution of HSP60 in avian species.
  • To investigate the patterns of codon bias and identify potential evolutionary pressures on HSP60 in birds.
  • To explore the functional diversity and molecular evolution of HSP60 in birds.

Main Methods:

  • Analysis of codon usage bias (CUB) across avian HSP60 sequences.
  • Calculation of effective number of codons (ENC) and relative synonymous codon usage (RSCU).
  • Application of likelihood ratio tests (LRT) to infer selective pressures and identify positive selection sites.

Main Results:

  • HSP60 exhibits weak codon usage bias in birds, characterized by high ENC values and preference for A/T-ending codons.
  • Mutation, natural selection, and genetic drift collectively influence HSP60 codon usage patterns in different bird lineages.
  • LRT identified two positively selected sites (residues 151 and 131) in avian HSP60, suggesting potential for significant functional changes.

Conclusions:

  • The study provides insights into the codon usage patterns and molecular evolution of HSP60 in birds.
  • Identified evolutionary forces and positive selection sites contribute to understanding HSP60 functional diversity.
  • Findings enhance our comprehension of HSP60 adaptation and evolution across avian species.