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Maddalena Dilucca1, Athanasia Pavlopoulou2, Alexandros G Georgakilas3

  • 1Physics Department, Sapienza University of Rome, Rome, Italy.

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|March 17, 2020
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Summary
This summary is machine-generated.

Radioresistant bacteria exhibit strong codon usage bias (CUB) favoring G and C nucleotides, influenced by mutation. This suggests co-evolution between tRNA gene copy number and CUB in these resilient organisms.

Keywords:
BacteriaCodon biasGeneProtein interaction networkRadioresistance

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Area of Science:

  • Microbiology
  • Genomics
  • Molecular Biology

Background:

  • Codon usage bias (CUB) influences gene expression and protein synthesis.
  • Understanding factors contributing to radioresistance in prokaryotes is crucial for various applications.
  • Previous studies have explored CUB in different bacterial groups, but its link to radioresistance is less understood.

Purpose of the Study:

  • To investigate the relationship between codon usage bias (CUB) and radioresistance in prokaryotic genomes.
  • To determine if specific nucleotide preferences in codons are associated with the ability to withstand radiation.
  • To explore the potential co-evolution of tRNA gene copy number and CUB in radioresistant species.

Main Methods:

  • Comparative genomic analysis of 16 radioresistant and 11 non-radioresistant prokaryotic species.
  • Analysis of codon usage bias patterns, focusing on synonymous codon positions.
  • Utilized ENC and neutrality plots to infer factors affecting CUB.
  • Assessed tRNA gene copy number in relation to codon bias.

Main Results:

  • Radioresistant species showed a significant bias towards Guanine (G) and Cytosine (C) at the third synonymous codon position.
  • ENC and neutrality plots indicated that mutational bias is a primary driver of CUB in radioresistant bacteria.
  • Nine radioresistant species displayed a consistent number of tRNA gene copies for each codon, suggesting a coordinated evolutionary process.

Conclusions:

  • Codon usage bias, particularly G/C enrichment at the third codon position, is a characteristic feature of radioresistant prokaryotes.
  • Mutational bias appears to be the main factor shaping CUB in these organisms.
  • Evidence suggests a co-evolutionary relationship between tRNA gene copy number and codon usage bias in the adaptation to radioresistance.