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Bioinformatics and Translation Termination in Bacteria

  • Xuhua Xia
Chapter

Abstract

The codon-anticodon adaptation theory is applicable to the coevolution between stop codons and their decoders (release factors). In most prokaryotes, UAA and UAG are decoded by release factor 1 (RF1) and UAA and UGA by release factor 2 (RF2). Stop codon usage is strongly affected by both mutation bias and differential abundance of RF1 and RF2, and to a less extent by the abundance of tRNAs that may misread stop codons, e.g., misreading of UGA by tRNATrp that decodes UGG. An explanation is offered for the nearly universal rarity of UAG usage in bacterial species. Empirical evidence is also presented to demonstrate the strong effect of flanking nucleotides on stop codon signal strength.

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© Springer Science+Business Media LLC 2018

Authors and Affiliations

  • Xuhua Xia
    • 1
  1. 1.University of Ottawa CAREG and Biology DepartmentOttawaCanada

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