A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes

Wanjun Gu, Tong Zhou, Claus O. Wilke

Research output: Contribution to journalArticle

179 Citations (Scopus)

Abstract

Recent studies have suggested that the thermodynamic stability of mRNA secondary structure near the start codon can regulate translation efficiency in Escherichia coli, and that translation is more efficient the less stable the secondary structure. We survey the complete genomes of 340 species for signals of reduced mRNA secondary structure near the start codon. Our analysis includes bacteria, archaea, fungi, plants, insects, fishes, birds, and mammals. We find that nearly all species show evidence for reduced mRNA stability near the start codon. The reduction in stability generally increases with increasing genomic GC content. In prokaryotes, the reduction also increases with decreasing optimal growth temperature. Within genomes, there is variation in the stability among genes, and this variation correlates with gene GC content, codon bias, and gene expression level. For birds and mammals, however, we do not find a genome-wide trend of reduced mRNA stability near the start codon. Yet the most GC rich genes in these organisms do show such a signal. We conclude that reduced stability of the mRNA secondary structure near the start codon is a universal feature of all cellular life. We suggest that the origin of this reduction is selection for efficient recognition of the start codon by initiator-tRNA.

Original languageEnglish (US)
Article numbere1000664
JournalPLoS Computational Biology
Volume6
Issue number2
DOIs
StatePublished - Feb 2010
Externally publishedYes

Fingerprint

start codon
Initiator Codon
secondary structure
prokaryote
RNA Stability
eukaryote
prokaryotic cells
Eukaryota
Messenger RNA
translation (genetics)
eukaryotic cells
Genes
Secondary Structure
genome
gene
Genome
Mammals
mammal
Base Composition
Birds

ASJC Scopus subject areas

  • Cellular and Molecular Neuroscience
  • Ecology
  • Molecular Biology
  • Genetics
  • Ecology, Evolution, Behavior and Systematics
  • Modeling and Simulation
  • Computational Theory and Mathematics

Cite this

A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes. / Gu, Wanjun; Zhou, Tong; Wilke, Claus O.

In: PLoS Computational Biology, Vol. 6, No. 2, e1000664, 02.2010.

Research output: Contribution to journalArticle

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