ArticleBiology letters2011
Impact of translational selection on codon usage bias in the archaeon Methanococcus maripaludis.
Article in Biology letters, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- Genomic and phenotypic characterization of a human gutFuture microbiology · 2026Article
- Intragenomic variation in non-adaptive nucleotide biases causes underestimation of selection on synonymous codon usage.PLoS genetics · 2022Article
- Comparative patterns of modified nucleotides in individual tRNA species from a mesophilic and two thermophilic archaea.RNA (New York, N.Y.) · 2020Article
- Deconstruction of archaeal genome depict strategic consensus in core pathways coding sequence assembly.PloS one · 2015Article
- General trends in selectively driven codon usage biases in the domain archaea.Journal of molecular evolution · 2014Article
- Selection on GGU and CGU codons in the high expression genes in bacteria.Journal of molecular evolution · 2014Article
- Quantification of codon selection for comparative bacterial genomics.BMC genomics · 2011Article
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2 authors.
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Abstract
Patterns of codon usage have been extensively studied among Bacteria and Eukaryotes, but there has been little investigation of species from the third domain of life, the Archaea. Here, we examine the nature of codon usage bias in a methanogenic archaeon, Methanococcus maripaludis. Genome-wide patterns of codon usage are dominated by a strong A + T bias, presumably largely reflecting mutation patterns. Nevertheless, there is variation among genes in the use of a subset of putatively translationally optimal codons, which is strongly correlated with gene expression level. In comparison with Bacteria such as Escherichia coli, the strength of selected codon usage bias in highly expressed genes in M. maripaludis seems surprisingly high given its moderate growth rate. However, the pattern of selected codon usage differs between M. maripaludis and E. coli: in the archaeon, strongly selected codon usage bias is largely restricted to twofold degenerate amino acids (AAs). Weaker bias among the codons for fourfold degenerate AAs is consistent with the small number of tRNA genes in the M. maripaludis genome.
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