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A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes.

Publication ,  Journal Article
Palacios, C; Wernegreen, JJ
Published in: Molecular biology and evolution
September 2002

The advent of full genome sequences provides exceptionally rich data sets to explore molecular and evolutionary mechanisms that shape divergence among and within genomes. In this study, we use multivariate analysis to determine the processes driving genome-wide patterns of amino usage in the obligate endosymbiont Buchnera and its close free-living relative Escherichia coli. In the AT-rich Buchnera genome, the primary source of variation in amino acid usage differentiates high- and low-expression genes. Amino acids of high-expression Buchnera genes are generally less aromatic and use relatively GC-rich codons, suggesting that selection against aromatic amino acids and against amino acids with AT-rich codons is stronger in high-expression genes. Selection to maintain hydrophobic amino acids in integral membrane proteins is a primary factor driving protein evolution in E. coli but is a secondary factor in Buchnera. In E. coli, gene expression is a secondary force driving amino acid usage, and a correlation with tRNA abundance suggests that translational selection contributes to this effect. Although this and previous studies demonstrate that AT mutational bias and genetic drift influence amino acid usage in Buchnera, this genome-wide analysis argues that selection is sufficient to affect the amino acid content of proteins with different expression and hydropathy levels.

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Published In

Molecular biology and evolution

DOI

EISSN

1537-1719

ISSN

0737-4038

Publication Date

September 2002

Volume

19

Issue

9

Start / End Page

1575 / 1584

Related Subject Headings

  • Thymine
  • Point Mutation
  • Multivariate Analysis
  • Hydrophobic and Hydrophilic Interactions
  • Genetic Variation
  • Genes, Bacterial
  • Gene Expression Regulation, Bacterial
  • Evolutionary Biology
  • Escherichia coli
  • Codon
 

Citation

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Palacios, C., & Wernegreen, J. J. (2002). A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes. Molecular Biology and Evolution, 19(9), 1575–1584. https://doi.org/10.1093/oxfordjournals.molbev.a004219
Palacios, Carmen, and Jennifer J. Wernegreen. “A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes.Molecular Biology and Evolution 19, no. 9 (September 2002): 1575–84. https://doi.org/10.1093/oxfordjournals.molbev.a004219.
Palacios C, Wernegreen JJ. A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes. Molecular biology and evolution. 2002 Sep;19(9):1575–84.
Palacios, Carmen, and Jennifer J. Wernegreen. “A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes.Molecular Biology and Evolution, vol. 19, no. 9, Sept. 2002, pp. 1575–84. Epmc, doi:10.1093/oxfordjournals.molbev.a004219.
Palacios C, Wernegreen JJ. A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes. Molecular biology and evolution. 2002 Sep;19(9):1575–1584.
Journal cover image

Published In

Molecular biology and evolution

DOI

EISSN

1537-1719

ISSN

0737-4038

Publication Date

September 2002

Volume

19

Issue

9

Start / End Page

1575 / 1584

Related Subject Headings

  • Thymine
  • Point Mutation
  • Multivariate Analysis
  • Hydrophobic and Hydrophilic Interactions
  • Genetic Variation
  • Genes, Bacterial
  • Gene Expression Regulation, Bacterial
  • Evolutionary Biology
  • Escherichia coli
  • Codon