Literature DB >> 7714909

Frequencies of synonymous substitutions in mammals are gene-specific and correlated with frequencies of nonsynonymous substitutions.

D Mouchiroud1, C Gautier, G Bernardi.   

Abstract

The frequencies of synonymous substitutions of mammalian genes cover a much wider range than previously thought. We report here that the different frequencies found in homologous genes from a given mammalian pair are correlated with those in the same homologous genes from a different mammalian pair. This indicates that the frequencies of synonymous substitutions are gene-specific (as are the frequencies of nonsynonymous substitutions), or, in other words, that "fast" and "slow" genes in one mammal are fast and slow, respectively, in any other one. Moreover, the frequencies of synonymous substitutions are correlated with the frequencies of nonsynonymous substitution in the same genes.

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Year:  1995        PMID: 7714909     DOI: 10.1007/bf00166602

Source DB:  PubMed          Journal:  J Mol Evol        ISSN: 0022-2844            Impact factor:   2.395


  37 in total

1.  The distribution of genes in the human genome.

Authors:  D Mouchiroud; G D'Onofrio; B Aïssani; G Macaya; C Gautier; G Bernardi
Journal:  Gene       Date:  1991-04       Impact factor: 3.688

2.  Synonymous nucleotide substitution rates in mammalian genes: implications for the molecular clock and the relationship of mammalian orders.

Authors:  M Bulmer; K H Wolfe; P M Sharp
Journal:  Proc Natl Acad Sci U S A       Date:  1991-07-15       Impact factor: 11.205

3.  Codon usage changes and sequence dissimilarity between human and rat.

Authors:  D Mouchiroud; C Gautier
Journal:  J Mol Evol       Date:  1990-08       Impact factor: 2.395

Review 4.  The isochore organization of the human genome.

Authors:  G Bernardi
Journal:  Annu Rev Genet       Date:  1989       Impact factor: 16.830

5.  Diversity in G + C content at the third position of codons in vertebrate genes and its cause.

Authors:  S Aota; T Ikemura
Journal:  Nucleic Acids Res       Date:  1986-08-26       Impact factor: 16.971

6.  Mutation rates differ among regions of the mammalian genome.

Authors:  K H Wolfe; P M Sharp; W H Li
Journal:  Nature       Date:  1989-01-19       Impact factor: 49.962

7.  HOVERGEN: a database of homologous vertebrate genes.

Authors:  L Duret; D Mouchiroud; M Gouy
Journal:  Nucleic Acids Res       Date:  1994-06-25       Impact factor: 16.971

Review 8.  A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes.

Authors:  W H Li; C I Wu; C C Luo
Journal:  Mol Biol Evol       Date:  1985-03       Impact factor: 16.240

9.  Gene distribution and nucleotide sequence organization in the human genome.

Authors:  M Zerial; J Salinas; J Filipski; G Bernardi
Journal:  Eur J Biochem       Date:  1986-11-03

10.  Selective removal of transcription-blocking DNA damage from the transcribed strand of the mammalian DHFR gene.

Authors:  I Mellon; G Spivak; P C Hanawalt
Journal:  Cell       Date:  1987-10-23       Impact factor: 41.582

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  29 in total

1.  Nature and structure of human genes that generate retropseudogenes.

Authors:  I Gonçalves; L Duret; D Mouchiroud
Journal:  Genome Res       Date:  2000-05       Impact factor: 9.043

2.  The effect of tandem substitutions on the correlation between synonymous and nonsynonymous rates in rodents.

Authors:  N G Smith; L D Hurst
Journal:  Genetics       Date:  1999-11       Impact factor: 4.562

3.  Rates of nucleotide substitution and mammalian nuclear gene evolution. Approximate and maximum-likelihood methods lead to different conclusions.

Authors:  J P Bielawski; K A Dunn; Z Yang
Journal:  Genetics       Date:  2000-11       Impact factor: 4.562

4.  The causes of synonymous rate variation in the rodent genome. Can substitution rates be used to estimate the sex bias in mutation rate?

Authors:  N G Smith; L D Hurst
Journal:  Genetics       Date:  1999-06       Impact factor: 4.562

5.  Weak selection and recent mutational changes influence polymorphic synonymous mutations in humans.

Authors:  Josep M Comeron
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-21       Impact factor: 11.205

6.  Elevated rates of protein secretion, evolution, and disease among tissue-specific genes.

Authors:  Eitan E Winter; Leo Goodstadt; Chris P Ponting
Journal:  Genome Res       Date:  2004-01       Impact factor: 9.043

7.  Similarity of synonymous substitution rates across mammalian genomes.

Authors:  Jeffrey H Chuang; Hao Li
Journal:  J Mol Evol       Date:  2007-08-03       Impact factor: 2.395

8.  Widespread positive selection in synonymous sites of mammalian genes.

Authors:  Alissa M Resch; Liran Carmel; Leonardo Mariño-Ramírez; Aleksey Y Ogurtsov; Svetlana A Shabalina; Igor B Rogozin; Eugene V Koonin
Journal:  Mol Biol Evol       Date:  2007-05-23       Impact factor: 16.240

9.  Decoupled evolution of coding region and mRNA expression patterns after gene duplication: implications for the neutralist-selectionist debate.

Authors:  A Wagner
Journal:  Proc Natl Acad Sci U S A       Date:  2000-06-06       Impact factor: 11.205

10.  Protein evolutionary rates correlate with expression independently of synonymous substitutions in Helicobacter pylori.

Authors:  Björn Sällström; Ramy A Arnaout; Wagied Davids; Pär Bjelkmar; Siv G E Andersson
Journal:  J Mol Evol       Date:  2006-04-01       Impact factor: 2.395

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