Literature DB >> 6159596

Codon frequencies in 119 individual genes confirm consistent choices of degenerate bases according to genome type.

R Grantham, C Gautier, M Gouy.   

Abstract

The poor printing of our previous Figure 2 (1) is corrected. Codon usage in mRNA sequences just published is also given. A new correspondence analysis is done, based on simultaneous comparison in all mRNA of use of the 61 codons. This analysis reinforces our claim that most genes in a genome, or genome type, have the same coding strategy; that is, they show similar choices among synonymous codons, or among degenerate bases (2). Like analysis on frequency variation in the amino acids coded reveals an entirely different pattern.

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Year:  1980        PMID： 6159596      PMCID： PMC324046          DOI： 10.1093/nar/8.9.1893

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  72 in total

1.  The nucleotide sequence of a viral DNA.

Authors:  J C Fiddes
Journal:  Sci Am       Date:  1977-12       Impact factor: 2.142

2.  Nucleotide sequence of bacteriophage phi X174 DNA.

Authors:  F Sanger; G M Air; B G Barrell; N L Brown; A R Coulson; C A Fiddes; C A Hutchison; P M Slocombe; M Smith
Journal:  Nature       Date:  1977-02-24       Impact factor: 49.962

3.  Nucleotide sequence and amplification in bacteria of structural gene for rat growth hormone.

Authors:  P H Seeburg; J Shine; J A Martial; J D Baxter; H M Goodman
Journal:  Nature       Date:  1977-12-08       Impact factor: 49.962

4.  The primary structure of rabbit beta-globin mRNA as determined from cloned DNA.

Authors:  A Efstratiadis; F C Kafatos; T Maniatis
Journal:  Cell       Date:  1977-04       Impact factor: 41.582

5.  A-protein gene of bacteriophage MS2.

Authors:  W Fiers; R Contreras; F Duerinck; G Haegmean; J Merregaert; W M Jou; A Raeymakers; G Volckaert; M Ysebaert; J Van de Kerckhove; F Nolf; M Van Montagu
Journal:  Nature       Date:  1975-07-24       Impact factor: 49.962

6.  Construction and analysis of recombinant DNA for human chorionic somatomammotropin.

Authors:  J Shine; P H Seeburg; J A Martial; J D Baxter; H M Goodman
Journal:  Nature       Date:  1977-12-08       Impact factor: 49.962

7.  Complete nucleotide sequence of bacteriophage MS2 RNA: primary and secondary structure of the replicase gene.

Authors:  W Fiers; R Contreras; F Duerinck; G Haegeman; D Iserentant; J Merregaert; W Min Jou; F Molemans; A Raeymaekers; A Van den Berghe; G Volckaert; M Ysebaert
Journal:  Nature       Date:  1976-04-08       Impact factor: 49.962

8.  Rat insulin genes: construction of plasmids containing the coding sequences.

Authors:  A Ullrich; J Shine; J Chirgwin; R Pictet; E Tischer; W J Rutter; H M Goodman
Journal:  Science       Date:  1977-06-17       Impact factor: 47.728

9.  Human beta-globin messenger RNA. III. Nucleotide sequences derived from complementary DNA.

Authors:  C A Marotta; J T Wilson; B G Forget; S M Weissman
Journal:  J Biol Chem       Date:  1977-07-25       Impact factor: 5.157

10.  Nucleotide sequence of cro, cII and part of the O gene in phage lambda DNA.

Authors:  E Schwarz; G Scherer; G Hobom; H Kössel
Journal:  Nature       Date:  1978-03-30       Impact factor: 49.962
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  125 in total

1.  Use and misuse of correspondence analysis in codon usage studies.

Authors:  Guy Perrière; Jean Thioulouse
Journal:  Nucleic Acids Res       Date:  2002-10-15       Impact factor: 16.971

2.  Synonymous codon usage is subject to selection in thermophilic bacteria.

Authors:  David J Lynn; Gregory A C Singer; Donal A Hickey
Journal:  Nucleic Acids Res       Date:  2002-10-01       Impact factor: 16.971

3.  Solving the riddle of codon usage preferences: a test for translational selection.

Authors:  Mario dos Reis; Renos Savva; Lorenz Wernisch
Journal:  Nucleic Acids Res       Date:  2004-09-24       Impact factor: 16.971

4.  Wobble base-pairing slows in vivo translation elongation in metazoans.

Authors:  Michael Stadler; Andrew Fire
Journal:  RNA       Date:  2011-11-01       Impact factor: 4.942

5.  Expression of fully functional tetrameric human hemoglobin in Escherichia coli.

Authors:  S J Hoffman; D L Looker; J M Roehrich; P E Cozart; S L Durfee; J L Tedesco; G L Stetler
Journal:  Proc Natl Acad Sci U S A       Date:  1990-11       Impact factor: 11.205

6.  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 7.  Switches in species-specific codon preferences: the influence of mutation biases.

Authors:  D C Shields
Journal:  J Mol Evol       Date:  1990-08       Impact factor: 2.395

8.  Codon usage in plant genes.

Authors:  E E Murray; J Lotzer; M Eberle
Journal:  Nucleic Acids Res       Date:  1989-01-25       Impact factor: 16.971

9.  Codon replacement in the PGK1 gene of Saccharomyces cerevisiae: experimental approach to study the role of biased codon usage in gene expression.

Authors:  A Hoekema; R A Kastelein; M Vasser; H A de Boer
Journal:  Mol Cell Biol       Date:  1987-08       Impact factor: 4.272

10.  Hepatitis A virus adaptation to cellular shutoff is driven by dynamic adjustments of codon usage and results in the selection of populations with altered capsids.

Authors:  M Isabel Costafreda; Francisco J Pérez-Rodriguez; Lucía D'Andrea; Susana Guix; Enric Ribes; Albert Bosch; Rosa M Pintó
Journal:  J Virol       Date:  2014-02-19       Impact factor: 5.103
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