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Equal G and C contents in histone genes indicate selection pressures on mRNA secondary structure.
Huynen MA
,
Konings DA
,
Hogeweg P
.
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Protein-specific versus taxon-specific patterns of nucleotide frequencies were studied in histone genes. The third positions of codons have a (well-known) taxon-specific G+C level and a histone type-specific G/C ratio. This ratio counterbalances the G/C ratio in the first and second positions so that the overall G and C levels in the coding region become approximately equal. The compensation of the G/C ratio indicates a selection pressure at the mRNA level rather than a selection pressure or mutation bias at the DNA level or a selection pressure on codon usage. The structure of histone mRNAs is compatible with the hypothesis that the G/C compensation is due to selection pressures on mRNA secondary structure. Nevertheless, no specific motifs seem to have been selected, and the free energy of the secondary structures is only slightly lower than that expected on the basis of nucleotide frequencies.
Albrecht,
Configuration of beta-globin messenger RNA in rabbit reticulocytes. Identification of sites exposed to endogenous and exogenous nucleases.
1984, Pubmed
Albrecht,
Configuration of beta-globin messenger RNA in rabbit reticulocytes. Identification of sites exposed to endogenous and exogenous nucleases.
1984,
Pubmed
Aziz,
Iron regulates ferritin mRNA translation through a segment of its 5' untranslated region.
1987,
Pubmed
Bernardi,
Compositional constraints and genome evolution.
1986,
Pubmed
Bernardi,
Codon usage and genome composition.
1985,
Pubmed
Bernardi,
Compositional patterns in vertebrate genomes: conservation and change in evolution.
,
Pubmed
Bernardi,
The mosaic genome of warm-blooded vertebrates.
1985,
Pubmed
,
Xenbase
Birchmeier,
The terminal RNA stem-loop structure and 80 bp of spacer DNA are required for the formation of 3' termini of sea urchin H2A mRNA.
1983,
Pubmed
,
Xenbase
Bird,
DNA methylation and the frequency of CpG in animal DNA.
1980,
Pubmed
Blaisdell,
Choice of base at silent codon site 3 is not selectively neutral in eucaryotic structural genes: it maintains excess short runs of weak and strong hydrogen bonding bases.
1983,
Pubmed
Blake,
Analysis of the codon bias in E. coli sequences.
1984,
Pubmed
Bohr,
DNA repair in an active gene: removal of pyrimidine dimers from the DHFR gene of CHO cells is much more efficient than in the genome overall.
1985,
Pubmed
Brawerman,
Mechanisms of mRNA decay.
1990,
Pubmed
Bulmer,
Codon usage and secondary structure of MS2 phage RNA.
1989,
Pubmed
Coulondre,
Molecular basis of base substitution hotspots in Escherichia coli.
1978,
Pubmed
Edery,
Activation of double-stranded RNA-dependent kinase (dsl) by the TAR region of HIV-1 mRNA: a novel translational control mechanism.
1989,
Pubmed
Filipski,
Correlation between molecular clock ticking, codon usage fidelity of DNA repair, chromosome banding and chromatin compactness in germline cells.
1987,
Pubmed
Fitch,
The large extent of putative secondary nucleic acid structure in random nucleotide sequences or amino acid derived messenger-RNA.
1974,
Pubmed
Fontana,
A computer model of evolutionary optimization.
1987,
Pubmed
Graves,
Translation is required for regulation of histone mRNA degradation.
1987,
Pubmed
Hanai,
The effects of guanine and cytosine variation on dinucleotide frequency and amino acid composition in the human genome.
1988,
Pubmed
Hargrove,
The role of mRNA and protein stability in gene expression.
1989,
Pubmed
Hasegawa,
Secondary structure of MS2 phage RNA and bias in code word usage.
1979,
Pubmed
Hénaut,
The origins of the strategy of codon use.
1985,
Pubmed
Ikemura,
Codon usage and tRNA content in unicellular and multicellular organisms.
1985,
Pubmed
Jeffrey,
Chaos game representation of gene structure.
1990,
Pubmed
Konings,
Minimal energy foldings of eukaryotic mRNAs form a separate leader domain.
1987,
Pubmed
Konopka,
The missense errors in protein can be controlled by selective synonymous codon usage at the level of transcription.
1985,
Pubmed
Mita,
Specific codon usage pattern and its implications on the secondary structure of silk fibroin mRNA.
1988,
Pubmed
Modiano,
Nonrandom patterns of codon usage and of nucleotide substitutions in human alpha- and beta-globin genes: an evolutionary strategy reducing the rate of mutations with drastic effects?
1981,
Pubmed
Muesing,
Regulation of mRNA accumulation by a human immunodeficiency virus trans-activator protein.
1987,
Pubmed
Nussinov,
Eukaryotic dinucleotide preference rules and their implications for degenerate codon usage.
1981,
Pubmed
Ohno,
Universal rule for coding sequence construction: TA/CG deficiency-TG/CT excess.
1988,
Pubmed
Ohno,
Evolution from primordial oligomeric repeats to modern coding sequences.
1987,
Pubmed
Perrin,
Directional fixation of mutations in vertebrate evolution.
1987,
Pubmed
Salinas,
Compositional compartmentalization and compositional patterns in the nuclear genomes of plants.
1988,
Pubmed
Salser,
Globin mRNA sequences: analysis of base pairing and evolutionary implications.
1978,
Pubmed
Shapiro,
Regulation of messenger RNA stability in eukaryotic cells.
1987,
Pubmed
Shaw,
A conserved AU sequence from the 3' untranslated region of GM-CSF mRNA mediates selective mRNA degradation.
1986,
Pubmed
Sittman,
Histone mRNA concentrations are regulated at the level of transcription and mRNA degradation.
1983,
Pubmed
Stauber,
A signal regulating mouse histone H4 mRNA levels in a mammalian cell cycle mutant and sequences controlling RNA 3' processing are both contained within the same 80-bp fragment.
1986,
Pubmed
Tönjes,
Conserved organization of an avian histone gene cluster with inverted duplications of H3 and H4 genes.
1989,
Pubmed
Wada,
Local stability of DNA and RNA secondary structure and its relation to biological functions.
1986,
Pubmed
Wells,
Codon usage in histone gene families of higher eukaryotes reflects functional rather than phylogenetic relationships.
1986,
Pubmed
Wells,
Functionally constrained codon usage in histone genes.
1989,
Pubmed
Wilhelm,
Histone genes in Physarum polycephalum: transcription and analysis of the flanking regions of the two H4 genes.
1989,
Pubmed
Zama,
Codon usage pattern in alpha 2(I) chain domain of chicken type I collagen and its implications for the secondary structure of the mRNA and the synthesis pauses of the collagen.
1990,
Pubmed
Zuker,
On finding all suboptimal foldings of an RNA molecule.
1989,
Pubmed
