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. 1981 Dec 11;9(23):6221–6229. doi: 10.1093/nar/9.23.6221

Mononucleotide and dinucleotide frequencies, and codon usage in poliovirion RNA.

P G Rothberg, E Wimmer
PMCID: PMC327599  PMID: 6275352

Abstract

The polio type 1 (Mahoney) RNA sequence (1) has been analyzed in terms of the distribution of its mononucleotides, dinucleotides and trinucleotides (codons). The distribution of adenosine in the sequence is nonuniform, being lower at the 5' end and higher at the 3' end. The dinucleotide CG is relatively rare and the dinucleotides UG and CA are relatively more common than expected. Codon usage is decidedly nonrandom. Codons containing CG are avoided and those ending in adenosine are favored. The asymmetric use of mononucleotides, dinucleotides and codons in polio RNA is unexplained at the present time although the lowered CG frequency may be the result of a DNA origin for polio RNA.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Bird A. P. DNA methylation and the frequency of CpG in animal DNA. Nucleic Acids Res. 1980 Apr 11;8(7):1499–1504. doi: 10.1093/nar/8.7.1499. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Brown F., Newman J., Stott J., Porter A., Frisby D., Newton C., Carey N., Fellner P. Poly(C) in animal viral RNAs. Nature. 1974 Sep 27;251(5473):342–344. doi: 10.1038/251342a0. [DOI] [PubMed] [Google Scholar]
  3. Chavancy G., Chevallier A., Fournier A., Garel J. P. Adaptation of iso-tRNA concentration to mRNA codon frequency in the eukaryote cell. Biochimie. 1979;61(1):71–78. doi: 10.1016/s0300-9084(79)80314-4. [DOI] [PubMed] [Google Scholar]
  4. Cumakov I. M., Lipskaya G. Y., Agol V. I. Comparative studies on the genomes of some picornaviruses: denaturation mapping of replicative form RNA and electron microscopy of heteroduplex RNA. Virology. 1979 Jan 30;92(2):259–270. doi: 10.1016/0042-6822(79)90130-2. [DOI] [PubMed] [Google Scholar]
  5. Golini F., Thach S. S., Birge C. H., Safer B., Merrick W. C., Thach R. E. Competition between cellular and viral mRNAs in vitro is regulated by a messenger discriminatory initiation factor. Proc Natl Acad Sci U S A. 1976 Sep;73(9):3040–3044. doi: 10.1073/pnas.73.9.3040. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Grantham R., Gautier C., Gouy M., Jacobzone M., Mercier R. Codon catalog usage is a genome strategy modulated for gene expressivity. Nucleic Acids Res. 1981 Jan 10;9(1):r43–r74. doi: 10.1093/nar/9.1.213-b. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Grantham R. Viral, prokaryote and eukaryote genes contrasted by mRNA sequence indexes. FEBS Lett. 1978 Nov 1;95(1):1–11. doi: 10.1016/0014-5793(78)80041-6. [DOI] [PubMed] [Google Scholar]
  8. Hunt T., Hunter T., Munro A. Control of haemoglobin synthesis: rate of translation of the messenger RNA for the alpha and beta chains. J Mol Biol. 1969 Jul 14;43(1):123–133. doi: 10.1016/0022-2836(69)90083-7. [DOI] [PubMed] [Google Scholar]
  9. Kitamura N., Semler B. L., Rothberg P. G., Larsen G. R., Adler C. J., Dorner A. J., Emini E. A., Hanecak R., Lee J. J., van der Werf S. Primary structure, gene organization and polypeptide expression of poliovirus RNA. Nature. 1981 Jun 18;291(5816):547–553. doi: 10.1038/291547a0. [DOI] [PubMed] [Google Scholar]
  10. Miyata T., Yasunaga T. Rapidly evolving mouse alpha-globin-related pseudo gene and its evolutionary history. Proc Natl Acad Sci U S A. 1981 Jan;78(1):450–453. doi: 10.1073/pnas.78.1.450. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Nussinov R. Eukaryotic dinucleotide preference rules and their implications for degenerate codon usage. J Mol Biol. 1981 Jun 15;149(1):125–131. doi: 10.1016/0022-2836(81)90264-3. [DOI] [PubMed] [Google Scholar]
  12. Porter A. G., Barber C., Carey N. H., Hallewell R. A., Threlfall G., Emtage J. S. Complete nucleotide sequence of an influenza virus haemagglutinin gene from cloned DNA. Nature. 1979 Nov 29;282(5738):471–477. doi: 10.1038/282471a0. [DOI] [PubMed] [Google Scholar]
  13. Rekosh D. Gene order of the poliovirus capsid proteins. J Virol. 1972 Mar;9(3):479–487. doi: 10.1128/jvi.9.3.479-487.1972. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Trachsel H., Sonenberg N., Shatkin A. J., Rose J. K., Leong K., Bergmann J. E., Gordon J., Baltimore D. Purification of a factor that restores translation of vesicular stomatitis virus mRNA in extracts from poliovirus-infected HeLa cells. Proc Natl Acad Sci U S A. 1980 Feb;77(2):770–774. doi: 10.1073/pnas.77.2.770. [DOI] [PMC free article] [PubMed] [Google Scholar]

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