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Sense in antisense?

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Abstract

A correspondence between open reading frames in sense and antisense strands is expected from the hypothesis that the prototypic triplet code was of general form RNY, where R is a purine base, N is any base, and Y is a pyrimidine. A deficit of stop codons in the antisense strand (and thus long open reading frames) is predicted for organisms with high G + C percentages; however, two bacteria (Azotobacter vinelandii, Rhodobacter capsulatum) have larger average antisense strand open reading frames than predicted from (G + C)%. The similar Codon frequencies found in sense and antisense strands can be attributed to the wide distribution of inverted repeats (stem-loop potential) in natural DNA sequences.

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References

  • Alff-Steinberger C (1984) Evidence for a coding pattern on the noncoding strand of the E. coli genome. Nucleic Acids Res 12:2235–2241

    Google Scholar 

  • Alff-Steinberger C (1987) Codon usage in Homo sapiens: evidence for a coding pattern on the non-coding strand and evolutionary implications of dinucleotide discrimination. J Theor Biol 124:89–95

    Google Scholar 

  • Barrai I, Scapoli C, Gambari R, Brugnoli F (1991) Frequencies of codons in histones, tubulins and fibrinogen: bias due to interference between transcriptional signals and protein function. J Theor Biol 152:405–426

    Google Scholar 

  • Biro J (1981a) The complementary coding of some proteins as the possible source of specificity in protein-protein interactions. Med Hypothesis 7:981–993

    Google Scholar 

  • Biro J (1981b) Models of gene expression based on the sequential complementary coding of some pituitary proteins. Med Hypothesis 7:995–1007

    Google Scholar 

  • Blalock JE (1990) Complementarity of peptides specified by “sense” and “antisense” strands of DNA. Trends Biotechnol 8:140–144

    Google Scholar 

  • Blalock JE, Bost KL (1986) The binding of peptides that are specified by complementary RNAs. Biochem J 234:679–683

    Google Scholar 

  • Blalock JE, Smith EM (1984) Hydropathic anti-complementarity of amino acids based on the genetic code. Biochem Biophys Res Commun 121:203–207

    Google Scholar 

  • Bossi L, Roth JR (1980) The influence of codon context on genetic code translation. Nature 286:123–127

    Google Scholar 

  • Clarke BL, Blalock JE (1991) Characteristics of peptides specified by antisense nucleic acids. In: Mol JNM, Van der Krol A (eds) Antisense nucleic acids and proteins. Marcel Dekker, Basel, pp 169–185

    Google Scholar 

  • Eberle AN, Huber M (1991) Antisense peptides of ACTH and MSH: tools for receptor isolation? In: Mol JNM, Van der Krol A (eds) Antisense nucleic acids and proteins. Marcel Dekker, Basel, pp 187–203

    Google Scholar 

  • Eigen M, Schuster P (1978) The hypercycle. A principle of natural organization. Naturwissenschaft 65:341–369

    Google Scholar 

  • Filipski J (1990) Evolution of DNA sequence. Contributions of mutational bias and selection to the origin of chromosomal compartments. Adv Mutagen Res 2:1–54

    Google Scholar 

  • Forsdyke DR (1994) Relationship of X chromosome dosage compensation to intracellular self/not-self discrimination: a resolution of Muller's paradox? J Theor Biol 167:7–12

    Google Scholar 

  • Forsdyke DR (1995a) Entropy-driven protein self-aggregation as the basis for self/not-self discrimination in the crowded cytosol. J Biol Sys 3:273–287

    Google Scholar 

  • Forsdyke DR (1995b) A stem-loop “kissing” model for the initiation of recombination and the origin of introns. Mol Biol Evol (in press)

  • Forsdyke DR (1995c) Different biological species “broadcast” their DNAs at different (G + C)% “wavelengths”. Proc Can Fed Biol Socs 38:107

    Google Scholar 

  • Forsdyke DR (1995d) Relative roles of primary sequence and (G + C)% in determining the hierarchy of frequencies of complementary trinucleotide pairs in DNAs of different species. J Mol Evol 41:573–581

    Google Scholar 

  • Goldstein A, Brutlag DL (1989) Is there a relationship between DNA sequences encoding peptide ligands and their receptors? Proc Natl Acad Sci USA 86:42–45

    Google Scholar 

  • Ikehara K, Okazawa E (1993) Unusually biased nucleotide sequences in sense strands of Flavobacterium sp. genes produce nonstop frames on the corresponding antisense strands. Nucleic Acids Res 21:2193–2199

    Google Scholar 

  • Konecny J, Eckert M, Schoniger M, Hofacker GL (1993) Neutral adaptation of the genetic code to double-strand coding. J Mol Evol 36:407–416

    Google Scholar 

  • Lauffer MA (1975) Entropy-driven processes in biology. Springer-Verlag, New York

    Google Scholar 

  • Meckler LB (1969) Specific selective interactions between amino acid residues of peptide chains. Biofizika 14:581–584

    Google Scholar 

  • Merino E, Balbas P, Puente JL, Bolivar F (1994) Antisense overlapping open reading frames in genes for bacteria to humans. Nucleic Acids Res 22:1903–1908

    Google Scholar 

  • Moser M, Oesch B, Bueler H (1993) An antiprion protein? Nature 362:213–214

    Google Scholar 

  • Nussinov R (1982) Some indications for inverse DNA duplication. J Theor Biol 95:783–793

    Google Scholar 

  • Nussinov R (1984) Doublet frequencies in evolutionarily distinct groups. Nucleic Acids Res 12:1749–1763

    Google Scholar 

  • Ohno S, Yomo T (1991) The grammatical rule for all DNA: junk and coding sequences. Electrophoresis 12:103–108

    Google Scholar 

  • Pradhu VV (1993) Symmetry observations in long nucleotide sequences. Nucleic Acids Res 21:2797–2800

    Google Scholar 

  • Ryan BF, Joiner BL (1994) Minitab handbook, 3rd ed. Wadsworth Publishing, Belmont, CA, pp 287–288

    Google Scholar 

  • Shepherd JCW (1982) From primeval message to present day gene. Cold Spring Harb Symp Quant Biol 47:1099–1108

    Google Scholar 

  • Tomizawa J (1984) Control of ColE1 plasmid replication: the process of binding of RNA I to the primer transcript. Cell 38:861–870

    Google Scholar 

  • Tropsha A, Kizer JS, Chaiken IM (1992) Making sense of antisense: a review of experimental data and developing ideas on sense-antisense peptide recognition. J Mol Recognit 5:43–54

    Google Scholar 

  • Wada K, Aota S, Tsuchiya R, Ishibashi F, Gojobori T, IkemuraT (1990) Codon usage tabulated from the GenBank genetic sequence data. Nucleic Acids Res 18:2367–2403

    Google Scholar 

  • Yomo T, Ohno S (1989) Concordant evolution of coding and noncoding regions of DNA made possible by the universal rule of TA/CG deficiency-TG/CT excess. Proc Natl Acad Sci USA 86: 8452–8456

    Google Scholar 

  • Yomo T, Urabe I, Okada H (1992) No stop codons in the antisense strands of genes for nylon oligomer degradation. Proc Natl Acad Sci USA 89:3780–3784

    Google Scholar 

  • Yomo T, Urabe I (1994) A frame-specific symmetry of complementary strand of DNA suggests the existence of genes on the antisense strand. J Mol Evol 38:113–120.

    Google Scholar 

  • Zull JE, Smith SK (1990) Is genetic code redundancy related to retention of structural information in both DNA strands? Trends Biochem Sci 15:257–261

    Google Scholar 

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Forsdyke, D.R. Sense in antisense?. J Mol Evol 41, 582–586 (1995). https://doi.org/10.1007/BF00175816

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  • DOI: https://doi.org/10.1007/BF00175816

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