Summary
RNA genomes have been shown to mutate much more frequently than DNA genomes. It is generally assumed that this results in rapid evolution of RNA viral proteins. Here, an alternative hypothesis is proposed that close cooperation between positive-strand RNA viral proteins and those of the host cells required their coevolution, resulting in similar amino acid substitution rates. Constraints on compatibility with cellular proteins should determine, at any time, the covarion sets in RNA viral proteins. These ideas may be helpful in rationalizing the accumulating data on significant sequence similarities between proteins of positive-strand RNA viruses infecting evolutionarily distant hosts as well as between viral and cellular proteins.
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References
Ahlquist P, Strauss EG, Rice CM, Strauss JH, Haseloff J, Zimmern D (1985) Sindbis virus proteins nsP1 and nsP2 contain homology to nonstructural proteins from several RNA plant viruses. J Virol 53:536–542
Andrews NC, Levin D, Baltimore D (1985) Poliovirus replicase stimulation by terminal uridylyl transferase. J Biol Chem 260: 7628–7635
Blumenthal T (1979) Qβ replicase and protein synthesis elongation factors EF-Tu and EF-Ts. Meth Enzymol 60:628–638
Domingo E, Martinez-Salas E, Sobrino F, de la Torre JC, Portela A, Ortin J, Lopez-Galindez C, Perez-Brena P, Villanueva N, Najera R, Van de Pol S, Steinhauer D, DePolo N, Holland JJ (1985) The quasispecies (extremely heterogeneous) nature of viral RNA genome populations: biological relevance—a review. Gene 40:1–8
Eigen M, Gardiner W, Schuster P, Winkler-Oswatitsch R (1981) The origin of genetic information. Sci Am 244:88–118
Emini E, Schleiff WA, Colonno RJ, Wimmer E (1985) Antigenic conservation and divergence between the viral-specific proteins of poliovirus type 1 and various picornaviruses. Virology 140:13–20
Fitch WM (1971) Rate of change of concomitantly variable codons. J Mol Evol 1:84–96
Gibbs A (1980) How ancient are the tobamoviruses? Intervirology 14:101–108
Gilbert W (1986) The RNA world. Nature 319:618
Goldbach R (1986) Molecular evolution of plant RNA viruses. Annu Rev Phytopathol 24:289–310
Goldbach R (1987) Genome similarities between plant and animal RNA viruses. Microbiol Sci 4:197–202
Gorbalenya AE, Blinov VM, Donchenko AP (1986a) Polio-virus-encoded proteinase 3C: a possible evolutionary link between cellular serine and cysteine proteinase families. FEBS Lett 194:253–257
Gorbalenya AE, Donchenko AP, Blinov VM (1986b) Polio-virus proteins with different functions are probably of common origin. Molek Genetika No. 1:36–41 [in Russian]
Gorbalenya AE, Koonin EV, Blinov VM, Donchenko AP (1988a) Sobemovirus genome appears to encode a serine protease related to cysteine proteases of picornaviruses. FEBS Lett 236:287–290
Gorbalenya AE, Koonin EV, Blinov VM, Donchenko AP (1988b) A conserved NTP-binding motif in putative helicases. Nature 333:22
Gorbalenya AE, Koonin EV, Donchenko AP, Blinov VM (1988c) A novel superfamily of nucleoside triphosphate-binding motif containing proteins probably involved in duplex unwinding in DNA and RNA replication and recombination. FEBS Lett 235:16–24
Hodgman TC (1988) A protein superfamily involved in nucleic acid replication and recombination. Nature 333:22–23
Holland JJ, Spindler K, Horodyski F, Grabau E, Nichol S, Van de Pol S (1982) Rapid evolution of RNA genomes. Science 215:1577–1585
Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, England
Koonin EV, Agol VI (1983) Encephalomyocarditis virus replication complexes that prefer nucleoside diphosphates as substrates for viral RNA synthesis. Virology 129:309–318
Krausslich HG, Nicklin MJH, Toyoda H, Etchison D, Wimmer E (1987) Poliovirus proteinase 2A induces cleavage of eukaryotic initiation factor 4F polypeptide p220. J Virol 61: 2711–2718
Liljas L (1986) Structure of spherical viruses. Prog Biophys Mol Biol 18:1–36
Linz JE, Lira LE, Sypherd PS (1986) The primary structure and the functional domains of an elongation factor-1 fromMucor racemosa. J Biol Chem 261:15022–15029
Ranki M, Kaariainen L (1979) Solubilized RNA replication complex from Semliki forest virus-infected cells. Virology 98: 298–307
Ratner VA, Zharkikh AA, Kotchanov NA, Rodin SN, Soloviev VV, Shamin VV (1985) Problems of the theory of molecular evolution. Nauka, Novosibirsk, USSR [in Russian]
Regnier P, Grunberg-Manago M, Ortier C (1987) Nucleotide sequence of the pnp gene ofEscherichia coli encoding polynucleotide phosphorylase. Homology of the primary structure of the protein with the RNA binding domain of ribosomal protein S1. J Biol Chem 262:63–68
Smith DB, Inglis SC (1987) The mutation rate and variability of eukaryotic viruses: an analytical review. J Gen Virol 68: 2729–2740
Steinhauer D, Holland JJ (1987) Rapid evolution of RNA viruses. Annu Rev Microbiol 41:409–433
Ward CD, Stokes MAM, Flanegan JB (1988) Direct measurement of the poliovirus RNA polymerase error frequency in vitro. J Virol 62:558–562
Watanabe Y, Okada Y (1986) In vitro viral RNA synthesis by a subcellular fraction of TMV-inoculated tobacco protoplasts. Virology 149:64–73
Zimmern D (1983) Homologous proteins encoded by yeast mitochondrial introns and by a group of RNA viruses from plants. J Mol Biol 171:345–352
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Koonin, E.V., Gorbalenya, A.E. Evolution of RNA genomes: Does the high mutation rate necessitate high rate of evolution of viral proteins?. J Mol Evol 28, 524–527 (1989). https://doi.org/10.1007/BF02602932
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DOI: https://doi.org/10.1007/BF02602932