Summary
The genetic code is evolving, and is not “frozen.” This is shown by 8 departures from the universal code: 5 of them are in mitochondria and 3 are in nuclear codes. We propose that these changes are preceded by disappearance of a codon from coding sequences in mRNA of an organism or organelle. The function of the codon that disappears is taken by other, synonymous codons, so that there is no change in amino acid sequences of proteins. The deleted codon then reappears with a new function. This may be implemented in one of three ways: (1) by a mutation in an anticodon; (2) by change to a different amino acid in aminoacylation of a tRNA molecule, while retaining the same anticodon, or; (3) in mitochondria, by change in the codon-anticodon pairing.
The first procedure occurred in changing codon UGA from stop to tryptophan, codons UAR from stop to glutamine, and codon AAA from lysine to asparagine. The second procedure occurred in changing codon CUN from leucine to threonine CUG form leucine to serine. The third procedure was in AGR from arginine to serine, AGR from serine to stop and in CAU from only pairing with AUG to pairing with AUA and AUG. All these changes were non-disruptive.
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References
Yamao F, Muto A, Kawauchi Y, Iwami M, Iwagami S, Azumi Y, Osawa S (1985) UGA is read as tryptophan in Mycoplasma capricolum. Proc Natl Acad Sci USA 82: 2306–2309
Jukes TH (1985) A change in the genetic code in Mycoplasma capricolum. J Mol Evol 22: 361–362
Jukes, TH, Osawa S, Muto A (1987) Divergence and directional mutation pressures. Nature 325: 668
Osawa S, Jukes TH, Muto A, Yamao F, Ohama T, Andachi Y (1987) Role of directional mutation pressure in the evolution of the eubacterial genetic code. Cold Spring Harbor Symp Quant Biol 55: 777–789
Jukes TH, Osawa S, Muto A, Lehman N (1987) Evolution of anticodons: Variations in the genetic code. Cold Spring Harbor Symp Quant Biol 52: 769–776
Osawa S, Jukes TH (1988) Evolution of the genetic code as affected by anticodon content. Trends Genet 4: 191–198
Osawa S, Ohama T, Yamao F, Muto A., Jukes TH, Ozeki H, Umesono K (1988) Directional mutation pressure and transfer RNA in choice of the third nucleotide of synonymous two-codon sets. Proc Natl Acad Sci USA 85: 1124–1128
Lehman N, Jukes THJ (1988) Genetic code development by stop codon takeover. J Theor Biol 135: 203–214
Osawa S, Jukes TH (1989) Codon reassignment (codon capture) in evolution. J Mol Evol 28: 271–278
Osawa, S, Takeshi O, Jukes TH, Watanabe K (1989) Evolution of the mitochondrial genetic code I. Origin of AGR serine and stop codons in metazoan mitochondria. J Mol Evol 29: 202–207
Osawa S, Ohama T, Jukes TH, Watanabe K, Yokoyama S (1989) Evolution of the mitochondrial genetic code II. Reassignment of codon AUA from isoleucine to methionine. J Mol Evol 29: 373–380
Osawa S, Collins D, Ohama T, Jukes TH, Watanabe K (1990) Evolution of the mitochondrial genetic code III. Reassignment of CUN codons from leucine to threonine during evolution of yeast mitochondria. J Mol Evol 30: 322–328
Ohama T, Osawa S, Watanabe K, Jukes TH (1990) Evolution of the mitochondrial genetic code IV. AAA as an asparagine codon in some animal mitochondria. J Mol Evol 30: 329–332
Crick FHC (1968) The origin of the genetic code. J Mol Biol 38: 367–379
Jungck JR (1978) The genetic code as a periodic table. J Mol Evol 11: 211–224
Helftenbein E (1985) Nucleotide sequence of a macronuclear DNA molecule coding for alpha-tubulin from the ciliate Stylonychia lemnae. Special codon usage: TAA is not a translation termination codon. Nucleic Acids Res 13: 415–433
Horowitz S, Gorovsky MA (1985) An unusual genetic code in nuclear genes of Tetrahymena. Proc Natl Acad Sci USA 82: 2452–2455
Preer JR Jr, Preer LB, Radman BM, Barnett AJ (1985) Deviation from the universal code shown by the gene for surface protein 51A in Paramecium. Nature 314: 188–190
Caron F, Meyer E (1985) Does Paramecium primaurelia use a different genetic code in its macronucleus? Nature 314: 185–188
Hanyu N, Kuchino Y, Nishimura S, Beier H (1986) Dramatic events in ciliate evolution: Alteration of UAA and UAG termination codons to glutamine codons due to anticodon mutations in two Tetrahymena tRNAs Gin. EMBO J 5: 1307–1311
Kawaguchi Y, Honda H, Taniguchi-Morimura J, Iwasaki S (1989) The codon CUG is read as serine in an asporogenic yeast Candida cylindracea. Nature 341: 164–166
Sueoka N (1962) On the genetic basis of variation and heterogeneity of DNA base composition. Proc Natl Acad Sci USA 48: 582–592
Sueoka N (1988) Directional mutation pressure and neutral molecular evolution. Proc Natl Acad Sci USA 85: 2653–2657
Yamao F, Iwagami S, Azumi Y, Muto A, Osawa S (1988) Evolutionary dynamics of tryptophan tRNAs in Mycoplasma capricolum. Mol Gen Genet 212: 364–369
Inamine JM, Ho K, Loechel S, Hu P (1990) Evidence that UGA is read as tryptophan rather than stop by Mycoplasma pneumoniae, Mycoplasma genitalium and Mycoplasma gal- lisepticum. J Bacteriol 172: 504–506
Barrell G, Bankier AT, Drouin J (1979) A different genetic code in human mitochondria. Nature 282: 189–194
Heckman JE, Sarnoff J, Alzner-de Weerd B, Yin S, Rajbhandary UL (1980) Novel features in the genetic code and codon reading patterns in Neurospora crassa mitochondria based on sequences of six mitochondrial tRNAs. Proc Natl Acad Sci USA 77: 3159–3163
Muramatsu T, Yokoyama S, Hirose N, Matsuda A, Ueda T, Yamaizumi Z, Kuchino Y, Nishimura S, Miyazawa T (1988) A novel lysine-substituted nucleoside in the first position of the anticodon of amino isoleucine tRNA from Escherichia coli. J Biol Chem 263: 9261–9267
Muramatsu T, Nishikawa K, Nemoto F, Kuchino Y, Nishimura A, Miyazawa T, Yokoyama S (1988) Codon and amino acid specificities of a transfer RNA are both converted by a single post-transcriptional modification. Nature 336: 179–181
Elliott MS, Trewyn RW (1984) Inosine biosynthesis in transfer RNA by enzymatic insertion of hypoxanthine. J Biol Chem 259: 2407
Crick FHC (1966) Codon-anticodon pairing: The wobble hypothesis. J Mol Biol 19: 548–555
Yokoyama S, Watanabe T, Murao K, Ishikura H, Yamaizumi Z, Nishimura S, Miyazawa T (1985) Molecular mechanism of codon recognition by tRNAs with modified uridine in the first position of the anticodon. Proc Natl Acad Sci USA 82: 4905–4909
Köchel HG, Lazarus CM, Basak N, Kuntzel H (1981) Mitochondrial tRNA gene clusters in Aspergillus nidulans: Organizations and nucleotide sequence. Cell 23: 625–633
Bonitz SG, Berlani R, Coruzzi G, Li M, Macino G, Nobrega FG, Nobrega MP, Thalenfeld BE, Tzagoloff A (1980) Codon recognition rules in yeast mitochondria. Proc Natl Acad Sci USA 77: 3167–3170
Jacobs HT, Elliot D, Math VB, Farquharson A (1988) Nucleotide sequence and gene organization of sea urchin mitochondrial DNA. J Mol Biol 202: 185–217
Jacobs HT, Asakawa S, Miura K-I, Watanabe K (1989) Conserved tRNA gene cluster in starfish mitochondrial DNA. Curr Genet 15: 193–206
Himeno H, Masaki H, Kawai T, Ohta T, Kumagai I, Miura K, Watanabe K (1987) Unusual genetic code and a novel gene structure for tRNA Ser AGY in starfish mitochondrial DNA. Gene 56: 219–230
Harper DS, Jahn CL (1989) Differential use of termination codons in ciliated protozoa. Proc Natl Acad Sci USA 86: 3252–3256
Schneider SU, Leible MB, Yang X-P (1989) Strong homology between the small sub- unit of ribulose-l,5-biphosphate carboxylase/oxygenase of two species of Acetabularia and the occurrence of unusual codon usage. Mol Gen Genet 218: 445–452
Normanly J, Ogden RC, Horvath SJ, Abelson J (1986) Changing the identity of a transfer RNA. Nature 321: 213–219
Food and Nutrition Board (1989) Recommended dietary allowances, 10th edn. National Academy Press, Washington, D.C.
Hoekstra WG (1975) Biochemical function of selenium and its relation to vitamin E. Fed Proc 34: 2083–2089
Stadtman TC (1974) Selenium biochemistry. Science 183: 915–922
Hartmanis MGN, Stadtman TC (1982) Isolation of a selenium-containing thiolase from Clostridium kluyveri: Identification of the selenium moiety as selenomethionine. Proc Natl Acad Sci USA 79: 4912–4916
Stadtman TC (1987) Specific occurrence of selenium in enzymes and amino acid tRNAs. FASEBJ 1: 375–379
Zinoni F, Birkmann A, Leinfelder W, Böck A (1987) Cotranslational insertion of a selenocysteine into formate dehydrogenase from Escherichia coli directed by a UGA codon. Proc Natl Acad Sci USA 84: 3156–3160
Leinfelder W, Zehelein E, Mandrand-Berthelot M-A, Bock A (1988) Gene for a novel tRNA species that accepts L-serine and cotranslationally inserts selenocysteine. Nature 331: 723–725
Gualberto JM, Lamattina L, Bonnard G, Weil J-H, Grienenberger J-M (1989) RNA editing in wheat mitochondria results in the conservation of protein sequences. Nature 341: 660–662
Covello PS, Gray MW (1989) RNA editing in plant mitochondria. Nature 341: 662–666
Hiesel R, Wissinger B, Schuster W, Brennicke A (1989) RNA editing in plant mitochondria. Science 246: 1632–1634
Maréchal-Drouard L, Guillemaut P, Cosset A, Arbogast M, Weber F, Weil J, Dietrich A (1990) Transfer RNAs of potato (Solarium tuberosum) mitochondria have different genetic origins. Nucleic Acids Res 18: 3689–3696
Jukes TH (1966) Molecules and evolution. Columbia University Press, New York
Wong JT-F (1976) The evolution of a universal genetic code. Proc Natl Acad Sci USA 73: 2336–2340
Wong JT-F (1988) Evolution of the genetic code. Microbiol Sci 5: 174–181
Ohkubo S, Muto A, Kawauchi Y, Yamao F, Osawa S (1987) The ribosomal protein gene cluster of Mycoplasma capricolum. Molec Gen Genet 210: 314–322
Andachi Y, Yamao F, Muto A, Osawa S (1989) Codon recognition patterns as deduced from sequences of the complete set of transfer RNA species in Mycoplasma carpricolum. Resemblance to mitochondria. J molec Biol 209: 37–54
Zinoni F, Heider J, Bock A (1990) Features of the formate-dehydrogenase mRNA necessary for decoding of the UGA codon as cysteine. Proc Nat Acad Sci USA 87: 4660–4664
Osawa S, Muto A, Jukes TH, Ohama T (1990) Evolutionary changes in the genetic code. Proc Roy Soc Lond B 241: 19–28
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Jukes, T.H., Osawa, S. (1991). Recent Evidence for Evolution of the Genetic Code. In: Osawa, S., Honjo, T. (eds) Evolution of Life. Springer, Tokyo. https://doi.org/10.1007/978-4-431-68302-5_6
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DOI: https://doi.org/10.1007/978-4-431-68302-5_6
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