Metabolic Basis for the Self-Referential Genetic Code

Origins of Life and Evolution of Biospheres

Volumn 41, Issue 4, 2011, Pages 357-371

  Guimarães, Romeu Cardoso ^a  

^a FEDERAL UNIVERSITY OF MINAS GERAIS   (Brazil)

Author keywords

Evolution; Genetic code; Glycine serine pathway; Origin; Self reference

Indexed keywords

CARBON; GLYCINE; GLYCINE DEHYDROGENASE (DECARBOXYLATING); GLYCINE HYDROXYMETHYLTRANSFERASE; GLYOXYLIC ACID DERIVATIVE; RIBONUCLEOPROTEIN; SERINE; TRANSFER RNA;

AMINO ACID; COEVOLUTION; EARLY EARTH; ENZYME ACTIVITY; GENETIC STRUCTURE; METABOLISM; ORIGIN OF LIFE; PEPTIDE; PROTEIN;

ARTICLE; BIOSYNTHESIS; GENETIC CODE; GLYCOLYSIS; METABOLISM; METABOLOME; MOLECULAR EVOLUTION; PROTEIN SYNTHESIS;

CARBON; EVOLUTION, MOLECULAR; GENETIC CODE; GLYCINE; GLYCINE DEHYDROGENASE (DECARBOXYLATING); GLYCINE HYDROXYMETHYLTRANSFERASE; GLYCOLYSIS; GLYOXYLATES; METABOLOME; PROTEIN BIOSYNTHESIS; RIBONUCLEOPROTEINS; RNA, TRANSFER; SERINE;

EID: 79960194496     PISSN: 01696149     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11084-010-9226-x     Document Type: Article

References (39)

1. Bauwe H, Kolukisaoglu U (2003) Genetic manipulation of glycine decarboxylation. J Exp Bot 54: 1523-1535.
2. Beuning PJ, Musier-Forsyth K (1999) Transfer RNA recognition by aminoacyl-tRNA synthetases. Biopolymers 52: 1-28.
3. Bloch DP, McArthur B, Guimarães RC, Smith J, Staves MP (1989) tRNA-rRNA sequence matches from inter- and intraspecies comparisons suggest common origins for the two RNAs. Braz J Med Biol Res 22: 931-944.
4. Davis BK (1999) Evolution of the genetic code. Prog Biophys Mol Biol 72: 157-243.
5. DiGiulio M (2005) The origin of the genetic code: theories and their relationships, a review. BioSystems 80: 175-184.
6. Ensign SA (2006) Revisiting the glyoxylate cycle: alternate pathways for microbial acetate assimilation. Mol Microbiol 61: 274-276.
7. Farias ST, Moreira CHC, Guimarães RC (2007) Structure of the genetic code suggested by the hydropathy correlation between anticodons and amino acid residues. Orig Life Evol Biosph 37: 83-103.
8. Grosjean H, Houssier C (1990) Codon recognition: evaluation of the effects of modified bases in the anticodon loop of tRNA using the temperature jump-relaxation method. In: Gehrke CW, Kuo KCT (eds) Chromatography and modification of nucleotides. Elsevier, Amsterdam, pp A255-A295.
9. Guimarães RC, Moreira CHC (2004) Genetic code-a self-referential and functional model. In: Pályi G, Zucchi C, Caglioti L (eds) Progress in biological chirality. Elsevier, Oxford, pp 83-118.
10. Guimarães RC, Moreira CHC, Farias ST (2008a) A self-referential model for the formation of the genetic code. Theory Biosci 127: 249-270.
11. Guimarães RC, Moreira CHC, Farias ST (2008b) Self-referential formation of the genetic system. In: Barbieri M (ed) The codes of life-the rules of macroevolution. Springer, Dordrecht, pp 69-110.
12. Hamosh A, Johnston MV (2000) Nonketotic hyperglycinemia. In: Scriver CR, Beaudet AL, Sly WS, Valle D (eds) The metabolic and molecular bases of inherited disease. McGraw-Hill, New York, pp 2065-2078.
13. Heil G, Stauffer LT, Stauffer GV (2002) Glycine binds the transcriptional accessory protein GcvR to disrupt a GcvA/GcvR interaction and allow GcvA-mediated activation of the Escherichia coli gcvTHP operon. Microbiology 148: 2203-2214.
14. 2-dependent terminal electron accepting processes in anoxic environments: a review of observations and model approaches. Environ Sci Technol 44: 24-33.
15. Higgs PG (2009) A four-column theory for the origin of the genetic code: tracing the evolutionary pathways that gave rise to an optimized code. Biol Direct 4: 16.
16. Hiraga K, Kochi H, Motokawa Y, Kikuchi G (1972) Enzyme complex nature of the reversible glycine cleavage system of cock liver mitochondria. J Biochem 72: 1285-1289.
17. Klipcan L, Safro M (2004) Amino acid biogenesis, evolution of the genetic code and aminoacyl-tRNA synthetases. J Theor Biol 228: 389-396.
18. Knight RD, Freeland SJ, Landweber LF (2001) Rewiring the keyboard: evolvability of the genetic code. Nat Rev Genet 2: 49-58.
19. Kyte J (1995a) Structure in protein chemistry. Garland, New York.
20. Kyte J (1995b) Mechanism in protein chemistry. Garland, New York.
21. 13C labeling of common amino acids. Eur J Biochem 268: 2464-2479.
22. Madigan MT, Martinko JM, Parker J (2003) Brock biology of microorganisms. Pearson Education Inc.-Prentice Hall, Upper Saddle River.
23. Martin W, Russell MJ (2003) On the origins of cells: a hypothesis for the evolutionary transition from abiotic geochemistry to chemoautotrophic prokaryotes, and from prokaryotes to nucleated cells. Philos Trans R Soc Lond B 358: 59-85.
24. Motokawa Y, Kikuchi G (1974) Glycine metabolism by rat liver mitochondria. Reconstruction of the reversible glycine cleavage system with partially purified protein components. Arch Biochem Biophys 164: 624-633.
25. Nuevo M, Bredehöft JH, Meierhenrich UJ, D'Hendecourt L, Thiemann WHP (2010) Urea, glycolic acid, and glycerol in an organic residue produced by ultraviolet irradiation of interstellar pre-cometary ice analogs. Astrobiology 10: 245-256.
26. Peterson RB (1982) Regulation of the glycine decarboxylation complex and of the L-serine hydroxymethyltransferase activities by glyoxylate in tobacco leaf mitochondrial preparations. Plant Physiol 70: 61-66.
27. 13C-metabolomics. Proc Natl Acad Sci USA 106: 4846-4851.
28. Pizer LI, Potochny ML (1964) Nutritional and regulatory aspects of serine metabolism in Escherichia coli. J Bacteriol 88: 611-619.
29. Randau L, Münch R, Hohn MJ, Jahn D, Söll D (2005) Nanoarchaeum equitans creates functional tRNAs from separate genes for their 5′ and 3′ halves. Nature 433: 537-541.
30. Reitzer L (2003) Nitrogen assimilation and global regulation in Escherichia coli. Annu Rev Microbiol 57: 155-176.
31. Sinclair DA, Dawes IW (1995) Genetics of the synthesis of serine from glycine and the utilization of glycine as sole nitrogen source by Saccharomyces cerevisiae. Genetics 140: 1213-1222.
32. Tamura K, Schimmel PR (2006) Chiral-selective aminoacylation of an RNA minihelix: mechanistic features and chiral suppression. Proc Natl Acad Sci USA 103: 13750-13752.
33. Trifonov EN (1999) Glycine clock: eubacteria first, archaea next, protoctista, fungi, planta and animalia at last. Gene Ther Mol Biol 4: 313-322.
34. Trifonov EN (2004) The triplet code from first principles. J Biomol Struct Dyn 22: 1-11.
35. Volmer W, Blanot D, Pedro MA (2008) Peptidoglycan structure and architecture. FEMS Microbiol Rev 32: 149-167.
36. Wong JTF (1975) A co-evolution theory of the genetic code. Proc Natl Acad Sci USA 72: 1909-1912.
37. Wong JTF (2005) Coevolution theory of the genetic code at age thirty. BioEssays 27: 416-425.
38. Wood AP, Aurikko JP, Kelly DP (2004) A challenge for the 21st century molecular biology and biochemistry: what are the causes of obligate autotropohy and methanotrophy? FEMS Microbiol Rev 28: 335-352.
39. Zuckerkandl E (1975) The appearance of new structures and functions in proteins during evolution. J Mol Evol 7: 1-57.