A model for the early evolution of self-replicating polymers

Journal of Theoretical Biology

Volumn 191, Issue 3, 1998, Pages 237-248

  Monteiro, L H A ^a   Piqueira, J R C ^a  

^a UNIVERSITY OF SÃO PAULO   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEIC ACID; POLYMER;

COMPUTER SIMULATION; DNA REPLICATION; DYNAMICS; EVOLUTION; MATHEMATICAL MODEL; PRIORITY JOURNAL; REVIEW;

EID: 0032492640     PISSN: 00225193     EISSN: None     Source Type: Journal    
DOI: 10.1006/jtbi.1997.0568     Document Type: Article

References (58)

1. ANDRADE, M. A., NUÑO, J. C., MORÁN, F., MONTERO, F. & MPITSOS, G. J. (1993). Complex dynamics of a catalytic network having faulty replication into error-species. Physica 63D, 21-40.
2. BACHER, J. E. & ALLEN, F. W. (1950). The application of a treatment of consecutive reactions to the acidic hydrolysis of ribonucleic acids. J. Biol. Chem. 182, 701-713.
3. BANZHAF, W. (1995). Self-organizing algorithms derived from RNA interactions. In: Lecture Notes in Computer Science - Evolution and Biocomputation (Banzhaf, W. & Eeckman, F. H., eds), Vol. 899, pp. 69-102. Berlin: Springer-Verlag.
4. BERNSTEIN, H., BYERLY, H. C., HOPF, F. A., MICHOD, R. A. & KRISHNA VEMULAPALLI, G. (1983). The Darwinian dynamic. Q. Rev. Biol. 58, 185-207.
5. BLOMBERG, C. (1991). Considerations of stability in models of primitive life: effect of errors and error propagation. In: Complexity, Chaos, and Biological Evolution (Mosekilde, E. & Mosekilde, L., eds), pp. 209-221. New York: Plenum Press.
6. BRAZAS, R. & GANEM, D. (1996). A cellular homolog of hepatitis delta antigen: implications for viral replication and evolution. Science 274, 90-94.
7. BRAZAS, R. & GANEM, D. (1997). (comments about the Long et al.'s paper cited below) Science 276, 825.
8. CAIRNS-SMITH, A. G. & DAVIS, C. J. (1977). The design of novel replicating polymers. In: The Encyclopaedia of Ignorance (Duncan, R. & Weston-Smith, M., eds), pp. 391-404. Oxford: Pergamon Press.
9. CHEN, C. B., INOUE, T. & ORGEL, L. E. (1985). Template-directed synthesis on oligodeoxycytidylate and polydeoxycytidylate templates. J. Mol. Biol. 181, 271-279.
10. DEMETRIUS, L. (1983). Selection and evolution in macromolecular systems. J. theor. Biol. 103, 619-643.
11. DOUDNA, J. A., USMAN, N. & SZOSTAK, J. W. (1993). Ribozyme-catalyzed primer extension by trinucleotides: a model for the RNA-catalyzed replication of RNA. Biochemistry 32, 2111-2115.
12. DYSON, F. J. (1982). A model for the origin of life. J. Mol. Evol. 18, 344-350.
13. EBELING, W. (1991). Mutations and selection in evolutionary processes. In: Complexity, Chaos, and Biological Evolution (Mosekilde, E. & Mosekilde, L., eds), pp. 195-208. New York: Plenum Press.
14. EIGEN, M. & PÖRSCHKE, D. (1970). Co-operative non-enzymic base recognition. I. Thermodynamics of the helix-coil transition of oligoriboadenylic acids at acidic pH. J. Mol. Biol. 53, 123-141.
15. EIGEN, M. (1971). Selforganization of matter and the evolution of biological macromolecules. Naturwissenschaften 58, 465-523.
16. EIGEN, M. & SCHUSTER, P. (1979). The Hypercycle - A Principle of Natural Self-Organization. Berlin: Springer-Verlag.
17. EIGEN, M. (1993). Viral quasispecies. Sci. Am. 269(1), 32-39.
18. EKLAND, E. H. & BARTEL, D. P. (1996). RNA-catalysed RNA polymerization using nucleoside triphosphates. Nature 382, 373-376 and 383, 192.
19. EPSTEIN, I. R. (1979). Competitive coexistence of self-reproducing macromolecules. J. theor. Biol. 78, 271-298.
20. ESCHENMOSER, A. & LOEWENTHAL, E. (1992). Chemistry of potentially prebiological natural products. Chem. Soc. Rev. 21, 1-16.
21. FARMER, J. D., KAUFFMAN, S. A. & PACKARD, N. H. (1986). Autocatalytic replication of polymers. Physica 22D, 50-67.
22. FERRIS, J. P., HILL JR., A. R., LIU, R. & ORGEL, L. E. (1996) Synthesis of long prebiotic oligomers on mineral surfaces. Nature 381, 59-61.
23. GILBERT, W. (1986). The RNA world. Nature 319, 618.
24. HAPPEL, R., HECHT, R. & STADLER, P. F. (1996). Autocatalytic networks with translation. Bull. Math. Biol. 58, 877-905.
25. HORGAN, J. (1996). The world according to RNA. Sci. Am. 274(1), 16-17.
26. HSU, S. B., HUBBELL, S. & WALTMAN, P. (1977). A mathematical theory for single-nutrient competition in continuous cultures of micro-organisms. SIAM J. Appl. Math. 32, 366-383.
27. INOUE, T., JOYCE, G. F., GRZESKOWIAK, K. & ORGEL, L. E. (1984). Template-directed synthesis on the pentanucleotide CpCpG-pCpC. J. Mol. Biol. 178, 669-676.
28. JONES, B. L. (1977a). A model for macromolecular selection in complementary instructing systems. J. Math. Biol. 4, 29-34.
29. JONES, B. L. (1977b). A solvable selfreproductive hypercycle model for the selection of biological molecules. J. Math. Biol. 4, 187-193.
30. JOYCE, G. F. (1987). Nonenzymatic template-directed synthesis of informational macromolecules. Cold Spring Harb. Symp. Quant. Biol. 52, 41-51.
31. JOYCE, G. F. & ORGEL, L. E. (1993). Prospects for understanding the origin of the RNA world. In: The RNA World (Gesteland, R. F. & Atkins, J. F., eds), pp. 1-25. New York: Cold Spring Harbor Laboratory Press.
32. KANAVARIOTI, A., CHANG, S. & ALBERAS, D. J. (1990). Limiting concentrations of activated mononucleotides necessary for poly(C)-directed elongation of oligoguanylates. J. Mol. Evol. 31, 462-469.
33. KANAVARIOTI, A. & BERNASCONI, C. F. (1990). Computer simulation in template-directed oligonucleotide synthesis. J. Mol. Evol. 31, 470-477.
34. KANAVARIOTI, A., BERNASCONI, C. F., ALBERAS, D. J. & BAIRD E. E. (1993). Kinetic dissection of individual steps in the poly(C)-directed oligoguanylate synthesis from guanosine 5′-monophosphate 2-methylimidazolide. J. Am. Chem. Soc. 115, 8537-8546.
35. KANAVARIOTI, A. (1994). Template-directed chemistry and the origins of the RNA world. Orig. Life Evol. Biosphere 24, 479-494.
36. +-montmorillonite. J. Am. Chem. Soc. 116, 7564-7572.
37. KÜPPERS, B. O. (1983). Molecular Theory of Evolution, pp. 151-153. Berlin: Springer-Verlag.
38. LAZCANO, A. & MILLER, S. L. (1996). The origin and early evolution of life: prebiotic chemistry, the pre-RNA world, and time. Cell 85, 793-798.
39. LEE, D. H., GRANJA, J. R., MARTINEZ, J. A., SEVERIN, K. & REZA GHADIRI, M. (1996). A self-replicating peptide. Nature 382, 525-528.
40. LIFSON, S. (1997). On the crucial stages in the origin of animate matter. J. Mol. Evol. 44, 1-8.
41. LONG, M., DE SOUZA, S. J. & GILBERT, W. (1997). Delta-interacting protein A and the origin of hepatitis delta antigen. Science 276, 824-825.
42. NOWICK, J. S., FENG Q., TJIVIKUA, T., BALLESTER, P. & REBEK JR., J. (1991). Kinetic studies and modeling of a self-replicating system. J. Am. Chem. Soc. 113, 8831-8839.
43. MICHOD, R. E. (1983). Population biology of the first replicators: on the origin of the genotype, phenotype and organism. Amer. Zool. 23, 5-14.
44. OHNO, S. (1984). Repeats of base oligomers as the primordial coding sequences of the primeval earth and their vestiges in modern genes. J. Mol. Evol. 20, 313-321.
45. ORGEL, L. E. (1992). Molecular replication. Nature 358, 203-209.
46. ORGEL, L. E. (1995). Unnatural selection in chemical systems. Acc. Chem. Res. 28, 109-118.
47. RASMUSSEN, S. (1988). Toward a quantitative theory of the origin of life. In: Artificial Life I - SFI Studies in the Sciences of Complexity (Langton, C. G., ed.), Vol. 6, pp. 79-104. Redwood City: Addison-Wesley.
48. ROBERTSON, H. D. (1996). How did replicating and coding RNAs first get together? Science 274, 66-67.
49. ROKHSAR, D. S., ANDERSON, P. W. & STEIN, D. L. (1986). Self-organization in prebiological systems: simulations of a model for the origin of genetic information. J. Mol. Evol. 23, 119-126.
50. SHAPIRO, R. (1995). The prebiotic role of adenine: a critical analysis. Orig. Life Evol. Biosphere 25, 83-98.
51. STEINER, R. F. & BEERS, R. F., JR. (1959). The influence of various factors upon the structural transition of polyriboadenylic acid at acid pH's. Biochim. Biophys. Acta 32, 166-176.
52. SZATHMÁRY, E. & GLADKIH, I. (1989). Sub-exponential growth and coexistence of non-enzymatically replicating templates. J. theor. Biol. 138, 55-58.
53. SZATHMÁRY, E. (1991). Simple growth laws and selection consequences. Trends Ecol. Evol. 6, 366-370.
54. TERFORT, A. & VON KIEDROWSKI, G. (1992). Self-replication by condensation of 3-amino-benzamidines and 2-formylphenoxyacetic acids. Angew. Chem. Int. Ed. Engl. 31, 654-656.
55. VISSCHER, J., BAKKER, C. G., VAN DER WOERD, R. & SCHWARTZ, A. W. (1989). Template-directed oligomerization catalyzed by a polynucleotide analog. Science 244, 329-331.
56. VON KIEDROWSKI, G. (1986). A self-replicating hexadeoxynucleotide. Angew. Chem. Int. Ed. Engl. 25, 932-935.
57. VON KIEDROWSKI, G., WLOTZKA, B., HELBING, J., MATZEN, M. & JORDAN, S. (1991). Parabolic growth of a self-replicating hexadeoxynucleotide bearing a 3′-5′-phosphoamidate linkage. Angew. Chem. Int. Ed. Engl. 30, 423-426 and 892.
58. ZIELINSKI, W. S. & ORGEL, L. E. (1987). Autocatalytic synthesis of a tetranucleotide analogue. Nature 327, 346-347.