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Volumn 64, Issue 5, 2001, Pages 7-

Field theory for a reaction-diffusion model of quasispecies dynamics

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[No Author keywords available]

Indexed keywords


EID: 85035270379     PISSN: 1063651X     EISSN: None     Source Type: Journal    
DOI: 10.1103/PhysRevE.64.051909     Document Type: Article
Times cited : (12)

References (39)
  • 3
    • 85035269320 scopus 로고    scopus 로고
    • E. Domingo and J. J. Holland, in The Evolutionary Biology of Viruses, edited by S. Morse (Raven, New York, 1994), pp. 161–184
    • E. Domingo and J. J. Holland, in The Evolutionary Biology of Viruses, edited by S. Morse (Raven, New York, 1994), pp. 161–184.
  • 7
    • 85035285928 scopus 로고    scopus 로고
    • G. W. Rowe, Theoretical Models in Biology (Oxford University Press, Oxford, 1994)
    • G. W. Rowe, Theoretical Models in Biology (Oxford University Press, Oxford, 1994).
  • 8
    • 85035292535 scopus 로고    scopus 로고
    • The string can be visualized as idealized genomic sequence defining the species, with a length of (Formula presented) genes
    • The string can be visualized as idealized genomic sequence defining the species, with a length of (Formula presented) genes.
  • 14
    • 85035252489 scopus 로고    scopus 로고
    • J. Marro and R. Dickman, Nonequilibrium Phase Transitions in Lattice Models (Cambridge University Press, Cambridge, 1999)
    • J. Marro and R. Dickman, Nonequilibrium Phase Transitions in Lattice Models (Cambridge University Press, Cambridge, 1999).
  • 15
    • 85035287395 scopus 로고    scopus 로고
    • G. Grinstein and M. A. Muñoz, in Fourth Granada Lectures on Computational Physics, edited by P. L. Garrido and J. Marro, Lecture Notes in Physics Vol. 493 (Springer-Verlag, Berlin, 1997)
    • G. Grinstein and M. A. Muñoz, in Fourth Granada Lectures on Computational Physics, edited by P. L. Garrido and J. Marro, Lecture Notes in Physics Vol. 493 (Springer-Verlag, Berlin, 1997).
  • 16
    • 84953269529 scopus 로고    scopus 로고
    • J. Cardy, Scaling and Renormalization in Statistical Physics (Cambridge University Press, Cambridge, 1996)
    • J. Cardy, Scaling and Renormalization in Statistical Physics (Cambridge University Press, Cambridge, 1996).
  • 17
  • 18
  • 23
    • 85035284705 scopus 로고    scopus 로고
    • C. Adami, Introduction to Artificial Life (Springer, New York, 1999)
    • C. Adami, Introduction to Artificial Life (Springer, New York, 1999).
  • 27
    • 0027238226 scopus 로고
    • Under controlled conditions (and the presence of an appropriate RNA polymerase) waves of mutant viruses can be observed and their general properties measured
    • Spatially extended replicating systems have been studied by using (Formula presented) RNA viruses on a one-dimensional setup [see J. McCaskill and G. J. Bauer, Proc. Natl. Acad. Sci. U.S.A. 90, 4191 (1993)]. Under controlled conditions (and the presence of an appropriate RNA polymerase) waves of mutant viruses can be observed and their general properties measured.
    • (1993) Proc. Natl. Acad. Sci. U.S.A. , vol.90 , pp. 4191
    • McCaskill, J.1    Bauer, G.J.2
  • 30
    • 0020437078 scopus 로고
    • For this model, the error-free copy rule (1) reads: (Formula presented) for the master sequence (Formula presented) and (Formula presented) for other sequences, with the constraint (Formula presented)
    • J. Swetina and P. Schuster, Biophys. Chem. 16, 329 (1982). For this model, the error-free copy rule (1) reads: (Formula presented) for the master sequence (Formula presented) and (Formula presented) for other sequences, with the constraint (Formula presented).
    • (1982) Biophys. Chem. , vol.16 , pp. 329
    • Swetina, J.1    Schuster, P.2
  • 31
    • 0033120088 scopus 로고    scopus 로고
    • R. V. Solé, S. C. Manrubia, M. Benton, S. Kauffman, and P. Bak, Trends Ecol. Evol. 14, 156 (1999)
    • R. V. Solé, S. C. Manrubia, M. Benton, S. Kauffman, and P. Bak, Trends Ecol. Evol. 14, 156 (1999).
  • 32
    • 85035250376 scopus 로고    scopus 로고
    • The numerical analysis of the Swetina-Schuster model shows that this approximation works very well for (Formula presented) 27. Sequences larger than this value provide a sharp phase transition. Since the smallest RNA molecules have a size of (Formula presented) (not to mention RNA viruses, whose genomes have sizes (Formula presented) the current approximation seems well justified
    • The numerical analysis of the Swetina-Schuster model shows that this approximation works very well for (Formula presented) 27. Sequences larger than this value provide a sharp phase transition. Since the smallest RNA molecules have a size of (Formula presented) (not to mention RNA viruses, whose genomes have sizes (Formula presented) the current approximation seems well justified.
  • 33
    • 0033592635 scopus 로고    scopus 로고
    • Such a diffusionlike motion, which constitues the simplest approximation to virus transport, has been applied in continuous partial differential equation models of virus spreading in growing plaques [see L. You and J. Yin, J. Theor. Biol. 200, 365 (1999)].
    • (1999) J. Theor. Biol. , vol.200 , pp. 365
    • You, L.1    Yin, J.2
  • 35
    • 85035268294 scopus 로고    scopus 로고
    • Note that this probability is not related to the surviving probability in spreading experiments usually defined in absorbing-state phase transitions 13
    • Note that this probability is not related to the surviving probability in spreading experiments usually defined in absorbing-state phase transitions 13.
  • 36
    • 85035303178 scopus 로고    scopus 로고
    • Since we are only interested in the properties of the stationary state of the system, we have omitted in the expression of the action boundary terms that are relevant for the study of the relaxational dynamics; see for example Ref. 20
    • Since we are only interested in the properties of the stationary state of the system, we have omitted in the expression of the action boundary terms that are relevant for the study of the relaxational dynamics; see for example Ref. 20.
  • 37
    • 85035303098 scopus 로고    scopus 로고
    • R. V. Solé and J. Bascompte, Complexity and Self-Organization in Evolutionary Ecology (Princeton University Press, Princeton, in press)
    • R. V. Solé and J. Bascompte, Complexity and Self-Organization in Evolutionary Ecology (Princeton University Press, Princeton, in press).


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