Literature DB >> 16711842

Quasispecies theory for multiple-peak fitness landscapes.

David B Saakian1, E Muñoz, Chin-Kun Hu, M W Deem.   

Abstract

We use a path integral representation to solve the Eigen and Crow-Kimura molecular evolution models for the case of multiple fitness peaks with arbitrary fitness and degradation functions. In the general case, we find that the solution to these molecular evolution models can be written as the optimum of a fitness function, with constraints enforced by Lagrange multipliers and with a term accounting for the entropy of the spreading population in sequence space. The results for the Eigen model are applied to consider virus or cancer proliferation under the control of drugs or the immune system.

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Year:  2006        PMID: 16711842      PMCID: PMC4474369          DOI: 10.1103/PhysRevE.73.041913

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  10 in total

1.  Error catastrophe and antiviral strategy.

Authors:  Manfred Eigen
Journal:  Proc Natl Acad Sci U S A       Date:  2002-10-07       Impact factor: 11.205

2.  Sequence space localization in the immune system response to vaccination and disease.

Authors:  Michael W Deem; Ha Youn Lee
Journal:  Phys Rev Lett       Date:  2003-08-07       Impact factor: 9.161

3.  Solvable biological evolution model with a parallel mutation-selection scheme.

Authors:  David B Saakian; Chin-Kun Hu
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2004-04-30

4.  Eigen model as a quantum spin chain: exact dynamics.

Authors:  David Saakian; Chin-Kun Hu
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2004-02-27

5.  Solvable sequence evolution models and genomic correlations.

Authors:  Philipp W Messer; Peter F Arndt; Michael Lässig
Journal:  Phys Rev Lett       Date:  2005-04-08       Impact factor: 9.161

6.  Evolution in Mendelian Populations.

Authors:  S Wright
Journal:  Genetics       Date:  1931-03       Impact factor: 4.562

7.  Error thresholds for molecular quasispecies as phase transitions: From simple landscapes to spin-glass models.

Authors: 
Journal:  Phys Rev A       Date:  1992-04-15       Impact factor: 3.140

8.  Towards a general theory of adaptive walks on rugged landscapes.

Authors:  S Kauffman; S Levin
Journal:  J Theor Biol       Date:  1987-09-07       Impact factor: 2.691

Review 9.  Selforganization of matter and the evolution of biological macromolecules.

Authors:  M Eigen
Journal:  Naturwissenschaften       Date:  1971-10

10.  Solvable biological evolution models with general fitness functions and multiple mutations in parallel mutation-selection scheme.

Authors:  David B Saakian; Chin-Kun Hu; H Khachatryan
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2004-10-28
  10 in total
  12 in total

Review 1.  Viral quasispecies evolution.

Authors:  Esteban Domingo; Julie Sheldon; Celia Perales
Journal:  Microbiol Mol Biol Rev       Date:  2012-06       Impact factor: 11.056

2.  Quasispecies theory for finite populations.

Authors:  Jeong-Man Park; Enrique Muñoz; Michael W Deem
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2010-01-06

Review 3.  Theoretical aspects of immunity.

Authors:  Michael W Deem; Pooya Hejazi
Journal:  Annu Rev Chem Biomol Eng       Date:  2010       Impact factor: 11.059

4.  Quasispecies theory for evolution of modularity.

Authors:  Jeong-Man Park; Liang Ren Niestemski; Michael W Deem
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2015-01-28

5.  Lethal mutagenesis in a structured environment.

Authors:  Shelby H Steinmeyer; Claus O Wilke
Journal:  J Theor Biol       Date:  2009-07-21       Impact factor: 2.691

6.  Quasispecies theory for horizontal gene transfer and recombination.

Authors:  Enrique Muñoz; Jeong-Man Park; Michael W Deem
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2008-12-23

7.  Lethal mutants and truncated selection together solve a paradox of the origin of life.

Authors:  David B Saakian; Christof K Biebricher; Chin-Kun Hu
Journal:  PLoS One       Date:  2011-07-26       Impact factor: 3.240

8.  Stationary distribution of self-organized states and biological information generation.

Authors:  Hyung Jun Woo
Journal:  Sci Rep       Date:  2013-11-25       Impact factor: 4.379

9.  Variability in mutational fitness effects prevents full lethal transitions in large quasispecies populations.

Authors:  Josep Sardanyés; Carles Simó; Regina Martínez; Ricard V Solé; Santiago F Elena
Journal:  Sci Rep       Date:  2014-04-09       Impact factor: 4.379

10.  Evolution in a changing environment.

Authors:  Andrea Baronchelli; Nick Chater; Morten H Christiansen; Romualdo Pastor-Satorras
Journal:  PLoS One       Date:  2013-01-10       Impact factor: 3.240

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