Evolutionary timeline of a modeled cell.

  title={Evolutionary timeline of a modeled cell.},
  author={Vrani Ibarra-Junquera and Diego Radillo-Ochoa and C{\'e}sar A. Terrero-Escalante},
  journal={Journal of theoretical biology},

Bifurcation in Cellular Evolution

It is shown that modifications to the graph topology by gradually adding mutations lead here too to the formation of a giant connected component, i.e., to a percolation–like phase transition that triggers an abrupt change in the functionality of the corresponding network.



Origin of complexity in multicellular organisms.

The relevance of the diversity of chemicals and reaction dynamics to the growth of a multicellular organism is demonstrated and Chaotic biochemical dynamics are found to provide the multipotency of stem cells.

Formation of Dominant Mode by Evolution in Biological Systems

Consequences of evolutionary robustness is investigated, which is shown to cause a stronger dimensional reduction in possible phenotypic changes in response to a variety of environmental conditions, and a theory in which high-dimensional phenotypesic changes after evolution are constrained to the points near a one-dimensional major axis that correlates with the growth rate is proposed.

The large-scale organization of metabolic networks

This analysis of metabolic networks of 43 organisms representing all three domains of life shows that, despite significant variation in their individual constituents and pathways, these metabolic networks have the same topological scaling properties and show striking similarities to the inherent organization of complex non-biological systems.

Isologous diversification: A theory of cell differentiation

Autocatalytic sets and the growth of complexity in an evolutionary model

A model of s interacting species is considered with two types of dynamical variables. The fast variables are the populations of the species and slow variables the links of a directed graph that

Random biochemical networks: the probability of self-sustaining autocatalysis.

Self-Reproduction and Darwinian Evolution in Autocatalytic Chemical Reaction Systems

This review starts by evaluating theoretical studies of ACSs specifically with a view to establish the conditions required for such chemical systems to exhibit self-reproduction and Darwinian evolution, and follows with an extensive overview of experimental ACS systems.

Evolutionary origin of power-laws in a biochemical reaction network: embedding the distribution of abundance into topology.

  • C. FurusawaK. Kaneko
  • Physics
    Physical review. E, Statistical, nonlinear, and soft matter physics
  • 2006
Using cell models with catalytic reaction networks, it is confirmed that the power-law distribution for the abundance of chemicals emerges by the selection of cells with higher growth rates, as suggested in a previous study.

Metabolic stability and epigenesis in randomly constructed genetic nets.

The metabolic world of Escherichia coli is not small.

  • Masanori Arita
  • Biology
    Proceedings of the National Academy of Sciences of the United States of America
  • 2004
Analysis of carbon atomic traces in metabolic reactions annotated for Escherichia coli revealed that the average path length of its metabolism is much longer than previously thought and that the metabolic world of this organism is not small in terms of biosynthesis and degradation.