On RAF Sets and Autocatalytic Cycles in Random Reaction Networks

The emergence of autocatalytic sets of molecules seems to have played an important role in the origin of life context. Although the possibility to reproduce this emergence in laboratory has received considerable attention, this is still far from being achieved.

[1]  ดร.ทิวัตถ์ กุลชนะภควัต,et al.  Molecular Biology of THE CELL fifth edition , 2014 .

[2]  M. Steel,et al.  Detecting Autocatalytic, Self-sustaining Sets in Chemical Reaction Systems , 2003 .

[3]  Martin Nilsson,et al.  Bridging Nonliving and Living Matter , 2003, Artificial Life.

[4]  Roberto Serra,et al.  A stochastic model of the emergence of autocatalytic cycles , 2011 .

[5]  Frank Harary,et al.  Graph Theory , 2016 .

[6]  J. D. Bernal,et al.  “The Origins of Life” , 1957, Nature.

[7]  Chris Smith,et al.  Molecular Biology of the Cell (Fifth Edition) , 2008 .

[8]  Lanny D. Schmidt,et al.  The engineering of chemical reactions , 1997 .

[9]  Roberto Serra,et al.  The role of energy in a stochastic model of the emergence of autocatalytic sets , 2011, ECAL.

[10]  D. Bartel,et al.  Synthesizing life : Paths to unforeseeable science & technology , 2001 .

[11]  Stuart A. Kauffman,et al.  ORIGINS OF ORDER , 2019, Origins of Order.

[12]  Albert,et al.  Emergence of scaling in random networks , 1999, Science.

[13]  J. Szostak,et al.  Template-directed synthesis of a genetic polymer in a model protocell , 2008, Nature.

[14]  Sanjay Jain,et al.  Autocatalytic sets and the growth of complexity in an evolutionary model , 1998, adap-org/9809003.

[15]  Roberto Serra,et al.  A stochastic model of autocatalytic reaction networks , 2012, Theory in Biosciences.

[16]  Reinhard Diestel,et al.  Graph Theory , 1997 .

[17]  Roberto Serra,et al.  Synchronization Phenomena in Surface-Reaction Models of Protocells , 2007, Artificial Life.

[18]  Javier Macía,et al.  Synthetic protocell biology: from reproduction to computation , 2007, Philosophical Transactions of the Royal Society B: Biological Sciences.

[19]  Y. Pilpel,et al.  Graded Autocatalysis Replication Domain (GARD): Kinetic Analysis of Self-Replication in Mutually Catalytic Sets , 1998, Origins of life and evolution of the biosphere.

[20]  M. Eigen,et al.  The hypercycle. A principle of natural self-organization. Part A: Emergence of the hypercycle. , 1977, Die Naturwissenschaften.

[21]  Elchanan Mossel,et al.  Random biochemical networks: the probability of self-sustaining autocatalysis. , 2005, Journal of theoretical biology.

[22]  S. A. Kauffman,et al.  Autocatalytic sets of proteins , 1986, Origins of life and evolution of the biosphere.

[23]  Pasquale Stano,et al.  Approaches to semi-synthetic minimal cells: a review , 2005, Naturwissenschaften.

[24]  Steen Rasmussen,et al.  Emergence of protocellular growth laws , 2007, Philosophical Transactions of the Royal Society B: Biological Sciences.

[25]  S. Kauffman,et al.  Autocatalytic replication of polymers , 1986 .

[26]  Wim Hordijk,et al.  The Structure of Autocatalytic Sets: Evolvability, Enablement, and Emergence , 2012, Acta biotheoretica.

[27]  D. Bartel,et al.  Synthesizing life , 2001, Nature.

[28]  M. Eigen,et al.  The Hypercycle: A principle of natural self-organization , 2009 .

[29]  Roberto Serra,et al.  A stochastic model of catalytic reaction networks in protocells , 2014, Natural Computing.

[30]  M Villani,et al.  Sufficient conditions for emergent synchronization in protocell models. , 2008, Journal of theoretical biology.

[31]  Wim Hordijk,et al.  Required Levels of Catalysis for Emergence of Autocatalytic Sets in Models of Chemical Reaction Systems , 2011, International journal of molecular sciences.

[33]  S. Krishna,et al.  A model for the emergence of cooperation, interdependence, and structure in evolving networks. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[34]  Roberto Serra,et al.  Non-linear protocell models: synchronization and chaos , 2010 .

[35]  P. Stadler,et al.  Dynamics of autocatalytic reaction networks. IV: Inhomogeneous replicator networks. , 1991, Bio Systems.

[36]  R. J. Bagley,et al.  Spontaneous emergence of a metabolism , 1990 .

[37]  W. Marsden I and J , 2012 .

[38]  M. Eigen,et al.  The Hypercycle , 2004, Naturwissenschaften.

[39]  Roberto Serra,et al.  The influence of the residence time on the dynamics of catalytic reaction networks , 2011, WIRN.