A model of epigenetic evolution based on theory of open quantum systems

We present a very general model of epigenetic evolution unifying (neo-)Darwinian and (neo-)Lamarckian viewpoints. The evolution is represented in the form of adaptive dynamics given by the quantum(-like) master equation. This equation describes development of the information state of epigenome under the pressure of an environment. We use the formalism of quantum mechanics in the purely operational framework. (Hence, our model has no direct relation to quantum physical processes inside a cell.) Thus our model is about probabilities for observations which can be done on epigenomes and it does not provide a detailed description of cellular processes. Usage of the operational approach provides a possibility to describe by one model all known types of cellular epigenetic inheritance.

[1]  Masanori Ohya,et al.  Quantum Bio-Informatics IV: From Quantum Information to Bio-Informatics , 2011 .

[2]  Taksu Cheon,et al.  A nonlinear neural population coding theory of quantum cognition and decision making , 2012 .

[3]  Vasily Ogryzko,et al.  On Two Quantum Approaches to Adaptive Mutations in Bacteria , 2008, 0805.4316.

[4]  Andrei Khrennikov Quantum-like formalism for cognitive measurements. , 2003, Bio Systems.

[5]  Ueli Grossniklaus,et al.  Epigenetics: The Flowers That Come In From The Cold , 2002, Current Biology.

[6]  W. Zurek Quantum Darwinism , 2009, 0903.5082.

[7]  Sui Huang The molecular and mathematical basis of Waddington's epigenetic landscape: A framework for post‐Darwinian biology? , 2012, BioEssays : news and reviews in molecular, cellular and developmental biology.

[8]  Joseph P. Zbilut,et al.  A Preliminary Experimental Verification On the Possibility of Bell Inequality Violation in Mental States , 2008 .

[9]  Andrei Khrennikov,et al.  Ubiquitous Quantum Structure: From Psychology to Finance , 2010 .

[10]  Yoshiharu Tanaka,et al.  Quantum-like model of diauxie in Escherichia coli: operational description of precultivation effect. , 2012, Journal of theoretical biology.

[11]  Masanori Ohya,et al.  A general quantum information model for the contextual dependent systems breaking the classical probability law , 2011 .

[12]  Jerome R. Busemeyer,et al.  A Quantum Information Processing Explanation of Disjunction Effects , 2006 .

[13]  W. Zurek,et al.  Quantum Darwinism: Entanglement, branches, and the emergent classicality of redundantly stored quantum information , 2005, quant-ph/0505031.

[14]  Michal Horodecki,et al.  On Thermal Stability of Topological Qubit in Kitaev's 4D Model , 2008, Open Syst. Inf. Dyn..

[15]  Yoshiharu Tanaka,et al.  Quantum-like model of brain's functioning: decision making from decoherence. , 2011, Journal of theoretical biology.

[16]  C. Waddington Canalization of Development and the Inheritance of Acquired Characters , 1942, Nature.

[17]  William Bateson,et al.  Materials for the Study of Variation: Treated with Especial Regard to Discontinuity in the Origin of Species , 1894 .

[18]  Andrei Khrennikov,et al.  Foundations of Probability and Physics , 2002 .

[19]  Andrei Khrennikov,et al.  On Quantum-Like Probabilistic Structure of Mental Information , 2004, Open Syst. Inf. Dyn..

[20]  Eva Jablonka,et al.  Transgenerational Epigenetic Inheritance: Prevalence, Mechanisms, and Implications for the Study of Heredity and Evolution , 2009, The Quarterly Review of Biology.

[21]  Masanori Ohya,et al.  Quantum-like model for the adaptive dynamics of the genetic regulation of E. coli’s metabolism of glucose/lactose , 2012, Systems and Synthetic Biology.

[22]  Taksu Cheon,et al.  Interference and inequality in quantum decision theory , 2010, 1008.2628.

[23]  Eugene V. Koonin,et al.  Evolution of microbes and viruses: a paradigm shift in evolutionary biology? , 2012, Front. Cell. Inf. Microbio..

[24]  D. Parisi,et al.  Discontinuity in evolution: how different levels of organization imply preadaptation , 1996 .

[25]  Masanori Ohya,et al.  Quantum-like interference effect in gene expression: glucose-lactose destructive interference , 2011, Systems and Synthetic Biology.

[26]  Masanori Ohya,et al.  ADAPTIVE DYNAMICS AND ITS APPLICATIONS TO CHAOS AND NPC PROBLEM , 2008 .

[27]  Francis Galton V.—DISCONTINUITY IN EVOLUTION , 1894 .

[28]  Klaus Harter,et al.  Integrating Biological Perspectives:. a Quantum Leap for Microarray Expression Analysis , 2009 .

[29]  V. Ogryzko,et al.  A quantum-theoretical approach to the phenomenon of directed mutations in bacteria (hypothesis). , 1997, Bio Systems.

[30]  Xiangyi Lu,et al.  Evidence for an epigenetic mechanism by which Hsp90 acts as a capacitor for morphological evolution , 2003, Nature Genetics.

[31]  N. Eldredge,et al.  Punctuated equilibrium comes of age , 1993, Nature.

[32]  Andrei Khrennikov,et al.  Mental States Follow Quantum Mechanics During Perception and Cognition of Ambiguous Figures , 2009, Open Syst. Inf. Dyn..

[33]  Anthony Bloch,et al.  Decoherence Control and Purification of Two-dimensional Quantum Density Matrices under Lindblad Dissipation , 2012, 1201.0399.

[34]  Masanori Ohya,et al.  On Application of Gorini-Kossakowski-Sudarshan-Lindblad Equation in Cognitive Psychology , 2011, Open Syst. Inf. Dyn..

[35]  W. Dove,et al.  Evolution by Jumps : Francis Galton and William Bateson and the Mechanism of Evolutionary Change , 2001 .

[36]  Yoshiharu Tanaka,et al.  Dynamics of Entropy in Quantum-like Model of Decision Making. , 2011 .

[37]  Anirban Banerji,et al.  Existence of biological uncertainty principle implies that we can never find 'THE' measure for biological complexity , 2009, 0902.0490.

[38]  C. Waddington,et al.  GENETIC ASSIMILATION OF AN ACQUIRED CHARACTER , 1953 .

[39]  A. Cabello,et al.  Experimental test of quantum contextuality in neutron interferometry. , 2009, Physical review letters.

[40]  James T. Townsend,et al.  Quantum dynamics of human decision-making , 2006 .

[41]  M. Ohya,et al.  Mathematical Foundations of Quantum Information and Computation and Its Applications to Nano- and Bio-systems , 2011 .

[42]  J. McFadden,et al.  A quantum mechanical model of adaptive mutation. , 1999, Bio Systems.

[43]  Masanori Ohya,et al.  Quantum-Like Model for Decision Making Process in Two Players Game , 2011 .

[44]  Masanori Ohya,et al.  The problem of quantum-like representation in economy, cognitive science, and genetics , 2009 .

[45]  Luigi Accardi,et al.  MARKOV FIELDS ON GRAPHS , 2008 .

[46]  Fabio Benatti Quantum Algorithmic Complexities and Entropy , 2009, Open Syst. Inf. Dyn..

[47]  Andrei Khrennikov,et al.  Ubiquitous Quantum Structure , 2010 .

[48]  Andrei Khrennikov,et al.  Quantum-like brain: "Interference of minds". , 2006, Bio Systems.

[49]  T. Inada,et al.  Mechanism responsible for glucose–lactose diauxie in Escherichia coli: challenge to the cAMP model , 1996, Genes to cells : devoted to molecular & cellular mechanisms.