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Attempts to understand how information content can be included in an accounting of the energy flux of the biosphere have led to the conclusion that, in information transmission, one component, the semantic content, or “the meaning of the message,” adds no thermodynamic burden over and above costs arising from coding, transmission and translation. In biology, semantic content has two major roles. For all life forms, the message of the genotype encoded in DNA specifies the phenotype, and hence the organism that is tested against the real world through the mechanisms of Darwinian evolution. For human beings, communication through language and similar abstractions provides an additional supra-phenotypic vehicle for semantic inheritance, which supports the cultural heritages around which civilizations revolve. The following three postulates provide the basis for discussion of a number of themes that demonstrate some important consequences. (i) Information transmission through either pathway has thermodynamic components associated with data storage and transmission. (ii) The semantic content adds no additional thermodynamic cost. (iii) For all semantic exchange, meaning is accessible only through translation and interpretation, and has a value only in context. (1) For both pathways of semantic inheritance, translational and copying machineries are imperfect. As a consequence both pathways are subject to mutation and to evolutionary pressure by selection. Recognition of semantic content as a common component allows an understanding of the

[1]  C. Tucker,et al.  Climate-Driven Increases in Global Terrestrial Net Primary Production from 1982 to 1999 , 2003, Science.

[2]  Anthony Trewavas,et al.  Aspects of plant intelligence. , 2003, Annals of botany.

[3]  S. Blackmore The Meme Machine , 1999 .

[4]  M. Eigen,et al.  Molecular quasi-species. , 1988 .

[5]  Bernard J. Baars,et al.  Neuronal mechanisms of consciousness: A Relational Global Workspace framework. , 1998 .

[6]  K. Popper Objective Knowledge: An Evolutionary Approach , 1972 .

[7]  K. Popper,et al.  Conjectures and refutations;: The growth of scientific knowledge , 1972 .

[8]  Camille Jullian Émile Durkheim, Les Formes élémentaires de la vie religieuse (le système totémique en Australie), 1912 , 1914 .

[9]  P. Stenmark,et al.  A New Member of the Family of Di-iron Carboxylate Proteins , 2001, The Journal of Biological Chemistry.

[10]  Alfred Tarski,et al.  Logic, Semantics, Metamathematics: Papers from 1923 to 1938 , 1958 .

[11]  N. Goldenfeld,et al.  Collective evolution and the genetic code. , 2006, Proceedings of the National Academy of Sciences of the United States of America.

[12]  R. Baierlein,et al.  Entropy in relation to incomplete knowledge , 1985 .

[13]  R. Penrose The emperor's new mind: concerning computers, minds, and the laws of physics , 1989 .

[14]  J. Diamond Collapse: How Societies Choose to Fail or Succeed , 2005 .

[15]  P. Mitchell CHEMIOSMOTIC COUPLING IN OXIDATIVE AND PHOTOSYNTHETIC PHOSPHORYLATION , 1966, Biological reviews of the Cambridge Philosophical Society.

[16]  Ludwig Boltzmann: Man, Physicist, Philosopher , 1983 .

[17]  T. Kuhn,et al.  The Structure of Scientific Revolutions , 1963 .

[18]  Stephen Jay Gould,et al.  The Panda's Thumb: More Reflections in Natural History , 1990 .

[19]  Tudor Savopol,et al.  Molecular basis of transmembrane signalling by sensory rhodopsin II–transducer complex , 2002, Nature.

[20]  Sung-Hou Kim,et al.  Four-helical-bundle structure of the cytoplasmic domain of a serine chemotaxis receptor , 1999, Nature.

[21]  D. Bloor,et al.  Knowledge and Social Imagery , 1977 .

[22]  John Prebble,et al.  Wandering in the Gardens of the Mind: Peter Mitchell and the Making of Glynn , 1966 .

[23]  R. Rorty,et al.  Philosophy and the Mirror of Nature. , 1980 .

[24]  E. T. Jaynes,et al.  The Evolution of Carnot’s Principle , 1988 .

[25]  Piero Carninci,et al.  Tagging mammalian transcription complexity. , 2006, Trends in genetics : TIG.

[26]  Harald Atmanspacher,et al.  Some Basic Problems with Complex Systems , 1998 .

[27]  Monica Fabiani,et al.  The event-related optical signal to electrical stimulation of the median nerve , 2004, NeuroImage.

[28]  K. Popper,et al.  Conjectures and refutations;: The growth of scientific knowledge , 1972 .

[29]  Ludwig Wittgenstein,et al.  The Wittgenstein Reader , 2005 .

[30]  H. Berg The rotary motor of bacterial flagella. , 2003, Annual review of biochemistry.

[31]  Hilary Putnam,et al.  Words and life , 1994 .

[32]  R. Standish On Complexity and Emergence , 2001, nlin/0101006.

[33]  C. Woese A New Biology for a New Century , 2004, Microbiology and Molecular Biology Reviews.

[34]  Imre Lakatos,et al.  The Methodology of Scientific Research Programmes , 1978 .

[35]  J. Lavergne Commentary on: "Photosynthesis and negative entropy production" by Jennings and coworkers. , 2006, Biochimica et biophysica acta.

[36]  J. Takahashi,et al.  Stopping time: the genetics of fly and mouse circadian clocks. , 2001, Annual review of neuroscience.

[37]  Huw Price,et al.  Time's Arrow and Archimedes’ Point , 1997 .

[38]  M. Saraste Oxidative phosphorylation at the fin de siècle. , 1999, Science.

[39]  Z. Bendová,et al.  Setting the biological time in central and peripheral clocks during ontogenesis , 2006, FEBS letters.

[40]  A. Crofts,et al.  Energy conservation in the photochemical reactions of photosynthesis and its relation to delayed fluorescence , 1971, FEBS letters.

[41]  W. W. Bartley,et al.  Philosophy of biology versus philosophy of physics. , 1982, Fundamenta scientiae.

[42]  S. Gould,et al.  Ontogeny and Phylogeny , 1978 .

[43]  D. Petz Entropy, von Neumann and the von Neumann Entropy , 2001 .

[44]  Sung-Hou Kim,et al.  Electron transfer by domain movement in cytochrome bc1 , 1998, Nature.

[45]  R. Jones The Secret of the Totem: Religion and Society from McLennan to Freud , 2005 .

[46]  P. Slezak A Second Look at David Bloor's , 1994 .

[47]  Deb Roy,et al.  Mental imagery for a conversational robot , 2004, IEEE Transactions on Systems, Man, and Cybernetics, Part B (Cybernetics).

[48]  M. Eigen Selforganization of matter and the evolution of biological macromolecules , 1971, Naturwissenschaften.

[49]  Maosheng Zhao,et al.  A Continuous Satellite-Derived Measure of Global Terrestrial Primary Production , 2004 .

[50]  C. Adami,et al.  Evolution of Biological Complexity , 2000, Proc. Natl. Acad. Sci. USA.

[51]  M. Mulkay,et al.  Opening Pandora's Box: A Sociological Analysis of Scientists' Discourse , 1984 .

[52]  R. Penrose Singularities and time-asymmetry. , 1979 .

[53]  E. Durkheim,et al.  Les Formes Elementaires de la Vie Religieuse; (Le Systeme Totemique en Australie). , 1913 .

[54]  I. Prigogine,et al.  Order out of chaos , 1984 .

[55]  F. Harold Gleanings of a chemiosmotic eye. , 2001, BioEssays : news and reviews in molecular, cellular and developmental biology.

[56]  S. Bellow The Dean's December , 1982 .

[57]  Hendrik Szurmant,et al.  Diversity in Chemotaxis Mechanisms among the Bacteria and Archaea , 2004, Microbiology and Molecular Biology Reviews.

[58]  J. Spudich,et al.  Three strategically placed hydrogen-bonding residues convert a proton pump into a sensory receptor , 2006, Proceedings of the National Academy of Sciences.

[59]  R. Dawkins,et al.  River out of eden : a Darwinian view of life , 1996 .

[60]  P. Mitchell Coupling of Phosphorylation to Electron and Hydrogen Transfer by a Chemi-Osmotic type of Mechanism , 1961, Nature.

[61]  Richard Dawkins,et al.  The Ancestor's Tale: A Pilgrimage to the Dawn of Evolution , 2004 .

[62]  P. Mazur,et al.  Non-equilibrium thermodynamics, , 1963 .

[63]  E. D. Weinberger,et al.  A theory of pragmatic information and its application to the quasi-species model of biological evolution. , 2001, Bio Systems.

[64]  Erik D Herzog,et al.  Circadian Rhythms: In the Loop at Last , 2003, Science.

[65]  C. E. SHANNON,et al.  A mathematical theory of communication , 1948, MOCO.

[66]  C. Woese The universal ancestor. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[67]  P. Schuster,et al.  Stages of emerging life —Five principles of early organization , 2005, Journal of Molecular Evolution.

[68]  J. Diamond,et al.  Farmers and Their Languages: The First Expansions , 2003, Science.

[69]  C. Koch,et al.  A framework for consciousness , 2003, Nature Neuroscience.

[70]  E. Jaynes Probability theory : the logic of science , 2003 .

[71]  Christopher Kaplonski Genghis Khan and the Making of the Modern World , 2004 .

[72]  J. Diamond Guns, Germs, and Steel: The Fates of Human Societies , 1999 .

[73]  Brian Hayes,et al.  THE INVENTION OF THE GENETIC CODE , 1998 .

[74]  Stephen W. Hawking,et al.  The theory of everything : the origin and fate of the universe , 2005 .

[75]  Richard Dawkins,et al.  Unweaving the Rainbow: Science, Delusion and the Appetite for Wonder , 1998 .

[76]  Saul Kripke Wittgenstein on Rules and Private Language: An Elementary Exposition , 1984 .