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Volumn 2, Issue 1, 2010, Pages 1-11

Biomolecular information gained through in vitro evolution

Author keywords

Biological information; Fitness landscape; Free fitness; In vitro evolution; Pragmatic information; Quasi species; Sequence space

Indexed keywords


EID: 84873257607     PISSN: 18672450     EISSN: 18672469     Source Type: Journal    
DOI: 10.1007/s12551-009-0021-8     Document Type: Review
Times cited : (1)

References (34)
  • 2
    • 84873273860 scopus 로고    scopus 로고
    • An interpretation of evolutionary dynamics in in vitro molecular evolution from thermodynamical and informational viewpoint
    • (in Japanese with English abstract)
    • Aita T, Husimi Y (2006) An interpretation of evolutionary dynamics in in vitro molecular evolution from thermodynamical and informational viewpoint (in Japanese with English abstract). Seibutsu Butsuri (Biophysics) 46: 137-143.
    • (2006) Seibutsu Butsuri (Biophysics) , vol.46 , pp. 137-143
    • Aita, T.1    Husimi, Y.2
  • 3
    • 3843111265 scopus 로고    scopus 로고
    • Thermodynamical interpretation of evolutionary dynamics on a fitness landscape in an evolution reactor, I
    • **Aita T, Morinaga S, Husimi Y (2004) Thermodynamical interpretation of evolutionary dynamics on a fitness landscape in an evolution reactor, I. Bull Math Biol 66: 1371-1403.
    • (2004) Bull Math Biol , vol.66 , pp. 1371-1403
    • Aita, T.1    Morinaga, S.2    Husimi, Y.3
  • 4
    • 3843111265 scopus 로고    scopus 로고
    • Thermodynamical interpretation of evolutionary dynamics on a fitness landscape in an evolution reactor, II
    • *Aita T, Morinaga S, Husimi Y (2005) Thermodynamical interpretation of evolutionary dynamics on a fitness landscape in an evolution reactor, II. Bull Math Biol 66: 1371-1403.
    • (2005) Bull Math Biol , vol.66 , pp. 1371-1403
    • Aita, T.1    Morinaga, S.2    Husimi, Y.3
  • 5
    • 34247639017 scopus 로고    scopus 로고
    • Extracting characteristic properties of fitness landscape from in vitro molecular evolution: a case study on infectivity of fd phage to E.coli
    • Aita T, Hayashi Y, Toyota H, Husimi Y, Urabe I, Yomo T (2007) Extracting characteristic properties of fitness landscape from in vitro molecular evolution: a case study on infectivity of fd phage to E. coli. J Theor Biol 246: 538-550.
    • (2007) J Theor Biol , vol.246 , pp. 538-550
    • Aita, T.1    Hayashi, Y.2    Toyota, H.3    Husimi, Y.4    Urabe, I.5    Yomo, T.6
  • 6
    • 51349120674 scopus 로고    scopus 로고
    • Emerging of stochastic dynamical equalities and steady state thermodynamics from Darwinian dynamics
    • Ao P (2008) Emerging of stochastic dynamical equalities and steady state thermodynamics from Darwinian dynamics. Commun Theor Phys 49: 1073-1090.
    • (2008) Commun Theor Phys , vol.49 , pp. 1073-1090
    • Ao, P.1
  • 9
    • 28344435662 scopus 로고    scopus 로고
    • Population dynamics simulations of functional model proteins
    • *Blackburne BP, Hirst JD (2005) Population dynamics simulations of functional model proteins. J Chem Phys 123: 154907.
    • (2005) J Chem Phys , vol.123 , pp. 154907
    • Blackburne, B.P.1    Hirst, J.D.2
  • 11
    • 0033944978 scopus 로고    scopus 로고
    • Natural selection: a phase transition?
    • *Eigen M (2000) Natural selection: a phase transition? Biophys Chem 85: 101-123.
    • (2000) Biophys Chem , vol.85 , pp. 101-123
    • Eigen, M.1
  • 13
    • 0000472452 scopus 로고
    • On the movement of small particles suspended in stationary liquids required by the molecular-kinetic theory of heat
    • (in German)
    • Einstein A (1905) On the movement of small particles suspended in stationary liquids required by the molecular-kinetic theory of heat (in German). Ann D Phys 17: 549-560.
    • (1905) Ann D Phys , vol.17 , pp. 549-560
    • Einstein, A.1
  • 15
    • 0142139707 scopus 로고
    • Selective value landscape on the base sequence space and concept of free selective value: a model of quasi-species
    • (in Japanese with English abstract)
    • Husimi Y (1988) Selective value landscape on the base sequence space and concept of free selective value: a model of quasi-species (in Japanese with English abstract). Viva Origino 16: 136-141.
    • (1988) Viva Origino , vol.16 , pp. 136-141
    • Husimi, Y.1
  • 16
    • 0024281037 scopus 로고
    • Free fitness that always increases in evolution
    • Iwasa Y (1988) Free fitness that always increases in evolution. J Theor Biol 135: 265-281.
    • (1988) J Theor Biol , vol.135 , pp. 265-281
    • Iwasa, Y.1
  • 17
    • 54049090446 scopus 로고    scopus 로고
    • Reciprocal relations in evolutionary processes
    • Iguchi K (2008) Reciprocal relations in evolutionary processes. Prog Theor Phys Suppl 173: 235-242.
    • (2008) Prog Theor Phys Suppl , vol.173 , pp. 235-242
    • Iguchi, K.1
  • 19
    • 0037458324 scopus 로고    scopus 로고
    • Bioinformatic principles underlying the information content of transcription factor binding sites
    • Kim JT, Martinetz T, Polani D (2003) Bioinformatic principles underlying the information content of transcription factor binding sites. J Theor Biol 220: 529-544.
    • (2003) J Theor Biol , vol.220 , pp. 529-544
    • Kim, J.T.1    Martinetz, T.2    Polani, D.3
  • 20
    • 0014935646 scopus 로고
    • Natural selection and the concept of a protein space
    • Maynard-Smith J (1970) Natural selection and the concept of a protein space. Nature 225: 563-564.
    • (1970) Nature , vol.225 , pp. 563-564
    • Maynard-Smith, J.1
  • 21
    • 0014107493 scopus 로고
    • An extracellular Darwinian experiment with a self-duplicating nucleic acid molecule
    • Mills DR, Peterson RL, Spiegelman S (1967) An extracellular Darwinian experiment with a self-duplicating nucleic acid molecule. Proc Natl Acad Sci USA 58: 217-224.
    • (1967) Proc Natl Acad Sci USA , vol.58 , pp. 217-224
    • Mills, D.R.1    Peterson, R.L.2    Spiegelman, S.3
  • 22
    • 0030735693 scopus 로고    scopus 로고
    • Statistical mechanics of simple models of protein folding and design
    • Pande VS, Grosberg AY, Tanaka T (1997) Statistical mechanics of simple models of protein folding and design. Biophys J 73: 3192-3210.
    • (1997) Biophys J , vol.73 , pp. 3192-3210
    • Pande, V.S.1    Grosberg, A.Y.2    Tanaka, T.3
  • 23
    • 0344630293 scopus 로고    scopus 로고
    • On the relation between fluctuation and response in biological systems
    • **Sato K, Ito Y, Yomo T, Kaneko K (2003) On the relation between fluctuation and response in biological systems. Proc Natl Acad Sci USA 100: 14086-14090.
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 14086-14090
    • Sato, K.1    Ito, Y.2    Yomo, T.3    Kaneko, K.4
  • 24
    • 0034661690 scopus 로고    scopus 로고
    • Evolution of biological information
    • Schneider TD (2000) Evolution of biological information. Nucleic Acid Res 28: 2794-2799.
    • (2000) Nucleic Acid Res , vol.28 , pp. 2794-2799
    • Schneider, T.D.1
  • 25
    • 0023811909 scopus 로고
    • Stationary mutant distributions and evolutionary optimization
    • Schuster P, Swetina J (1988) Stationary mutant distributions and evolutionary optimization. Bull Math Biol 50: 635-660.
    • (1988) Bull Math Biol , vol.50 , pp. 635-660
    • Schuster, P.1    Swetina, J.2
  • 27
    • 42749085554 scopus 로고    scopus 로고
    • Thermodynamics of natural selection I: energy flow and the limits on organization
    • Smith E (2008a) Thermodynamics of natural selection I: energy flow and the limits on organization. J Theor Biol 252: 185-197.
    • (2008) J Theor Biol , vol.252 , pp. 185-197
    • Smith, E.1
  • 28
    • 42749088088 scopus 로고    scopus 로고
    • Thermodynamics of natural selection II: chemical Carnot cycles
    • Smith E (2008b) Thermodynamics of natural selection II: chemical Carnot cycles. J Theor Biol 252: 198-212.
    • (2008) J Theor Biol , vol.252 , pp. 198-212
    • Smith, E.1
  • 29
    • 42749093596 scopus 로고    scopus 로고
    • Thermodynamics of natural selection III: Landauer's principle in computation and chemistry
    • Smith E (2008c) Thermodynamics of natural selection III: Landauer's principle in computation and chemistry. J Theor Biol 252: 213-220.
    • (2008) J Theor Biol , vol.252 , pp. 213-220
    • Smith, E.1
  • 30
    • 34250935158 scopus 로고
    • Uber die Entropieverminderung in einem thermodynamicschen System bei eingriffen intelligenter Wesen
    • Szilard L (1929) Uber die Entropieverminderung in einem thermodynamicschen System bei eingriffen intelligenter Wesen. Z Physik 53: 840-856.
    • (1929) Z Physik , vol.53 , pp. 840-856
    • Szilard, L.1
  • 31
    • 0037665961 scopus 로고    scopus 로고
    • Functional information: molecular messages
    • *Szostak JW (2003) Functional information: molecular messages. Nature 423: 689.
    • (2003) Nature , vol.423 , pp. 689
    • Szostak, J.W.1
  • 32
    • 0036706621 scopus 로고    scopus 로고
    • A theory of pragmatic information and its application to the quasi-species model of biological evolution
    • **Weinberger ED (2002) A theory of pragmatic information and its application to the quasi-species model of biological evolution. Biosystems 66: 105-119.
    • (2002) Biosystems , vol.66 , pp. 105-119
    • Weinberger, E.D.1
  • 33
    • 0035913336 scopus 로고    scopus 로고
    • Evolution of digital organisms at high mutation rates leads to survival of the flattest
    • Wilke CO, Wang JL, Ofria C, Lenski RE, Adami C (2001) Evolution of digital organisms at high mutation rates leads to survival of the flattest. Nature 412: 331-333.
    • (2001) Nature , vol.412 , pp. 331-333
    • Wilke, C.O.1    Wang, J.L.2    Ofria, C.3    Lenski, R.E.4    Adami, C.5
  • 34
    • 44749094959 scopus 로고    scopus 로고
    • The energy landscape theory of protein folding
    • In: Flyvbjerg H, Hertz J, Jensen MH, Mouritsen OG, Sneppen K (eds), Springer, New York
    • Wolynes PG, Luthey-Schulten Z (1997) The energy landscape theory of protein folding. In: Flyvbjerg H, Hertz J, Jensen MH, Mouritsen OG, Sneppen K (eds) Physics of biological systems: from molecules to species. Springer, New York, pp 61-79.
    • (1997) Physics of biological systems: From molecules to species , pp. 61-79
    • Wolynes, P.G.1    Luthey-Schulten, Z.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.