메뉴 건너뛰기




Volumn 9, Issue 6, 2013, Pages

Environmental Dependence of Genetic Constraint

Author keywords

[No Author keywords available]

Indexed keywords

ALLOSTERISM; ARTICLE; CONTROLLED STUDY; ENVIRONMENTAL CHANGE; EPISTASIS; ESCHERICHIA COLI; EVOLUTIONARY ADAPTATION; GENE CONSTRUCT; GENE INTERACTION; GENETIC CONSTRAINT; GENETIC PARAMETERS; GENETIC SELECTION; GENETIC VARIABILITY; GENOTYPE ENVIRONMENT INTERACTION; MATHEMATICAL COMPUTING; MATHEMATICAL MODEL; MUTATIONAL ANALYSIS; NONHUMAN; THERMOSTABILITY;

EID: 84879630282     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1003580     Document Type: Article
Times cited : (39)

References (63)
  • 2
    • 27144538817 scopus 로고    scopus 로고
    • The biochemical architecture of an ancient adaptive landscape
    • Lunzer M, Miller SP, Felsheim R, Dean AM, (2005) The biochemical architecture of an ancient adaptive landscape. Science 310: 499-501.
    • (2005) Science , vol.310 , pp. 499-501
    • Lunzer, M.1    Miller, S.P.2    Felsheim, R.3    Dean, A.M.4
  • 3
    • 33645666942 scopus 로고    scopus 로고
    • Darwinian evolution can follow only very few mutational paths to fitter proteins
    • Weinreich DM, Delaney NF, Depristo MA, Hartl DL, (2006) Darwinian evolution can follow only very few mutational paths to fitter proteins. Science 312: 111-114.
    • (2006) Science , vol.312 , pp. 111-114
    • Weinreich, D.M.1    Delaney, N.F.2    Depristo, M.A.3    Hartl, D.L.4
  • 4
    • 33846551980 scopus 로고    scopus 로고
    • Empirical fitness landscapes reveal accessible evolutionary paths
    • Poelwijk FJ, Kiviet DJ, Weinreich DM, Tans SJ, (2007) Empirical fitness landscapes reveal accessible evolutionary paths. Nature 445: 383-386.
    • (2007) Nature , vol.445 , pp. 383-386
    • Poelwijk, F.J.1    Kiviet, D.J.2    Weinreich, D.M.3    Tans, S.J.4
  • 5
    • 33645691679 scopus 로고    scopus 로고
    • Evolution of hormone-receptor complexity by molecular exploitation
    • Bridgham JT, Carroll SM, Thornton JW, (2006) Evolution of hormone-receptor complexity by molecular exploitation. Science 312: 97-101.
    • (2006) Science , vol.312 , pp. 97-101
    • Bridgham, J.T.1    Carroll, S.M.2    Thornton, J.W.3
  • 6
    • 32544444570 scopus 로고    scopus 로고
    • The rank ordering of genotypic fitness values predicts genetic constraint on natural selection on landscapes lacking sign epistasis
    • Weinreich DM, (2005) The rank ordering of genotypic fitness values predicts genetic constraint on natural selection on landscapes lacking sign epistasis. Genetics 171: 1397-1405.
    • (2005) Genetics , vol.171 , pp. 1397-1405
    • Weinreich, D.M.1
  • 7
    • 79955590028 scopus 로고    scopus 로고
    • Reciprocal Sign Epistasis between Frequently Experimentally Evolved Adaptive Mutations Causes a Rugged Fitness Landscape
    • Kvitek DJ, Sherlock G, (2011) Reciprocal Sign Epistasis between Frequently Experimentally Evolved Adaptive Mutations Causes a Rugged Fitness Landscape. PLoS Genet 7: e1002056.
    • (2011) PLoS Genet , vol.7
    • Kvitek, D.J.1    Sherlock, G.2
  • 8
    • 68549127130 scopus 로고    scopus 로고
    • Exploring the effect of sex on empirical fitness landscapes
    • de Visser JA, Park SC, Krug J, (2009) Exploring the effect of sex on empirical fitness landscapes. Am Nat 174 (Suppl 1):: S15-30.
    • (2009) Am Nat , vol.174 , Issue.SUPPL. 1
    • de Visser, J.A.1    Park, S.C.2    Krug, J.3
  • 9
    • 78650592680 scopus 로고    scopus 로고
    • Reciprocal sign epistasis is a necessary condition for multi-peaked fitness landscapes
    • Poelwijk FJ, Tanase-Nicola S, Kiviet DJ, Tans SJ, (2011) Reciprocal sign epistasis is a necessary condition for multi-peaked fitness landscapes. J Theor Biol 272: 141-144.
    • (2011) J Theor Biol , vol.272 , pp. 141-144
    • Poelwijk, F.J.1    Tanase-Nicola, S.2    Kiviet, D.J.3    Tans, S.J.4
  • 11
    • 67650281518 scopus 로고    scopus 로고
    • Genetics and ecological speciation
    • Schluter D, Conte GL, (2009) Genetics and ecological speciation. Proc Natl Acad Sci U S A 106 (Suppl 1):: 9955-9962.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , Issue.SUPPL. 1 , pp. 9955-9962
    • Schluter, D.1    Conte, G.L.2
  • 12
    • 0036182428 scopus 로고    scopus 로고
    • The ecological genetics of speciation
    • Via S, (2002) The ecological genetics of speciation. Am Nat 159 (Suppl 3):: S1-7.
    • (2002) Am Nat , vol.159 , Issue.SUPPL. 3
    • Via, S.1
  • 13
    • 0032425770 scopus 로고    scopus 로고
    • Genetics and adaptation in metapopulations: When nature does many small experiments
    • Wade MJ, Goodnight CJ, (1998) Genetics and adaptation in metapopulations: When nature does many small experiments. Evolution 52: 1537-1553.
    • (1998) Evolution , vol.52 , pp. 1537-1553
    • Wade, M.J.1    Goodnight, C.J.2
  • 14
    • 34548040966 scopus 로고    scopus 로고
    • Crystal structure of an ancient protein: evolution by conformational epistasis
    • Ortlund EA, Bridgham JT, Redinbo MR, Thornton JW, (2007) Crystal structure of an ancient protein: evolution by conformational epistasis. Science 317: 1544-1548.
    • (2007) Science , vol.317 , pp. 1544-1548
    • Ortlund, E.A.1    Bridgham, J.T.2    Redinbo, M.R.3    Thornton, J.W.4
  • 15
    • 33750287639 scopus 로고    scopus 로고
    • Direct demonstration of an adaptive constraint
    • Miller SP, Lunzer M, Dean AM, (2006) Direct demonstration of an adaptive constraint. Science 314: 458-461.
    • (2006) Science , vol.314 , pp. 458-461
    • Miller, S.P.1    Lunzer, M.2    Dean, A.M.3
  • 17
    • 0003823554 scopus 로고    scopus 로고
    • Phenotypic plasticity
    • Scheiner SM, editor. Baltimore and London: The Johns Hopkins University Press
    • Pigliucci M (2001) Phenotypic plasticity. Beyond nature and nurture. Scheiner SM, editor. Baltimore and London: The Johns Hopkins University Press.
    • (2001) Beyond nature and nurture
    • Pigliucci, M.1
  • 18
    • 84857774089 scopus 로고    scopus 로고
    • Experimental viral evolution to specific host MHC genotypes reveals fitness and virulence trade-offs in alternative MHC types
    • Kubinak JL, Ruff JS, Hyzer CW, Slev PR, Potts WK, (2012) Experimental viral evolution to specific host MHC genotypes reveals fitness and virulence trade-offs in alternative MHC types. Proc Natl Acad Sci U S A 109: 3422-3427.
    • (2012) Proc Natl Acad Sci U S A , vol.109 , pp. 3422-3427
    • Kubinak, J.L.1    Ruff, J.S.2    Hyzer, C.W.3    Slev, P.R.4    Potts, W.K.5
  • 19
    • 81255211330 scopus 로고    scopus 로고
    • Cost of Adaptation and Fitness Effects of Beneficial Mutations in Pseudomonas fluorescens
    • Bataillon T, Zhang T, Kassen R, (2011) Cost of Adaptation and Fitness Effects of Beneficial Mutations in Pseudomonas fluorescens. Genetics 189 (3):: 939-49.
    • (2011) Genetics , vol.189 , Issue.3 , pp. 939-949
    • Bataillon, T.1    Zhang, T.2    Kassen, R.3
  • 20
    • 84869139621 scopus 로고    scopus 로고
    • Understanding specialism when the Jack of all trades can be the master of all
    • Remold S, (2012) Understanding specialism when the Jack of all trades can be the master of all. Proc Biol Sci 279: 4861-4869.
    • (2012) Proc Biol Sci , vol.279 , pp. 4861-4869
    • Remold, S.1
  • 21
    • 1842483226 scopus 로고    scopus 로고
    • Pervasive joint influence of epistasis and plasticity on mutational effects in Escherichia coli
    • Remold SK, Lenski RE, (2004) Pervasive joint influence of epistasis and plasticity on mutational effects in Escherichia coli. Nat Genet 36: 423-426.
    • (2004) Nat Genet , vol.36 , pp. 423-426
    • Remold, S.K.1    Lenski, R.E.2
  • 22
    • 0033067534 scopus 로고    scopus 로고
    • Epistatic interactions can lower the cost of resistance to multiple consumers
    • Bohannan BJM, Travisano M, Lenski RE, (1999) Epistatic interactions can lower the cost of resistance to multiple consumers. Evolution 53: 292-295.
    • (1999) Evolution , vol.53 , pp. 292-295
    • Bohannan, B.J.M.1    Travisano, M.2    Lenski, R.E.3
  • 23
    • 84894890448 scopus 로고    scopus 로고
    • Epistasis between mutations is host-dependent for an RNA virus
    • Lalic J, Elena SF, Epistasis between mutations is host-dependent for an RNA virus. Biol Lett.
    • Biol Lett
    • Lalic, J.1    Elena, S.F.2
  • 24
    • 79960624826 scopus 로고    scopus 로고
    • Hidden randomness between fitness landscapes limits reverse evolution
    • Tan L, Serene S, Chao HX, Gore J, (2011) Hidden randomness between fitness landscapes limits reverse evolution. Phys Rev Lett 106: 198102.
    • (2011) Phys Rev Lett , vol.106 , pp. 198102
    • Tan, L.1    Serene, S.2    Chao, H.X.3    Gore, J.4
  • 25
    • 84874346133 scopus 로고    scopus 로고
    • Evolutionary rescue from extinction is contingent on a lower rate of environmental change
    • Lindsey HA, Gallie J, Taylor S, Kerr B, (2013) Evolutionary rescue from extinction is contingent on a lower rate of environmental change. Nature 494: 463-467.
    • (2013) Nature , vol.494 , pp. 463-467
    • Lindsey, H.A.1    Gallie, J.2    Taylor, S.3    Kerr, B.4
  • 26
    • 79953197586 scopus 로고    scopus 로고
    • The fitness cost of rifampicin resistance in Pseudomonas aeruginosa depends on demand for RNA polymerase
    • Hall AR, Iles JC, MacLean RC, (2011) The fitness cost of rifampicin resistance in Pseudomonas aeruginosa depends on demand for RNA polymerase. Genetics 187: 817-822.
    • (2011) Genetics , vol.187 , pp. 817-822
    • Hall, A.R.1    Iles, J.C.2    MacLean, R.C.3
  • 27
    • 54249116230 scopus 로고
    • Genetic regulatory mechanisms in the synthesis of proteins
    • Jacob F, Monod J, (1961) Genetic regulatory mechanisms in the synthesis of proteins. J Mol Biol 3: 318-356.
    • (1961) J Mol Biol , vol.3 , pp. 318-356
    • Jacob, F.1    Monod, J.2
  • 28
    • 79961148205 scopus 로고    scopus 로고
    • Tradeoffs and Optimality in the Evolution of Gene Regulation
    • Poelwijk Frank J, de Vos Marjon GJ, Tans Sander J, (2011) Tradeoffs and Optimality in the Evolution of Gene Regulation. Cell 146: 462-470.
    • (2011) Cell , vol.146 , pp. 462-470
    • Poelwijk Frank, J.1    de Vos Marjon, G.J.2    Tans Sander, J.3
  • 29
    • 0001359641 scopus 로고
    • Molecular evolution over the mutational landscape
    • Gillespie JH, (1984) Molecular evolution over the mutational landscape. Evolution 38: 1116-1129.
    • (1984) Evolution , vol.38 , pp. 1116-1129
    • Gillespie, J.H.1
  • 31
    • 77954499525 scopus 로고    scopus 로고
    • Multiple peaks and reciprocal sign epistasis in an empirically determined genotype-phenotype landscape
    • Dawid A, Kiviet DJ, Kogenaru M, de Vos M, Tans SJ, (2010) Multiple peaks and reciprocal sign epistasis in an empirically determined genotype-phenotype landscape. Chaos 20: 026105.
    • (2010) Chaos , vol.20 , pp. 026105
    • Dawid, A.1    Kiviet, D.J.2    Kogenaru, M.3    de Vos, M.4    Tans, S.J.5
  • 32
    • 84894896449 scopus 로고    scopus 로고
    • Allostery via an Order-Disorder Transition
    • Lewis M, Sochor M, Daber R, (2011) Allostery via an Order-Disorder Transition. Comment to Cell (2011) 146: 462-470 School of Medicine University of Pennsylvania.
    • (2011) Comment to Cell (2011) , vol.146 , pp. 462-470
    • Lewis, M.1    Sochor, M.2    Daber, R.3
  • 33
    • 0142179045 scopus 로고    scopus 로고
    • Allosteric transition pathways in the lactose repressor protein core domains: asymmetric motions in a homodimer
    • Flynn TC, Swint-Kruse L, Kong Y, Booth C, Matthews KS, et al. (2003) Allosteric transition pathways in the lactose repressor protein core domains: asymmetric motions in a homodimer. Protein Sci 12: 2523-2541.
    • (2003) Protein Sci , vol.12 , pp. 2523-2541
    • Flynn, T.C.1    Swint-Kruse, L.2    Kong, Y.3    Booth, C.4    Matthews, K.S.5
  • 34
    • 0029938053 scopus 로고    scopus 로고
    • Crystal structure of teh Lactose Operon Repressor and Its Complexes with DNA and Inducer
    • Lewis M, Chang G, Horton NC, Kercher MA, Pace HC, et al. (1996) Crystal structure of teh Lactose Operon Repressor and Its Complexes with DNA and Inducer. Science 271: 1247-1254.
    • (1996) Science , vol.271 , pp. 1247-1254
    • Lewis, M.1    Chang, G.2    Horton, N.C.3    Kercher, M.A.4    Pace, H.C.5
  • 35
    • 77957266575 scopus 로고    scopus 로고
    • Positions 94-98 of the lactose repressor N-subdomain monomer-monomer interface are critical for allosteric communication
    • Zhan H, Camargo M, Matthews KS, Positions 94-98 of the lactose repressor N-subdomain monomer-monomer interface are critical for allosteric communication. Biochemistry 49: 8636-8645.
    • Biochemistry , vol.49 , pp. 8636-8645
    • Zhan, H.1    Camargo, M.2    Matthews, K.S.3
  • 36
    • 79959992592 scopus 로고    scopus 로고
    • A biophysical protein folding model accounts for most mutational fitness effects in viruses
    • Wylie CS, Shakhnovich EI, (2011) A biophysical protein folding model accounts for most mutational fitness effects in viruses. Proc Natl Acad Sci U S A 108: 9916-9921.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 9916-9921
    • Wylie, C.S.1    Shakhnovich, E.I.2
  • 38
    • 70649097086 scopus 로고    scopus 로고
    • Lethal mutagenesis in viruses and bacteria
    • Chen P, Shakhnovich EI, (2009) Lethal mutagenesis in viruses and bacteria. Genetics 183: 639-650.
    • (2009) Genetics , vol.183 , pp. 639-650
    • Chen, P.1    Shakhnovich, E.I.2
  • 39
    • 0036291145 scopus 로고    scopus 로고
    • Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations
    • Guerois R, Nielsen JE, Serrano L, (2002) Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations. J Mol Biol 320: 369-387.
    • (2002) J Mol Biol , vol.320 , pp. 369-387
    • Guerois, R.1    Nielsen, J.E.2    Serrano, L.3
  • 41
    • 0242331640 scopus 로고    scopus 로고
    • Fitness consequences of a regulatory polymorphism in a seasonal environment
    • Suiter AM, Banziger O, Dean AM, (2003) Fitness consequences of a regulatory polymorphism in a seasonal environment. Proc Natl Acad Sci U S A 100: 12782-12786.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 12782-12786
    • Suiter, A.M.1    Banziger, O.2    Dean, A.M.3
  • 42
    • 49249112719 scopus 로고    scopus 로고
    • The shape of an ecological trade-off varies with environment
    • Jessup CM, Bohannan BJ, (2008) The shape of an ecological trade-off varies with environment. Ecol Lett 11: 947-959.
    • (2008) Ecol Lett , vol.11 , pp. 947-959
    • Jessup, C.M.1    Bohannan, B.J.2
  • 43
    • 0035974843 scopus 로고    scopus 로고
    • Genetic linkage of ecological specialization and reproductive isolation in pea aphids
    • Hawthorne DJ, Via S, (2001) Genetic linkage of ecological specialization and reproductive isolation in pea aphids. Nature 412: 904-907.
    • (2001) Nature , vol.412 , pp. 904-907
    • Hawthorne, D.J.1    Via, S.2
  • 45
    • 0032474853 scopus 로고    scopus 로고
    • Adaptive radiation in a heterogeneous environment
    • Rainey PB, Travisano M, (1998) Adaptive radiation in a heterogeneous environment. Nature 394: 69-72.
    • (1998) Nature , vol.394 , pp. 69-72
    • Rainey, P.B.1    Travisano, M.2
  • 46
    • 0028977087 scopus 로고
    • Experimental tests of the roles of adaptation, chance, and history in evolution
    • Travisano M, Mongold JA, Bennett AF, Lenski RE, (1995) Experimental tests of the roles of adaptation, chance, and history in evolution. Science 267: 87-90.
    • (1995) Science , vol.267 , pp. 87-90
    • Travisano, M.1    Mongold, J.A.2    Bennett, A.F.3    Lenski, R.E.4
  • 47
    • 35348853077 scopus 로고    scopus 로고
    • Varying environments can speed up evolution
    • Kashtan N, Noor E, Alon U, (2007) Varying environments can speed up evolution. Proc Natl Acad Sci U S A 104: 13711-13716.
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 13711-13716
    • Kashtan, N.1    Noor, E.2    Alon, U.3
  • 48
    • 84867101741 scopus 로고    scopus 로고
    • Slowly switching between environments facilitates reverse evolution in small populations
    • Tan L, Gore J, (2012) Slowly switching between environments facilitates reverse evolution in small populations. Evolution 66: 3144-3154.
    • (2012) Evolution , vol.66 , pp. 3144-3154
    • Tan, L.1    Gore, J.2
  • 49
    • 44649184070 scopus 로고    scopus 로고
    • A mixed branch length model of heterotachy improves phylogenetic accuracy
    • Kolaczkowski B, Thornton JW, (2008) A mixed branch length model of heterotachy improves phylogenetic accuracy. Mol Biol Evol 25: 1054-1066.
    • (2008) Mol Biol Evol , vol.25 , pp. 1054-1066
    • Kolaczkowski, B.1    Thornton, J.W.2
  • 50
    • 0036134757 scopus 로고    scopus 로고
    • Heterotachy, an important process in protein evolution
    • Lopez P, Casane D, Philippe H, (2002) Heterotachy, an important process in protein evolution. Mol Biol Evol 19: 1-7.
    • (2002) Mol Biol Evol , vol.19 , pp. 1-7
    • Lopez, P.1    Casane, D.2    Philippe, H.3
  • 51
    • 78449233935 scopus 로고    scopus 로고
    • Pervasive cryptic epistasis in molecular evolution
    • Lunzer M, Golding GB, Dean AM, (2010) Pervasive cryptic epistasis in molecular evolution. PLoS Genet 6: e1001162.
    • (2010) PLoS Genet , vol.6
    • Lunzer, M.1    Golding, G.B.2    Dean, A.M.3
  • 52
    • 7244221755 scopus 로고    scopus 로고
    • Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous
    • Kolaczkowski B, Thornton JW, (2004) Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous. Nature 431: 980-984.
    • (2004) Nature , vol.431 , pp. 980-984
    • Kolaczkowski, B.1    Thornton, J.W.2
  • 53
    • 77949525939 scopus 로고    scopus 로고
    • Long-branch attraction bias and inconsistency in Bayesian phylogenetics
    • Kolaczkowski B, Thornton JW, (2009) Long-branch attraction bias and inconsistency in Bayesian phylogenetics. PLoS One 4: e7891.
    • (2009) PLoS One , vol.4
    • Kolaczkowski, B.1    Thornton, J.W.2
  • 54
    • 34247597358 scopus 로고    scopus 로고
    • Pitfalls of heterogeneous processes for phylogenetic reconstruction
    • Stefankovic D, Vigoda E, (2007) Pitfalls of heterogeneous processes for phylogenetic reconstruction. Syst Biol 56: 113-124.
    • (2007) Syst Biol , vol.56 , pp. 113-124
    • Stefankovic, D.1    Vigoda, E.2
  • 55
    • 84855673921 scopus 로고    scopus 로고
    • Influenza emergence in the face of evolutionary constraints
    • Kucharski A, Gog JR, (2012) Influenza emergence in the face of evolutionary constraints. Proc Biol Sci 279: 645-652.
    • (2012) Proc Biol Sci , vol.279 , pp. 645-652
    • Kucharski, A.1    Gog, J.R.2
  • 56
  • 58
    • 0018956590 scopus 로고
    • Analysis of gene control signals by DNA fusion and cloning in Escherichia coli
    • Casadaban MJ, Cohen SN, (1980) Analysis of gene control signals by DNA fusion and cloning in Escherichia coli. J Mol Biol 138: 179-207.
    • (1980) J Mol Biol , vol.138 , pp. 179-207
    • Casadaban, M.J.1    Cohen, S.N.2
  • 59
    • 0030861452 scopus 로고    scopus 로고
    • Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-I2 regulatory elements
    • Lutz R, Bujard H, (1997) Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-I2 regulatory elements. Nucleic Acids Res 25: 1203-1210.
    • (1997) Nucleic Acids Res , vol.25 , pp. 1203-1210
    • Lutz, R.1    Bujard, H.2
  • 60
    • 0023777735 scopus 로고
    • Tightly regulated tac promoter vectors useful for the expression of unfused and fused proteins in Escherichia coli
    • Amann E, Ochs B, Abel KJ, (1988) Tightly regulated tac promoter vectors useful for the expression of unfused and fused proteins in Escherichia coli. Gene 69: 301-315.
    • (1988) Gene , vol.69 , pp. 301-315
    • Amann, E.1    Ochs, B.2    Abel, K.J.3
  • 62
    • 0037093644 scopus 로고    scopus 로고
    • Increasing the precision of comparative models with YASARA NOVA-a self-parameterizing force field
    • Krieger E, Koraimann G, Vriend G, (2002) Increasing the precision of comparative models with YASARA NOVA-a self-parameterizing force field. Proteins 47: 393-402.
    • (2002) Proteins , vol.47 , pp. 393-402
    • Krieger, E.1    Koraimann, G.2    Vriend, G.3
  • 63
    • 0034089394 scopus 로고    scopus 로고
    • A closer view of the conformation of the Lac repressor bound to operator
    • Bell CE, Lewis M, (2000) A closer view of the conformation of the Lac repressor bound to operator. Nat Struct Biol 7: 209-214.
    • (2000) Nat Struct Biol , vol.7 , pp. 209-214
    • Bell, C.E.1    Lewis, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.