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Volumn 21, Issue , 2014, Pages 51-57

What can we learn from fitness landscapes?

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; ANTIMALARIAL AGENT; BETA LACTAM ANTIBIOTIC; BETA LACTAMASE; DIHYDROFOLATE REDUCTASE; EXTENDED SPECTRUM BETA LACTAMASE;

EID: 84908642132     PISSN: 13695274     EISSN: 18790364     Source Type: Journal    
DOI: 10.1016/j.mib.2014.08.001     Document Type: Review
Times cited : (46)

References (48)
  • 1
    • 33846551980 scopus 로고    scopus 로고
    • Empirical fitness landscapes reveal accessible evolutionary paths
    • Poelwijk F.J., Kiviet D.J., Weinreich D.M., Tans S.J. Empirical fitness landscapes reveal accessible evolutionary paths. Nature 2007, 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
  • 2
  • 3
    • 21044435697 scopus 로고    scopus 로고
    • Perspective: sign epistasis and genetic constraint on evolutionary trajectories
    • Weinreich D.M., Watson R.A., Chao L. Perspective: sign epistasis and genetic constraint on evolutionary trajectories. Evolution 2005, 59:1165-1174.
    • (2005) Evolution , vol.59 , pp. 1165-1174
    • Weinreich, D.M.1    Watson, R.A.2    Chao, L.3
  • 4
    • 33645666942 scopus 로고    scopus 로고
    • Darwinian evolution can follow only very few mutational paths to fitter proteins
    • Weinreich D.M., Delaney N.F., DePristo M.A., Hartl D.L. Darwinian evolution can follow only very few mutational paths to fitter proteins. Science 2006, 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
  • 6
    • 79960624826 scopus 로고    scopus 로고
    • Hidden randomness between fitness landscapes limits reverse evolution
    • Tan L., Serene S., Chao H.X., Gore J. Hidden randomness between fitness landscapes limits reverse evolution. Phys Rev Lett 2011, 106:198102.
    • (2011) Phys Rev Lett , vol.106 , pp. 198102
    • Tan, L.1    Serene, S.2    Chao, H.X.3    Gore, J.4
  • 7
    • 80053133668 scopus 로고    scopus 로고
    • The evolutionary landscape of antifolate resistance in Plasmodium falciparum
    • Costanzo M.S., Hartl D.L. The evolutionary landscape of antifolate resistance in Plasmodium falciparum. J Genet 2011, 90:187-190.
    • (2011) J Genet , vol.90 , pp. 187-190
    • Costanzo, M.S.1    Hartl, D.L.2
  • 9
    • 84958736294 scopus 로고
    • A mathematical theory of natural selection, Part VIII: Metastable populations
    • Haldane J.B.S. A mathematical theory of natural selection, Part VIII: Metastable populations. Proc Cambridge Philos Soc 1931, 27:137-142.
    • (1931) Proc Cambridge Philos Soc , vol.27 , pp. 137-142
    • Haldane, J.B.S.1
  • 10
    • 0000907353 scopus 로고
    • The roles of mutation, inbreeding, crossbreeding and selection in evolution
    • Wright S. The roles of mutation, inbreeding, crossbreeding and selection in evolution. Proc Sixth Int Cong Genet 1932, 1:356-366.
    • (1932) Proc Sixth Int Cong Genet , vol.1 , pp. 356-366
    • Wright, S.1
  • 11
    • 76549129324 scopus 로고    scopus 로고
    • Adaptive landscapes and protein evolution
    • Carneiro M., Hartl D.L. Adaptive landscapes and protein evolution. Proc Natl Acad Sci USA 2009, 107(Suppl. 1):1747-1751.
    • (2009) Proc Natl Acad Sci USA , vol.107 , pp. 1747-1751
    • Carneiro, M.1    Hartl, D.L.2
  • 12
    • 27144538817 scopus 로고    scopus 로고
    • The biochemical architecture of an ancient adaptive landscape
    • Lunzer M., Miller S.P., Felsheim R., Dean A.M. The biochemical architecture of an ancient adaptive landscape. Science 2005, 310:499-501.
    • (2005) Science , vol.310 , pp. 499-501
    • Lunzer, M.1    Miller, S.P.2    Felsheim, R.3    Dean, A.M.4
  • 13
    • 78649360645 scopus 로고    scopus 로고
    • Natural evolution of TEM-1 β-lactamase: experimental reconstruction and clinical relevance
    • Salverda M.L.M., de Visser J.A.G.M., Barlow M. Natural evolution of TEM-1 β-lactamase: experimental reconstruction and clinical relevance. FEMS Microbiol Rev 2010, 34:1015-1036.
    • (2010) FEMS Microbiol Rev , vol.34 , pp. 1015-1036
    • Salverda, M.L.M.1    de Visser, J.A.G.M.2    Barlow, M.3
  • 14
    • 79957948242 scopus 로고    scopus 로고
    • Negative epistasis between beneficial mutations in an evolving population
    • Khan A.I., Dinh D.M., Schneider D., Lenski R.E., Cooper T.F. Negative epistasis between beneficial mutations in an evolving population. Science 2011, 332:1193-1196.
    • (2011) Science , vol.332 , pp. 1193-1196
    • Khan, A.I.1    Dinh, D.M.2    Schneider, D.3    Lenski, R.E.4    Cooper, T.F.5
  • 15
    • 0025270813 scopus 로고
    • Ancestral lysozymes reconstructed, neutrality tested, and thermostability linked to hydrocarbon packing
    • Malcolm B.A., Wilson K.P., Matthews B.W., Kirsch J.F., Wilson A.C. Ancestral lysozymes reconstructed, neutrality tested, and thermostability linked to hydrocarbon packing. Nature 1990, 345:86-89.
    • (1990) Nature , vol.345 , pp. 86-89
    • Malcolm, B.A.1    Wilson, K.P.2    Matthews, B.W.3    Kirsch, J.F.4    Wilson, A.C.5
  • 16
    • 33750287639 scopus 로고    scopus 로고
    • Direct demonstration of an adaptive constraint
    • Miller S.P., Lunzer M., Dean A.M. Direct demonstration of an adaptive constraint. Science 2006, 314:458-461.
    • (2006) Science , vol.314 , pp. 458-461
    • Miller, S.P.1    Lunzer, M.2    Dean, A.M.3
  • 18
    • 33645691679 scopus 로고    scopus 로고
    • Evolution of hormone receptor complexity by molecular exploitation
    • Bridgham J.T., Carroll S.M., Thornton J.W. Evolution of hormone receptor complexity by molecular exploitation. Science 2007, 312:97-100.
    • (2007) Science , vol.312 , pp. 97-100
    • Bridgham, J.T.1    Carroll, S.M.2    Thornton, J.W.3
  • 19
    • 77956641491 scopus 로고    scopus 로고
    • Fitness epistasis and constraints on adaptation in a human immunodeficiency virus type 1 protein region
    • da Silva J., Coetzer M., Nedellec R., Pastore C., Mosier D.E. Fitness epistasis and constraints on adaptation in a human immunodeficiency virus type 1 protein region. Genetics 2010, 185:293-303.
    • (2010) Genetics , vol.185 , pp. 293-303
    • da Silva, J.1    Coetzer, M.2    Nedellec, R.3    Pastore, C.4    Mosier, D.E.5
  • 20
    • 0033709990 scopus 로고    scopus 로고
    • Factors affecting the genetic load in Drosophila: synergistic epistasis and correlations among fitness components
    • Whitlock M.C., Bourguet D. Factors affecting the genetic load in Drosophila: synergistic epistasis and correlations among fitness components. Evolution 2000, 54:1654-1660.
    • (2000) Evolution , vol.54 , pp. 1654-1660
    • Whitlock, M.C.1    Bourguet, D.2
  • 22
    • 68549127130 scopus 로고    scopus 로고
    • Exploring the effect of sex on empirical fitness landscapes
    • de Visser J.A.G.M., Park S.-C., Krug J. Exploring the effect of sex on empirical fitness landscapes. Am Nat 2009, 174:S15-S30.
    • (2009) Am Nat , vol.174 , pp. S15-S30
    • de Visser, J.A.G.M.1    Park, S.-C.2    Krug, J.3
  • 23
    • 77952007724 scopus 로고    scopus 로고
    • Fitness epistasis among 6 biosynthtic loci in the budding yeast Saccharomyces cervisiae
    • Hall D.W., Agan M., Pope S.C. Fitness epistasis among 6 biosynthtic loci in the budding yeast Saccharomyces cervisiae. J Hered 2010, 1010:S75-S84.
    • (2010) J Hered , vol.1010 , pp. S75-S84
    • Hall, D.W.1    Agan, M.2    Pope, S.C.3
  • 24
    • 79957958115 scopus 로고    scopus 로고
    • Diminishing returns epistasis among beneficial mutations decelerates adaptation
    • Chou H.-H., Chiu H.-C., Delaney N.F., Segrè D., Marx C.J. Diminishing returns epistasis among beneficial mutations decelerates adaptation. Science 2011, 332:1190-1192.
    • (2011) Science , vol.332 , pp. 1190-1192
    • Chou, H.-H.1    Chiu, H.-C.2    Delaney, N.F.3    Segrè, D.4    Marx, C.J.5
  • 25
    • 0035178855 scopus 로고    scopus 로고
    • A cross-section of the fitness landscape of dihydrofolate reductase
    • Aita T., Iwakura M., Hasumi Y. A cross-section of the fitness landscape of dihydrofolate reductase. Protein Eng 2001, 14:633-638.
    • (2001) Protein Eng , vol.14 , pp. 633-638
    • Aita, T.1    Iwakura, M.2    Hasumi, Y.3
  • 26
    • 78649365006 scopus 로고    scopus 로고
    • Compensatory mutations restore fitness during the evolution of dihydrofolate reductase
    • Brown K.M., Costanzo M., Xu W., Roy S.W., Lozovsky E.R., Hartl D.L. Compensatory mutations restore fitness during the evolution of dihydrofolate reductase. Mol Biol Evol 2010, 27:2682-2690.
    • (2010) Mol Biol Evol , vol.27 , pp. 2682-2690
    • Brown, K.M.1    Costanzo, M.2    Xu, W.3    Roy, S.W.4    Lozovsky, E.R.5    Hartl, D.L.6
  • 27
    • 79956356758 scopus 로고    scopus 로고
    • Fitness trade-offs in the evolution of dihydrofolate reductase and drug resistance in Plasmodium falciparum
    • Costanzo M.S., Brown K.M., Hartl D.L. Fitness trade-offs in the evolution of dihydrofolate reductase and drug resistance in Plasmodium falciparum. PLoS ONE 2011, 6:e19636.
    • (2011) PLoS ONE , vol.6 , pp. e19636
    • Costanzo, M.S.1    Brown, K.M.2    Hartl, D.L.3
  • 28
    • 84885671999 scopus 로고    scopus 로고
    • Accessible mutational trajectories for the evolution of pyrimethamine resistance in the malaria parasite Plasmodium vivax
    • Jiang P.P., Corbett-Detig R.B., Hartl D.L., Lozovsky E.R. Accessible mutational trajectories for the evolution of pyrimethamine resistance in the malaria parasite Plasmodium vivax. J Mol Evol 2013, 77:81-91.
    • (2013) J Mol Evol , vol.77 , pp. 81-91
    • Jiang, P.P.1    Corbett-Detig, R.B.2    Hartl, D.L.3    Lozovsky, E.R.4
  • 29
    • 84887613917 scopus 로고    scopus 로고
    • Patterns of epistasis between beneficial mutations in an antibiotic resistance gene
    • Schenk M.F., Szendro I.G., Salverda M.L., Krug J., de Visser J.A. Patterns of epistasis between beneficial mutations in an antibiotic resistance gene. Mol Biol Evol 2013, 30:1779-1787.
    • (2013) Mol Biol Evol , vol.30 , pp. 1779-1787
    • Schenk, M.F.1    Szendro, I.G.2    Salverda, M.L.3    Krug, J.4    de Visser, J.A.5
  • 30
    • 84902507257 scopus 로고    scopus 로고
    • Merging molecular mechanism and evolution: theory and computation at the interface of biophysics and evolutionary population genetics
    • Serohijos A.W.R., Shakhnovich E.I. Merging molecular mechanism and evolution: theory and computation at the interface of biophysics and evolutionary population genetics. Curr Opin Struct Biol 2014, 26:84-91.
    • (2014) Curr Opin Struct Biol , vol.26 , pp. 84-91
    • Serohijos, A.W.R.1    Shakhnovich, E.I.2
  • 31
    • 84903291815 scopus 로고    scopus 로고
    • Global epistasis makes adaptation predictable despite sequence-level stochasticity
    • Kryazhimskiy S., Rice D.P., Jerison E.R., Desai M.M. Global epistasis makes adaptation predictable despite sequence-level stochasticity. Science 2014, 344:1519-1522.
    • (2014) Science , vol.344 , pp. 1519-1522
    • Kryazhimskiy, S.1    Rice, D.P.2    Jerison, E.R.3    Desai, M.M.4
  • 32
    • 0022410121 scopus 로고
    • Limits of adaptation: the evolution of selective neutrality
    • Hartl D.L., Dykhuizen D.E., Dean A.M. Limits of adaptation: the evolution of selective neutrality. Genetics 1985, 111:655-674.
    • (1985) Genetics , vol.111 , pp. 655-674
    • Hartl, D.L.1    Dykhuizen, D.E.2    Dean, A.M.3
  • 33
    • 84901292069 scopus 로고    scopus 로고
    • Environment determines epistatic patterns for a ssDNA virus
    • Caudle S.B., Miller C.R., Rokyta D.R. Environment determines epistatic patterns for a ssDNA virus. Genetics 2014, 196:267-279.
    • (2014) Genetics , vol.196 , pp. 267-279
    • Caudle, S.B.1    Miller, C.R.2    Rokyta, D.R.3
  • 34
    • 79959992592 scopus 로고    scopus 로고
    • A biophysical protein folding model accounts for mutational fitness effects in viruses
    • Wylie C.S., Shakhnovich E.I. A biophysical protein folding model accounts for mutational fitness effects in viruses. Proc Natl Acad Sci U S A 2011, 108:9916-9921.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 9916-9921
    • Wylie, C.S.1    Shakhnovich, E.I.2
  • 35
    • 84866124155 scopus 로고    scopus 로고
    • Epistasis from functional dependence of fitness on underlying traits
    • Chiu H.C., Marx C.J., Segrè D. Epistasis from functional dependence of fitness on underlying traits. Proc Biol Sci 2012, 279:4156-4164.
    • (2012) Proc Biol Sci , vol.279 , pp. 4156-4164
    • Chiu, H.C.1    Marx, C.J.2    Segrè, D.3
  • 36
    • 79955590028 scopus 로고    scopus 로고
    • Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape
    • Kvitek D.J., Sherlock G. Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape. PLoS Genet 2011, 7:e1002056.
    • (2011) PLoS Genet , vol.7 , pp. e1002056
    • Kvitek, D.J.1    Sherlock, G.2
  • 37
    • 84864290431 scopus 로고    scopus 로고
    • Magnitude and sign epistasis among deleterious mutations in a positive-sense plant RNA virus
    • Lalić J., Elena S.F. Magnitude and sign epistasis among deleterious mutations in a positive-sense plant RNA virus. Heredity (Edinb) 2012, 109:71-77.
    • (2012) Heredity (Edinb) , vol.109 , pp. 71-77
    • Lalić, J.1    Elena, S.F.2
  • 38
    • 34547769282 scopus 로고    scopus 로고
    • Mutational reversions during adaptive protein evolution
    • DePristo M.A., Hartl D.L., Weinreich D.M. Mutational reversions during adaptive protein evolution. Mol Biol Evol 2007, 24:1608-1610.
    • (2007) Mol Biol Evol , vol.24 , pp. 1608-1610
    • DePristo, M.A.1    Hartl, D.L.2    Weinreich, D.M.3
  • 41
    • 79251503942 scopus 로고    scopus 로고
    • Genome structure and the benefit of sex
    • Watson R.A., Weinreich D.M., Wakeley J. Genome structure and the benefit of sex. Evolution 2011, 65:523-536.
    • (2011) Evolution , vol.65 , pp. 523-536
    • Watson, R.A.1    Weinreich, D.M.2    Wakeley, J.3
  • 42
    • 0033091569 scopus 로고    scopus 로고
    • Predicting epistasis from mathematical models
    • Heckendorn R.B., Whitley D. Predicting epistasis from mathematical models. Evol Comput 1997, 7:69-101.
    • (1997) Evol Comput , vol.7 , pp. 69-101
    • Heckendorn, R.B.1    Whitley, D.2
  • 44
    • 38549166783 scopus 로고    scopus 로고
    • Epistasis and shapes of fitness landscapes
    • Beerenwinkel N., Pachter L., Sturmfels B. Epistasis and shapes of fitness landscapes. Stat Sin 2007, 17:1317-1342.
    • (2007) Stat Sin , vol.17 , pp. 1317-1342
    • Beerenwinkel, N.1    Pachter, L.2    Sturmfels, B.3
  • 45
    • 34247881991 scopus 로고    scopus 로고
    • Analysis of epistatic interactions and fitness landscapes using a new geometric approach
    • Beerenwinkel N., Pachter L., Sturmfels B., Elena S.F., Lenski R.E. Analysis of epistatic interactions and fitness landscapes using a new geometric approach. BMC Evol Biol 2007, 7:60.
    • (2007) BMC Evol Biol , vol.7 , pp. 60
    • Beerenwinkel, N.1    Pachter, L.2    Sturmfels, B.3    Elena, S.F.4    Lenski, R.E.5
  • 46
    • 84867425613 scopus 로고    scopus 로고
    • The peaks and geometry of fitness landscapes
    • Crona K., Green D., Barlow M. The peaks and geometry of fitness landscapes. J Theor Biol 2013, 317:1-10.
    • (2013) J Theor Biol , vol.317 , pp. 1-10
    • Crona, K.1    Green, D.2    Barlow, M.3


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