메뉴 건너뛰기




Volumn 10, Issue 6, 2014, Pages

Recombination Accelerates Adaptation on a Large-Scale Empirical Fitness Landscape in HIV-1

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ADAPTATION; ARTICLE; COMPARATIVE STUDY; CONTROLLED STUDY; EPISTASIS; GENE INTERACTION; GENE LINKAGE DISEQUILIBRIUM; GENETIC DISTANCE; GENETIC VARIABILITY; GENOTYPE; HUMAN IMMUNODEFICIENCY VIRUS 1; IN VITRO STUDY; LARGE SCALE EMPIRICAL FITNESS LANDSCAPE; MOLECULAR EVOLUTION; MUTATION RATE; NATURAL SELECTION; NONHUMAN; POPULATION GENETIC PARAMETERS; POPULATION SIZE; RECOMBINATION RATE; VIRUS RECOMBINATION; BIOLOGICAL MODEL; COMPUTER SIMULATION; EVOLUTION; GENETIC RECOMBINATION; GENETIC SELECTION; GENETICS; POPULATION GENETICS; REPRODUCTIVE FITNESS;

EID: 84903486965     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1004439     Document Type: Article
Times cited : (37)

References (56)
  • 2
    • 33747152772 scopus 로고    scopus 로고
    • Why have sex? The population genetics of sex and recombination
    • Otto SP, Gerstein AC, (2006) Why have sex? The population genetics of sex and recombination. Biochem Soc Trans 34: 519-522.
    • (2006) Biochem Soc Trans , vol.34 , pp. 519-522
    • Otto, S.P.1    Gerstein, A.C.2
  • 3
    • 0032566768 scopus 로고    scopus 로고
    • Why sex and recombination?
    • Barton NH, Charlesworth B, (1998) Why sex and recombination? Science 281: 1986-1990.
    • (1998) Science , vol.281 , pp. 1986-1990
    • Barton, N.H.1    Charlesworth, B.2
  • 4
    • 0016110957 scopus 로고
    • The evolutionary advantage of recombination
    • Felsenstein J, (1974) The evolutionary advantage of recombination. Genetics 78: 737-756.
    • (1974) Genetics , vol.78 , pp. 737-756
    • Felsenstein, J.1
  • 5
    • 0023856505 scopus 로고
    • Selection for recombination in a polygenic model-the mechanism
    • Maynard Smith JM, (1988) Selection for recombination in a polygenic model-the mechanism. Genet Res 51: 59-63.
    • (1988) Genet Res , vol.51 , pp. 59-63
    • Maynard Smith, J.M.1
  • 6
    • 0027185595 scopus 로고
    • Directional selection and the evolution of sex and recombination
    • Charlesworth B, (1993) Directional selection and the evolution of sex and recombination. Genet Res 61: 205-224.
    • (1993) Genet Res , vol.61 , pp. 205-224
    • Charlesworth, B.1
  • 7
    • 0013793040 scopus 로고
    • The effect of linkage on directional selection
    • Felsenstein J, (1965) The effect of linkage on directional selection. Genetics 52: 349-363.
    • (1965) Genetics , vol.52 , pp. 349-363
    • Felsenstein, J.1
  • 8
    • 0029040245 scopus 로고
    • Linkage and the limits to natural selection
    • Barton NH, (1995) Linkage and the limits to natural selection. Genetics 140: 821-841.
    • (1995) Genetics , vol.140 , pp. 821-841
    • Barton, N.H.1
  • 9
    • 0023737547 scopus 로고
    • Deleterious mutations and the evolution of sexual reproduction
    • Kondrashov AS, (1988) Deleterious mutations and the evolution of sexual reproduction. Nature 336: 435-440.
    • (1988) Nature , vol.336 , pp. 435-440
    • Kondrashov, A.S.1
  • 10
    • 33846277942 scopus 로고    scopus 로고
    • The evolution of sex: empirical insights into the roles of epistasis and drift
    • de Visser JAGM, Elena SF, (2007) The evolution of sex: empirical insights into the roles of epistasis and drift. Nature Reviews Genetics 8: 139-149.
    • (2007) Nature Reviews Genetics , vol.8 , pp. 139-149
    • de Visser, J.A.G.M.1    Elena, S.F.2
  • 11
    • 84868148653 scopus 로고    scopus 로고
    • The effect of bacterial recombination on adaptation on fitness landscapes with limited peak accessibility
    • Moradigaravand D, Engelstädter J, (2012) The effect of bacterial recombination on adaptation on fitness landscapes with limited peak accessibility. PLoS Comput Biol 8: e1002735.
    • (2012) PLoS Comput Biol , vol.8
    • Moradigaravand, D.1    Engelstädter, J.2
  • 12
    • 0035834126 scopus 로고    scopus 로고
    • Multidimensional epistasis and the disadvantage of sex
    • Kondrashov FA, Kondrashov AS, (2001) Multidimensional epistasis and the disadvantage of sex. Proc Natl Acad Sci U S A 98: 12089-12092.
    • (2001) Proc Natl Acad Sci U S A , vol.98 , pp. 12089-12092
    • Kondrashov, F.A.1    Kondrashov, A.S.2
  • 13
    • 0013979181 scopus 로고
    • Effect of Linkage on Limits to Artificial Selection
    • Hill WG, Robertson A, (1966) Effect of Linkage on Limits to Artificial Selection. Genetical Research 8: 269-294.
    • (1966) Genetical Research , vol.8 , pp. 269-294
    • Hill, W.G.1    Robertson, A.2
  • 15
    • 0001224667 scopus 로고
    • Some genetic aspects of sex
    • Muller HJ, (1932) Some genetic aspects of sex. American Naturalist 66: 118-138.
    • (1932) American Naturalist , vol.66 , pp. 118-138
    • Muller, H.J.1
  • 16
    • 32544453964 scopus 로고    scopus 로고
    • Adaptation in sexuals vs. asexuals: Clonal interference and the Fisher-Muller model
    • Kim Y, Orr HA, (2005) Adaptation in sexuals vs. asexuals: Clonal interference and the Fisher-Muller model. Genetics 171: 1377-1386.
    • (2005) Genetics , vol.171 , pp. 1377-1386
    • Kim, Y.1    Orr, H.A.2
  • 17
    • 0035913993 scopus 로고    scopus 로고
    • Sexual recombination and the power of natural selection
    • Rice WR, Chippindale AK, (2001) Sexual recombination and the power of natural selection. Science 294: 555-559.
    • (2001) Science , vol.294 , pp. 555-559
    • Rice, W.R.1    Chippindale, A.K.2
  • 18
    • 0037069686 scopus 로고    scopus 로고
    • Sex releases the speed limit on evolution
    • Colegrave N, (2002) Sex releases the speed limit on evolution. Nature 420: 664-666.
    • (2002) Nature , vol.420 , pp. 664-666
    • Colegrave, N.1
  • 19
    • 1642287663 scopus 로고    scopus 로고
    • Drift increases the advantage of sex in RNA bacteriophage Phi6
    • Poon A, Chao L, (2004) Drift increases the advantage of sex in RNA bacteriophage Phi6. Genetics 166: 19-24.
    • (2004) Genetics , vol.166 , pp. 19-24
    • Poon, A.1    Chao, L.2
  • 20
    • 15844412621 scopus 로고    scopus 로고
    • Sex increases the efficacy of natural selection in experimental yeast populations
    • Goddard MR, Godfray HC, Burt A, (2005) Sex increases the efficacy of natural selection in experimental yeast populations. Nature 434: 636-640.
    • (2005) Nature , vol.434 , pp. 636-640
    • Goddard, M.R.1    Godfray, H.C.2    Burt, A.3
  • 21
    • 84861566860 scopus 로고    scopus 로고
    • The Evolution of Sex Is Favoured During Adaptation to New Environments
    • Becks L, Agrawal AF, (2012) The Evolution of Sex Is Favoured During Adaptation to New Environments. Plos Biology 10: e1001317.
    • (2012) Plos Biology , vol.10
    • Becks, L.1    Agrawal, A.F.2
  • 22
  • 23
    • 79955423458 scopus 로고    scopus 로고
    • A systems analysis of mutational effects in HIV-1 protease and reverse transcriptase
    • Hinkley T, Martins J, Chappey C, Haddad M, Stawiski E, et al. (2011) A systems analysis of mutational effects in HIV-1 protease and reverse transcriptase. Nat Genet 43: 487-489.
    • (2011) Nat Genet , vol.43 , pp. 487-489
    • Hinkley, T.1    Martins, J.2    Chappey, C.3    Haddad, M.4    Stawiski, E.5
  • 24
    • 33847256353 scopus 로고    scopus 로고
    • The speed of evolution and maintenance of variation in asexual populations
    • Desai MM, Fisher DS, Murray AW, (2007) The speed of evolution and maintenance of variation in asexual populations. Current Biology 17: 385-394.
    • (2007) Current Biology , vol.17 , pp. 385-394
    • Desai, M.M.1    Fisher, D.S.2    Murray, A.W.3
  • 25
    • 33847314378 scopus 로고    scopus 로고
    • Beneficial mutation selection balance and the effect of linkage on positive selection
    • Desai MM, Fisher DS, (2007) Beneficial mutation selection balance and the effect of linkage on positive selection. Genetics 176: 1759-1798.
    • (2007) Genetics , vol.176 , pp. 1759-1798
    • Desai, M.M.1    Fisher, D.S.2
  • 26
    • 84864042637 scopus 로고    scopus 로고
    • Limits to the rate of adaptive substitution in sexual populations
    • Weissman DB, Barton NH, (2012) Limits to the rate of adaptive substitution in sexual populations. Plos Genetics 8: e1002740.
    • (2012) Plos Genetics , vol.8
    • Weissman, D.B.1    Barton, N.H.2
  • 28
    • 84884652658 scopus 로고    scopus 로고
    • Genetic Draft, Selective Interference, and Population Genetics of Rapid Adaptation
    • Neher RA, (2013) Genetic Draft, Selective Interference, and Population Genetics of Rapid Adaptation. Annual Review of Ecology, Evolution, and Systematics, Vol 44 44: 195-215.
    • (2013) Annual Review of Ecology, Evolution, and Systematics, Vol 44 , vol.44 , pp. 195-215
    • Neher, R.A.1
  • 30
    • 84887098794 scopus 로고    scopus 로고
    • Rate of Adaptation in Sexuals and Asexuals: A Solvable Model of the Fisher-Muller Effect
    • Park SC, Krug J, (2013) Rate of Adaptation in Sexuals and Asexuals: A Solvable Model of the Fisher-Muller Effect. Genetics 195: 941-955.
    • (2013) Genetics , vol.195 , pp. 941-955
    • Park, S.C.1    Krug, J.2
  • 31
    • 0029022154 scopus 로고
    • A General-Model for the Evolution of Recombination
    • Barton NH, (1995) A General-Model for the Evolution of Recombination. Genetical Research 65: 123-144.
    • (1995) Genetical Research , vol.65 , pp. 123-144
    • Barton, N.H.1
  • 34
    • 77649182884 scopus 로고    scopus 로고
    • Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networks
    • He XL, Qian WF, Wang Z, Li Y, Zhang JZ, (2010) Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networks. Nature Genetics 42: 272-U120.
    • (2010) Nature Genetics , vol.42 , pp. 120-272
    • He, X.L.1    Qian, W.F.2    Wang, Z.3    Li, Y.4    Zhang, J.Z.5
  • 36
    • 3142755598 scopus 로고    scopus 로고
    • Epistasis and its relationship to canalization in the RNA virus phi 6
    • Burch CL, Chao L, (2004) Epistasis and its relationship to canalization in the RNA virus phi 6. Genetics 167: 559-567.
    • (2004) Genetics , vol.167 , pp. 559-567
    • Burch, C.L.1    Chao, L.2
  • 37
    • 79957948242 scopus 로고    scopus 로고
    • Negative epistasis between beneficial mutations in an evolving bacterial population
    • Khan AI, Dinh DM, Schneider D, Lenski RE, Cooper TF, (2011) Negative epistasis between beneficial mutations in an evolving bacterial population. Science 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
  • 38
    • 79957958115 scopus 로고    scopus 로고
    • Diminishing Returns Epistasis Among Beneficial Mutations Decelerates Adaptation
    • Chou HH, Chiu HC, Delaney NF, Segre D, Marx CJ, (2011) Diminishing Returns Epistasis Among Beneficial Mutations Decelerates Adaptation. Science 332: 1190-1192.
    • (2011) Science , vol.332 , pp. 1190-1192
    • Chou, H.H.1    Chiu, H.C.2    Delaney, N.F.3    Segre, D.4    Marx, C.J.5
  • 39
    • 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 Genetics 7: e1002056.
    • (2011) Plos Genetics , vol.7
    • Kvitek, D.J.1    Sherlock, G.2
  • 40
    • 79960959549 scopus 로고    scopus 로고
    • Pervasive Sign Epistasis between Conjugative Plasmids and Drug-Resistance Chromosomal Mutations
    • Silva RF, Mendonca SCM, Carvalho LM, Reis AM, Gordo I, et al. (2011) Pervasive Sign Epistasis between Conjugative Plasmids and Drug-Resistance Chromosomal Mutations. Plos Genetics 7: e1002181.
    • (2011) Plos Genetics , vol.7
    • Silva, R.F.1    Mendonca, S.C.M.2    Carvalho, L.M.3    Reis, A.M.4    Gordo, I.5
  • 41
    • 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
  • 43
    • 34248364854 scopus 로고    scopus 로고
    • Epistasis between deleterious mutations and the evolution of recombination
    • Kouyos RD, Silander OK, Bonhoeffer S, (2007) Epistasis between deleterious mutations and the evolution of recombination. Trends Ecol Evol 22: 308-315.
    • (2007) Trends Ecol Evol , vol.22 , pp. 308-315
    • Kouyos, R.D.1    Silander, O.K.2    Bonhoeffer, S.3
  • 44
    • 33745430513 scopus 로고    scopus 로고
    • Effect of varying epistasis on the evolution of recombination
    • Kouyos RD, Otto SP, Bonhoeffer S, (2006) Effect of varying epistasis on the evolution of recombination. Genetics 173: 589-597.
    • (2006) Genetics , vol.173 , pp. 589-597
    • Kouyos, R.D.1    Otto, S.P.2    Bonhoeffer, S.3
  • 45
    • 0035543310 scopus 로고    scopus 로고
    • Selection for recombination in small populations
    • Otto SP, Barton NH, (2001) Selection for recombination in small populations. Evolution 55: 1921-1931.
    • (2001) Evolution , vol.55 , pp. 1921-1931
    • Otto, S.P.1    Barton, N.H.2
  • 46
    • 33748428600 scopus 로고    scopus 로고
    • Interference among deleterious mutations favours sex and recombination in finite populations
    • Keightley PD, Otto SP, (2006) Interference among deleterious mutations favours sex and recombination in finite populations. Nature 443: 89-92.
    • (2006) Nature , vol.443 , pp. 89-92
    • Keightley, P.D.1    Otto, S.P.2
  • 47
    • 70349303282 scopus 로고    scopus 로고
    • The remarkable frequency of human immunodeficiency virus type 1 genetic recombination
    • Table of Contents
    • Onafuwa-Nuga A, Telesnitsky A, (2009) The remarkable frequency of human immunodeficiency virus type 1 genetic recombination. Microbiol Mol Biol Rev 73: 451-480 Table of Contents.
    • (2009) Microbiol Mol Biol Rev , vol.73 , pp. 451-480
    • Onafuwa-Nuga, A.1    Telesnitsky, A.2
  • 48
    • 0028884070 scopus 로고
    • Possible involvement of cell fusion and viral recombination in generation of human immunodeficiency virus variants that display dual resistance to AZT and 3TC
    • Gu Z, Gao Q, Faust EA, Wainberg MA, (1995) Possible involvement of cell fusion and viral recombination in generation of human immunodeficiency virus variants that display dual resistance to AZT and 3TC. J Gen Virol 76 (Pt 10):: 2601-2605.
    • (1995) J Gen Virol , vol.76 , Issue.Pt 10 , pp. 2601-2605
    • Gu, Z.1    Gao, Q.2    Faust, E.A.3    Wainberg, M.A.4
  • 49
    • 0028874043 scopus 로고
    • Retroviral Recombination Can Lead to Linkage of Reverse-Transcriptase Mutations That Confer Increased Zidovudine Resistance
    • Kellam P, Larder BA, (1995) Retroviral Recombination Can Lead to Linkage of Reverse-Transcriptase Mutations That Confer Increased Zidovudine Resistance. Journal of Virology 69: 669-674.
    • (1995) Journal of Virology , vol.69 , pp. 669-674
    • Kellam, P.1    Larder, B.A.2
  • 50
    • 0029973141 scopus 로고    scopus 로고
    • Recombination leads to the rapid emergence of HIV-1 dually resistant mutants under selective drug pressure
    • Moutouh L, Corbeil J, Richman DD, (1996) Recombination leads to the rapid emergence of HIV-1 dually resistant mutants under selective drug pressure. Proc Natl Acad Sci U S A 93: 6106-6111.
    • (1996) Proc Natl Acad Sci U S A , vol.93 , pp. 6106-6111
    • Moutouh, L.1    Corbeil, J.2    Richman, D.D.3
  • 51
    • 0035936781 scopus 로고    scopus 로고
    • HIV-1 sequence variation: Drift, shift, and attenuation
    • Malim MH, Emerman M, (2001) HIV-1 sequence variation: Drift, shift, and attenuation. Cell 104: 469-472.
    • (2001) Cell , vol.104 , pp. 469-472
    • Malim, M.H.1    Emerman, M.2
  • 53
    • 33747112447 scopus 로고    scopus 로고
    • HIV recombination: what is the impact on antiretroviral therapy?
    • Fraser C, (2005) HIV recombination: what is the impact on antiretroviral therapy? Journal of the Royal Society Interface 2: 489-503.
    • (2005) Journal of the Royal Society Interface , vol.2 , pp. 489-503
    • Fraser, C.1
  • 54
    • 1042291295 scopus 로고    scopus 로고
    • Recombination in HIV and the evolution of drug resistance: for better or for worse?
    • Bretscher MT, Althaus CL, Muller V, Bonhoeffer S, (2004) Recombination in HIV and the evolution of drug resistance: for better or for worse? Bioessays 26: 180-188.
    • (2004) Bioessays , vol.26 , pp. 180-188
    • Bretscher, M.T.1    Althaus, C.L.2    Muller, V.3    Bonhoeffer, S.4
  • 55
    • 63149115427 scopus 로고    scopus 로고
    • Recombination and drug resistance in HIV: Population dynamics and stochasticity
    • Kouyos RD, Fouchet D, Bonhoeffer S, (2009) Recombination and drug resistance in HIV: Population dynamics and stochasticity. Epidemics 1: 58-69.
    • (2009) Epidemics , vol.1 , pp. 58-69
    • Kouyos, R.D.1    Fouchet, D.2    Bonhoeffer, S.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.