메뉴 건너뛰기




Volumn 396, Issue , 2016, Pages 132-143

Measuring epistasis in fitness landscapes: The correlation of fitness effects of mutations

Author keywords

Epistasis; Fitness; Mutations; Ruggedness

Indexed keywords

CORRELATION; EPISTASIS; FITNESS; GENOTYPE; MUTATION;

EID: 84959298014     PISSN: 00225193     EISSN: 10958541     Source Type: Journal    
DOI: 10.1016/j.jtbi.2016.01.037     Document Type: Article
Times cited : (57)

References (41)
  • 1
    • 0034082141 scopus 로고    scopus 로고
    • Analysis of a local fitness landscape with a model of the rough mt. fuji-type landscape. application to prolyl endopeptidase and thermolysis
    • Aita T., Uchiyama H., Inaoka T., Nakajima M., Kokubo T., Husimi Y. Analysis of a local fitness landscape with a model of the rough mt. fuji-type landscape. application to prolyl endopeptidase and thermolysis. Biopolymers 2000, 54(1):64-79. 10.1002/(SICI)1097-0282(200007)54:1¡64::AID-BIP70¿3.0.CO;2-R.
    • (2000) Biopolymers , vol.54 , Issue.1 , pp. 64-79
    • Aita, T.1    Uchiyama, H.2    Inaoka, T.3    Nakajima, M.4    Kokubo, T.5    Husimi, Y.6
  • 2
    • 0035178855 scopus 로고    scopus 로고
    • A cross-section of the fitness landscape of dihydrofolate reductase
    • Aita T., Iwakura M., Husimi Y. A cross-section of the fitness landscape of dihydrofolate reductase. Protein Eng. 2001, 14(9):633-638.
    • (2001) Protein Eng. , vol.14 , Issue.9 , pp. 633-638
    • Aita, T.1    Iwakura, M.2    Husimi, Y.3
  • 3
    • 84958602193 scopus 로고    scopus 로고
    • The number of accessible paths in the hypercube
    • Berestycki J., Brunet É., Shi Z. The number of accessible paths in the hypercube. Bernoulli 2016, 22(2):653-680. 10.3150/14-BEJ641.
    • (2016) Bernoulli , vol.22 , Issue.2 , pp. 653-680
    • Berestycki, J.1    Brunet, É.2    Shi, Z.3
  • 6
    • 0037083769 scopus 로고    scopus 로고
    • Optimal adaptive performance and delocalization in NK fitness landscapes
    • Campos P.R., Adami C., Wilke C.O. Optimal adaptive performance and delocalization in NK fitness landscapes. Phys. A: Stat. Mech. Appl. 2002, 304(3):495-506.
    • (2002) Phys. A: Stat. Mech. Appl. , vol.304 , Issue.3 , pp. 495-506
    • Campos, P.R.1    Adami, C.2    Wilke, C.O.3
  • 7
    • 77955842436 scopus 로고    scopus 로고
    • Fisher's model and the genomics of adaptation. restricted pleiotropy, heterogenous mutation, and parallel evolution
    • Chevin L.-M., Martin G., Lenormand T. Fisher's model and the genomics of adaptation. restricted pleiotropy, heterogenous mutation, and parallel evolution. Evolution 2010, 64(11):3213-3231. 10.1111/j.1558-5646.2010.01058.x.
    • (2010) Evolution , vol.64 , Issue.11 , pp. 3213-3231
    • Chevin, L.-M.1    Martin, G.2    Lenormand, T.3
  • 8
    • 84899991111 scopus 로고    scopus 로고
    • Niche dimensionality and the genetics of ecological speciation
    • Chevin L.-M., Decorzent G., Lenormand T. Niche dimensionality and the genetics of ecological speciation. Evolution 2014, 68(5):1244-1256. 10.1111/evo.12346.
    • (2014) Evolution , vol.68 , Issue.5 , pp. 1244-1256
    • Chevin, L.-M.1    Decorzent, G.2    Lenormand, T.3
  • 9
    • 30444453104 scopus 로고    scopus 로고
    • Microbial experiments on adaptive landscapes
    • Colegrave N., Buckling A. Microbial experiments on adaptive landscapes. Bioessays 2005, 27(11):1167-1173. 10.1002/bies.20292.
    • (2005) Bioessays , vol.27 , Issue.11 , pp. 1167-1173
    • Colegrave, N.1    Buckling, A.2
  • 10
    • 84902775598 scopus 로고    scopus 로고
    • Empirical fitness landscapes and the predictability of evolution
    • De Visser J.A.G.M., Krug J. Empirical fitness landscapes and the predictability of evolution. Nat. Rev. Genet. 2014, 15(7):480-490. 10.1038/nrg3744.
    • (2014) Nat. Rev. Genet. , vol.15 , Issue.7 , pp. 480-490
    • De Visser, J.A.G.M.1    Krug, J.2
  • 11
    • 0030780902 scopus 로고    scopus 로고
    • Test of interaction between genetic markers that affect fitness in Aspergillus niger.
    • De Visser, J.A., Hoekstra, R.F., Van den Ende, H., 1997. Test of interaction between genetic markers that affect fitness in Aspergillus niger. Evolution 51, 1499-1505.
    • (1997) Evolution , vol.51 , pp. 1499-1505
    • De Visser, J.A.1    Hoekstra, R.F.2    Van den Ende, H.3
  • 12
    • 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(Suppl 1):S15-S30. 10.1086/599081.
    • (2009) Am. Nat. , vol.174 , pp. S15-S30
    • De Visser, J.A.G.M.1    Park, S.-C.2    Krug, J.3
  • 13
    • 84886298744 scopus 로고    scopus 로고
    • Selection biases the prevalence and type of epistasis along adaptive trajectories
    • Draghi J.A., Plotkin J.B. Selection biases the prevalence and type of epistasis along adaptive trajectories. Evolution 2013, 67(11):3120-3131. 10.1111/evo.12192.
    • (2013) Evolution , vol.67 , Issue.11 , pp. 3120-3131
    • Draghi, J.A.1    Plotkin, J.B.2
  • 16
    • 0020740521 scopus 로고
    • A simple stochastic gene substitution model
    • Gillespie J.H. A simple stochastic gene substitution model. Theor. Popul. Biol. 1983, 23(2):202-215.
    • (1983) Theor. Popul. Biol. , vol.23 , Issue.2 , pp. 202-215
    • Gillespie, J.H.1
  • 17
    • 84901650146 scopus 로고    scopus 로고
    • The changing geometry of a fitness landscape along an adaptive walk
    • Greene D., Crona K. The changing geometry of a fitness landscape along an adaptive walk. PLoS Comput. Biol. 2014, 10(5):e1003520. 10.1371/journal.pcbi.1003520.
    • (2014) PLoS Comput. Biol. , vol.10 , Issue.5
    • Greene, D.1    Crona, K.2
  • 18
    • 84901764014 scopus 로고    scopus 로고
    • On the existence of accessible paths in various models of fitness landscapes
    • Hegarty P., Martinsson A., et al. On the existence of accessible paths in various models of fitness landscapes. Ann. Appl. Probab. 2014, 24(4):1375-1395.
    • (2014) Ann. Appl. Probab. , vol.24 , Issue.4 , pp. 1375-1395
    • Hegarty, P.1    Martinsson, A.2
  • 19
    • 0023647382 scopus 로고
    • Towards a general theory of adaptive walks on rugged landscapes
    • Kauffman S., Levin S. Towards a general theory of adaptive walks on rugged landscapes. J. Theor. Biol. 1987, 128(1):11-45.
    • (1987) J. Theor. Biol. , vol.128 , Issue.1 , pp. 11-45
    • Kauffman, S.1    Levin, S.2
  • 20
    • 0024803111 scopus 로고
    • The NK model of rugged fitness landscapes and its application to maturation of the immune response
    • Kauffman S.A., Weinberger E.D. The NK model of rugged fitness landscapes and its application to maturation of the immune response. J. Theor. Biol. 1989, 141(2):211-245.
    • (1989) J. Theor. Biol. , vol.141 , Issue.2 , pp. 211-245
    • Kauffman, S.A.1    Weinberger, E.D.2
  • 22
    • 0001503634 scopus 로고
    • A simple model for the balance between selection and mutation
    • Kingman J. A simple model for the balance between selection and mutation. J. Appl. Probab. 1978, 1-12.
    • (1978) J. Appl. Probab. , pp. 1-12
    • Kingman, J.1
  • 23
    • 0035834126 scopus 로고    scopus 로고
    • Multidimensional epistasis and the disadvantage of sex
    • Kondrashov F.A., Kondrashov A.S. Multidimensional epistasis and the disadvantage of sex. Proc. Natl. Acad. Sci. U.S.A. 2001, 98(21):12089-12092. 10.1073/pnas.211214298.
    • (2001) Proc. Natl. Acad. Sci. U.S.A. , vol.98 , Issue.21 , pp. 12089-12092
    • Kondrashov, F.A.1    Kondrashov, A.S.2
  • 25
    • 84880043765 scopus 로고    scopus 로고
    • Exact results for amplitude spectra of fitness landscapes
    • Neidhart J., Szendro I.G., Krug J. Exact results for amplitude spectra of fitness landscapes. J. Theor. Biol. 2013, 332:218-227. 10.1016/j.jtbi.2013.05.002.
    • (2013) J. Theor. Biol. , vol.332 , pp. 218-227
    • Neidhart, J.1    Szendro, I.G.2    Krug, J.3
  • 26
    • 13144257707 scopus 로고    scopus 로고
    • The genetic theory of adaptation. a brief history
    • Orr H.A. The genetic theory of adaptation. a brief history. Nat. Rev. Genet. 2005, 6(2):119-127. 10.1038/nrg1523.
    • (2005) Nat. Rev. Genet. , vol.6 , Issue.2 , pp. 119-127
    • Orr, H.A.1
  • 27
    • 68549133539 scopus 로고    scopus 로고
    • The evolutionary enigma of sex
    • Otto S.P. The evolutionary enigma of sex. Am. Nat. 2009, 174(Suppl 1):S1-S14. 10.1086/599084.
    • (2009) Am. Nat. , vol.174 , pp. S1-S14
    • Otto, S.P.1
  • 28
    • 54149088214 scopus 로고    scopus 로고
    • Epistasis-the essential role of gene interactions in the structure and evolution of genetic systems
    • Phillips P.C. Epistasis-the essential role of gene interactions in the structure and evolution of genetic systems. Nat. Rev. Genet. 2008, 9(11):855-867. 10.1038/nrg2452.
    • (2008) Nat. Rev. Genet. , vol.9 , Issue.11 , pp. 855-867
    • Phillips, P.C.1
  • 29
    • 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(7126):383-386. 10.1038/nature05451.
    • (2007) Nature , vol.445 , Issue.7126 , pp. 383-386
    • Poelwijk, F.J.1    Kiviet, D.J.2    Weinreich, D.M.3    Tans, S.J.4
  • 32
    • 84893788651 scopus 로고    scopus 로고
    • Evolutionary accessibility of modular fitness landscapes
    • Schmiegelt B., Krug J. Evolutionary accessibility of modular fitness landscapes. J. Stat. Phys. 2014, 154:334-355.
    • (2014) J. Stat. Phys. , vol.154 , pp. 334-355
    • Schmiegelt, B.1    Krug, J.2
  • 33
    • 0030371056 scopus 로고    scopus 로고
    • Landscapes and their correlation functions
    • Stadler P.F. Landscapes and their correlation functions. J. Math. Chem. 1996, 20(1):1-45.
    • (1996) J. Math. Chem. , vol.20 , Issue.1 , pp. 1-45
    • Stadler, P.F.1
  • 34
    • 84959265813 scopus 로고    scopus 로고
    • Spin Glasses and Biology.
    • World Scientific, Singapore. (Book 6).
    • Stein, D.L. (Ed.), Spin Glasses and Biology. Series on Directions in Condensed Matter Physics, vol. 6. World Scientific, Singapore. ISBN: 978-9971-5-0537-0 (Book 6).
    • Series on Directions in Condensed Matter Physics , vol.6
    • Stein, D.L.1
  • 36
    • 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(2):523-536. 10.1111/j.1558-5646.2010.01144.x.
    • (2011) Evolution , vol.65 , Issue.2 , pp. 523-536
    • Watson, R.A.1    Weinreich, D.M.2    Wakeley, J.3
  • 37
    • 0001697862 scopus 로고
    • Local properties of Kauffman's NK model. a tunably rugged energy landscape
    • Weinberger E.D. Local properties of Kauffman's NK model. a tunably rugged energy landscape. Phys. Rev. A 1991, 44(10):6399.
    • (1991) Phys. Rev. A , vol.44 , Issue.10 , pp. 6399
    • Weinberger, E.D.1
  • 38
    • 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(6):1165-1174.
    • (2005) Evolution , vol.59 , Issue.6 , pp. 1165-1174
    • Weinreich, D.M.1    Watson, R.A.2    Chao, L.3
  • 39
    • 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(5770):111-114. 10.1126/science.1123539.
    • (2006) Science , vol.312 , Issue.5770 , pp. 111-114
    • Weinreich, D.M.1    Delaney, N.F.2    Depristo, M.A.3    Hartl, D.L.4
  • 40
    • 84889582432 scopus 로고    scopus 로고
    • Should evolutionary geneticists worry about higher-order epistasis?
    • Weinreich D.M., Lan Y., Wylie C.S., Heckendorn R.B. Should evolutionary geneticists worry about higher-order epistasis?. Curr. Opin. Genet. Dev. 2013, 23(6):700-707. 10.1016/j.gde.2013.10.007.
    • (2013) Curr. Opin. Genet. Dev. , vol.23 , Issue.6 , pp. 700-707
    • Weinreich, D.M.1    Lan, Y.2    Wylie, C.S.3    Heckendorn, R.B.4
  • 41
    • 0000907353 scopus 로고
    • The roles of mutation, inbreeding, crossbreeding and selection in evolution.
    • Wright, S., 1932. The roles of mutation, inbreeding, crossbreeding and selection in evolution. In: Proceedings of the 6th International Congress on Genetics, vol. 1, pp. 356-366.
    • (1932) Proceedings of the 6th International Congress on Genetics , vol.1 , pp. 356-366
    • Wright, S.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.