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Items: 1 to 20 of 384

1.

The dynamics of adaptation on correlated fitness landscapes.

Kryazhimskiy S, Tkacik G, Plotkin JB.

Proc Natl Acad Sci U S A. 2009 Nov 3;106(44):18638-43. doi: 10.1073/pnas.0905497106. Epub 2009 Oct 26.

2.

Exploring the complexity of the HIV-1 fitness landscape.

Kouyos RD, Leventhal GE, Hinkley T, Haddad M, Whitcomb JM, Petropoulos CJ, Bonhoeffer S.

PLoS Genet. 2012;8(3):e1002551. doi: 10.1371/journal.pgen.1002551. Epub 2012 Mar 8.

3.

The population genetics of adaptation: multiple substitutions on a smooth fitness landscape.

Unckless RL, Orr HA.

Genetics. 2009 Nov;183(3):1079-86. doi: 10.1534/genetics.109.106757. Epub 2009 Sep 7.

4.

Selection biases the prevalence and type of epistasis along adaptive trajectories.

Draghi JA, Plotkin JB.

Evolution. 2013 Nov;67(11):3120-31. doi: 10.1111/evo.12192. Epub 2013 Jul 4.

PMID:
24151997
5.

Negative epistasis between beneficial mutations in an evolving bacterial population.

Khan AI, Dinh DM, Schneider D, Lenski RE, Cooper TF.

Science. 2011 Jun 3;332(6034):1193-6. doi: 10.1126/science.1203801.

6.

Analysis of epistatic interactions and fitness landscapes using a new geometric approach.

Beerenwinkel N, Pachter L, Sturmfels B, Elena SF, Lenski RE.

BMC Evol Biol. 2007 Apr 13;7:60.

7.

Properties of selected mutations and genotypic landscapes under Fisher's geometric model.

Blanquart F, Achaz G, Bataillon T, Tenaillon O.

Evolution. 2014 Dec;68(12):3537-54. doi: 10.1111/evo.12545. Epub 2014 Nov 17.

8.

The effect of bacterial recombination on adaptation on fitness landscapes with limited peak accessibility.

Moradigaravand D, Engelstädter J.

PLoS Comput Biol. 2012;8(10):e1002735. doi: 10.1371/journal.pcbi.1002735. Epub 2012 Oct 25.

9.

Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape.

Kvitek DJ, Sherlock G.

PLoS Genet. 2011 Apr;7(4):e1002056. doi: 10.1371/journal.pgen.1002056. Epub 2011 Apr 28.

10.

The environment affects epistatic interactions to alter the topology of an empirical fitness landscape.

Flynn KM, Cooper TF, Moore FB, Cooper VS.

PLoS Genet. 2013 Apr;9(4):e1003426. doi: 10.1371/journal.pgen.1003426. Epub 2013 Apr 4.

11.

How evolutionary systems biology will help understand adaptive landscapes and distributions of mutational effects.

Loewe L.

Adv Exp Med Biol. 2012;751:399-410. doi: 10.1007/978-1-4614-3567-9_18. Review.

PMID:
22821468
12.

The dynamics of adapting, unregulated populations and a modified fundamental theorem.

O'Dwyer JP.

J R Soc Interface. 2013 Jan 6;10(78):20120538. doi: 10.1098/rsif.2012.0538. Epub 2012 Sep 19.

13.

Multiple adaptive substitutions during evolution in novel environments.

Jain K, Seetharaman S.

Genetics. 2011 Nov;189(3):1029-43. doi: 10.1534/genetics.111.134163. Epub 2011 Sep 6.

14.

Evolution of clonal populations approaching a fitness peak.

Gordo I, Campos PR.

Biol Lett. 2013 Feb 23;9(1):20120239. doi: 10.1098/rsbl.2012.0239. Epub 2012 Jul 4.

15.

Genome evolution and adaptation in a long-term experiment with Escherichia coli.

Barrick JE, Yu DS, Yoon SH, Jeong H, Oh TK, Schneider D, Lenski RE, Kim JF.

Nature. 2009 Oct 29;461(7268):1243-7. doi: 10.1038/nature08480. Epub 2009 Oct 18.

PMID:
19838166
16.

Molecular Clock of Neutral Mutations in a Fitness-Increasing Evolutionary Process.

Kishimoto T, Ying BW, Tsuru S, Iijima L, Suzuki S, Hashimoto T, Oyake A, Kobayashi H, Someya Y, Narisawa D, Yomo T.

PLoS Genet. 2015 Jul 15;11(7):e1005392. doi: 10.1371/journal.pgen.1005392. eCollection 2015 Jul.

17.

Evolutionary advantage of small populations on complex fitness landscapes.

Jain K, Krug J, Park SC.

Evolution. 2011 Jul;65(7):1945-55. doi: 10.1111/j.1558-5646.2011.01280.x. Epub 2011 Mar 29.

PMID:
21729050
18.

Natural selection fails to optimize mutation rates for long-term adaptation on rugged fitness landscapes.

Clune J, Misevic D, Ofria C, Lenski RE, Elena SF, Sanju√°n R.

PLoS Comput Biol. 2008 Sep 26;4(9):e1000187. doi: 10.1371/journal.pcbi.1000187.

19.

Diminishing returns from beneficial mutations and pervasive epistasis shape the fitness landscape for rifampicin resistance in Pseudomonas aeruginosa.

MacLean RC, Perron GG, Gardner A.

Genetics. 2010 Dec;186(4):1345-54. doi: 10.1534/genetics.110.123083. Epub 2010 Sep 27.

20.

Adaptive walks and distribution of beneficial fitness effects.

Seetharaman S, Jain K.

Evolution. 2014 Apr;68(4):965-75. doi: 10.1111/evo.12327. Epub 2014 Jan 2.

PMID:
24274696
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