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Items: 22


Higher-fitness yeast genotypes are less robust to deleterious mutations.

Johnson MS, Martsul A, Kryazhimskiy S, Desai MM.

Science. 2019 Oct 25;366(6464):490-493. doi: 10.1126/science.aay4199.


Detecting genetic interactions using parallel evolution in experimental populations.

Fisher KJ, Kryazhimskiy S, Lang GI.

Philos Trans R Soc Lond B Biol Sci. 2019 Jul 22;374(1777):20180237. doi: 10.1098/rstb.2018.0237. Epub 2019 Jun 3.


Modular epistasis and the compensatory evolution of gene deletion mutants.

Rojas Echenique JI, Kryazhimskiy S, Nguyen Ba AN, Desai MM.

PLoS Genet. 2019 Feb 15;15(2):e1007958. doi: 10.1371/journal.pgen.1007958. eCollection 2019 Feb.


Genetic variation in adaptability and pleiotropy in budding yeast.

Jerison ER, Kryazhimskiy S, Mitchell JK, Bloom JS, Kruglyak L, Desai MM.

Elife. 2017 Aug 17;6. pii: e27167. doi: 10.7554/eLife.27167.


Coordinated Evolution of Influenza A Surface Proteins.

Neverov AD, Kryazhimskiy S, Plotkin JB, Bazykin GA.

PLoS Genet. 2015 Aug 6;11(8):e1005404. doi: 10.1371/journal.pgen.1005404. eCollection 2015 Aug.


Inexpensive multiplexed library preparation for megabase-sized genomes.

Baym M, Kryazhimskiy S, Lieberman TD, Chung H, Desai MM, Kishony R.

PLoS One. 2015 May 22;10(5):e0128036. doi: 10.1371/journal.pone.0128036. eCollection 2015. Erratum in: PLoS One. 2015;10(6):e0131262.


Microbial evolution. Global epistasis makes adaptation predictable despite sequence-level stochasticity.

Kryazhimskiy S, Rice DP, Jerison ER, Desai MM.

Science. 2014 Jun 27;344(6191):1519-1522. doi: 10.1126/science.1250939.


Loss and recovery of genetic diversity in adapting populations of HIV.

Pennings PS, Kryazhimskiy S, Wakeley J.

PLoS Genet. 2014 Jan;10(1):e1004000. doi: 10.1371/journal.pgen.1004000. Epub 2014 Jan 23.


Refining a key metabolic innovation in Escherichia coli.

Kryazhimskiy S, Desai MM.

Proc Natl Acad Sci U S A. 2014 Feb 11;111(6):2056-7. doi: 10.1073/pnas.1323189111. Epub 2014 Jan 23. No abstract available.


Identifying signatures of selection in genetic time series.

Feder AF, Kryazhimskiy S, Plotkin JB.

Genetics. 2014 Feb;196(2):509-22. doi: 10.1534/genetics.113.158220. Epub 2013 Dec 6. Erratum in: Genetics. 2018 Dec;210(4):1559.


Multidrug therapy and evolution of antibiotic resistance: when order matters.

Perron GG, Kryazhimskiy S, Rice DP, Buckling A.

Appl Environ Microbiol. 2012 Sep;78(17):6137-42. doi: 10.1128/AEM.01078-12. Epub 2012 Jun 22. Retraction in: Appl Environ Microbiol. 2013 Oct;79(20):6521.


Population subdivision and adaptation in asexual populations of Saccharomyces cerevisiae.

Kryazhimskiy S, Rice DP, Desai MM.

Evolution. 2012 Jun;66(6):1931-41. doi: 10.1111/j.1558-5646.2011.01569.x. Epub 2012 Feb 17.


The dynamics of social networks among female Asian elephants.

de Silva S, Ranjeewa AD, Kryazhimskiy S.

BMC Ecol. 2011 Jul 27;11:17. doi: 10.1186/1472-6785-11-17.


Evolution. In evolution, the sum is less than its parts.

Kryazhimskiy S, Draghi JA, Plotkin JB.

Science. 2011 Jun 3;332(6034):1160-1. doi: 10.1126/science.1208072. No abstract available.


Prevalence of epistasis in the evolution of influenza A surface proteins.

Kryazhimskiy S, Dushoff J, Bazykin GA, Plotkin JB.

PLoS Genet. 2011 Feb;7(2):e1001301. doi: 10.1371/journal.pgen.1001301. Epub 2011 Feb 17.


Young proteins experience more variable selection pressures than old proteins.

Vishnoi A, Kryazhimskiy S, Bazykin GA, Hannenhalli S, Plotkin JB.

Genome Res. 2010 Nov;20(11):1574-81. doi: 10.1101/gr.109595.110. Epub 2010 Oct 4.


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.


Isolation and characterization of adenoviruses persistently shed from the gastrointestinal tract of non-human primates.

Roy S, Vandenberghe LH, Kryazhimskiy S, Grant R, Calcedo R, Yuan X, Keough M, Sandhu A, Wang Q, Medina-Jaszek CA, Plotkin JB, Wilson JM.

PLoS Pathog. 2009 Jul;5(7):e1000503. doi: 10.1371/journal.ppat.1000503. Epub 2009 Jul 3.


The population genetics of dN/dS.

Kryazhimskiy S, Plotkin JB.

PLoS Genet. 2008 Dec;4(12):e1000304. doi: 10.1371/journal.pgen.1000304. Epub 2008 Dec 12.


Directionality in the evolution of influenza A haemagglutinin.

Kryazhimskiy S, Bazykin GA, Plotkin JB, Dushoff J.

Proc Biol Sci. 2008 Nov 7;275(1650):2455-64. doi: 10.1098/rspb.2008.0521. Erratum in: Proc Biol Sci. 2209 Aug 22;276(1669):3035. Plotkin, Joshua [corrected to Plotkin Joshua B].


Natural selection for nucleotide usage at synonymous and nonsynonymous sites in influenza A virus genes.

Kryazhimskiy S, Bazykin GA, Dushoff J.

J Virol. 2008 May;82(10):4938-45. doi: 10.1128/JVI.02415-07. Epub 2008 Mar 5.


On state-space reduction in multi-strain pathogen models, with an application to antigenic drift in influenza A.

Kryazhimskiy S, Dieckmann U, Levin SA, Dushoff J.

PLoS Comput Biol. 2007 Aug;3(8):e159. Epub 2007 Jun 22.

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