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Promises and Pitfalls of In Vivo Evolution to Improve Phage Therapy.

Bull JJ, Levin BR, Molineux IJ.

Viruses. 2019 Nov 21;11(12). pii: E1083. doi: 10.3390/v11121083.


Spatial structure undermines parasite suppression by gene drive cargo.

Bull JJ, Remien CH, Gomulkiewicz R, Krone SM.

PeerJ. 2019 Oct 29;7:e7921. doi: 10.7717/peerj.7921. eCollection 2019.


Evolution and containment of transmissible recombinant vector vaccines.

Nuismer SL, Basinski A, Bull JJ.

Evol Appl. 2019 Jun 12;12(8):1595-1609. doi: 10.1111/eva.12806. eCollection 2019 Sep.


Recombinant vector vaccine evolution.

Bull JJ, Nuismer SL, Antia R.

PLoS Comput Biol. 2019 Jul 19;15(7):e1006857. doi: 10.1371/journal.pcbi.1006857. eCollection 2019 Jul.


Gene-drive-mediated extinction is thwarted by population structure and evolution of sib mating.

Bull JJ, Remien CH, Krone SM.

Evol Med Public Health. 2019 May 11;2019(1):66-81. doi: 10.1093/emph/eoz014. eCollection 2019.


Transmissible vaccines whose dissemination rates vary through time, with applications to wildlife.

Smithson MW, Basinki AJ, Nuismer SL, Bull JJ.

Vaccine. 2019 Feb 21;37(9):1153-1159. doi: 10.1016/j.vaccine.2019.01.018. Epub 2019 Jan 25.


Antibiotic Therapy Using Phage Depolymerases: Robustness Across a Range of Conditions.

Lin H, Paff ML, Molineux IJ, Bull JJ.

Viruses. 2018 Nov 12;10(11). pii: E622. doi: 10.3390/v10110622.


Predicting Evolution of the Transcription Regulatory Network in a Bacteriophage.

Garry DJ, Meyer AJ, Ellefson JW, Bull JJ, Ellington AD.

Genome Biol Evol. 2018 Oct 1;10(10):2614-2628. doi: 10.1093/gbe/evy191.


Combinatorial Approaches to Viral Attenuation.

Paff ML, Jack BR, Smith BL, Bull JJ, Wilke CO.

mSystems. 2018 Jul 31;3(4). pii: e00046-18. doi: 10.1128/mSystems.00046-18. eCollection 2018 Jul-Aug.


Experimental evolution of UV resistance in a phage.

Tom EF, Molineux IJ, Paff ML, Bull JJ.

PeerJ. 2018 Jul 9;6:e5190. doi: 10.7717/peerj.5190. eCollection 2018.


Viral attenuation by engineered protein fragmentation.

Garry DJ, Ellington AD, Molineux IJ, Bull JJ.

Virus Evol. 2018 Jun 19;4(1):vey017. doi: 10.1093/ve/vey017. eCollection 2018 Jan.


Phage-Bacterial Dynamics with Spatial Structure: Self Organization around Phage Sinks Can Promote Increased Cell Densities.

Bull JJ, Christensen KA, Scott C, Jack BR, Crandall CJ, Krone SM.

Antibiotics (Basel). 2018 Jan 29;7(1). pii: E8. doi: 10.3390/antibiotics7010008.


Therapeutic Application of Phage Capsule Depolymerases against K1, K5, and K30 Capsulated E. coli in Mice.

Lin H, Paff ML, Molineux IJ, Bull JJ.

Front Microbiol. 2017 Nov 16;8:2257. doi: 10.3389/fmicb.2017.02257. eCollection 2017.


Transmissible Viral Vaccines.

Bull JJ, Smithson MW, Nuismer SL.

Trends Microbiol. 2018 Jan;26(1):6-15. doi: 10.1016/j.tim.2017.09.007. Epub 2017 Oct 13. Review.


Arresting Evolution.

Bull JJ, Barrick JE.

Trends Genet. 2017 Dec;33(12):910-920. doi: 10.1016/j.tig.2017.09.008. Epub 2017 Oct 10. Review.


The gene drive bubble: New realities.

Bull JJ, Malik HS.

PLoS Genet. 2017 Jul 20;13(7):e1006850. doi: 10.1371/journal.pgen.1006850. eCollection 2017 Jul. No abstract available.


Reduced Protein Expression in a Virus Attenuated by Codon Deoptimization.

Jack BR, Boutz DR, Paff ML, Smith BL, Bull JJ, Wilke CO.

G3 (Bethesda). 2017 Sep 7;7(9):2957-2968. doi: 10.1534/g3.117.041020.


Phage Inhibit Pathogen Dissemination by Targeting Bacterial Migrants in a Chronic Infection Model.

Darch SE, Kragh KN, Abbott EA, Bjarnsholt T, Bull JJ, Whiteley M.

mBio. 2017 Apr 4;8(2). pii: e00240-17. doi: 10.1128/mBio.00240-17.


Synergy and Order Effects of Antibiotics and Phages in Killing Pseudomonas aeruginosa Biofilms.

Chaudhry WN, ConcepciĆ³n-Acevedo J, Park T, Andleeb S, Bull JJ, Levin BR.

PLoS One. 2017 Jan 11;12(1):e0168615. doi: 10.1371/journal.pone.0168615. eCollection 2017.


Lethal gene drive selects inbreeding.

Bull JJ.

Evol Med Public Health. 2016 Dec;2017(1):1-16. doi: 10.1093/emph/eow030. Epub 2016 Nov 8. Erratum in: Evol Med Public Health. 2017 Feb 24;2017(1):47.


Eradicating infectious disease using weakly transmissible vaccines.

Nuismer SL, Althouse BM, May R, Bull JJ, Stromberg SP, Antia R.

Proc Biol Sci. 2016 Oct 26;283(1841). pii: 20161903.


Design and engineering of a transmissible antiviral defense.

Paff ML, Nuismer SL, Ellington AD, Molineux IJ, May RH, Bull JJ.

J Biol Eng. 2016 Oct 12;10:12. eCollection 2016.


Virus wars: using one virus to block the spread of another.

Paff ML, Nuismer SL, Ellington A, Molineux IJ, Bull JJ.

PeerJ. 2016 Jun 29;4:e2166. doi: 10.7717/peerj.2166. eCollection 2016.


Evolutionary decay and the prospects for long-term disease intervention using engineered insect vectors.

Bull JJ.

Evol Med Public Health. 2015 Jul 8;2015(1):152-66. doi: 10.1093/emph/eov013. Review.


Evolution: Reptile sex determination goes wild.

Bull JJ.

Nature. 2015 Jul 2;523(7558):43-4. doi: 10.1038/523043a. No abstract available.


Models for the directed evolution of bacterial allelopathy: bacteriophage lysins.

Bull JJ, Crandall C, Rodriguez A, Krone SM.

PeerJ. 2015 Apr 9;3:e879. doi: 10.7717/peerj.879. eCollection 2015.


Evolutionary reversion of live viral vaccines: Can genetic engineering subdue it?

Bull JJ.

Virus Evol. 2015 Jan;1(1). pii: vev005. Epub 2015 Jan 1.


The habits of highly effective phages: population dynamics as a framework for identifying therapeutic phages.

Bull JJ, Gill JJ.

Front Microbiol. 2014 Nov 18;5:618. doi: 10.3389/fmicb.2014.00618. eCollection 2014.


Theory and empiricism in virulence evolution.

Bull JJ, Lauring AS.

PLoS Pathog. 2014 Oct 23;10(10):e1004387. doi: 10.1371/journal.ppat.1004387. eCollection 2014 Oct. Review. No abstract available.


Synergy as a rationale for phage therapy using phage cocktails.

Schmerer M, Molineux IJ, Bull JJ.

PeerJ. 2014 Sep 25;2:e590. doi: 10.7717/peerj.590. eCollection 2014.


Challenges in predicting the evolutionary maintenance of a phage transgene.

Schmerer M, Molineux IJ, Ally D, Tyerman J, Cecchini N, Bull JJ.

J Biol Eng. 2014 Aug 1;8:21. doi: 10.1186/1754-1611-8-21. eCollection 2014.


Phenotypic resistance and the dynamics of bacterial escape from phage control.

Bull JJ, Vegge CS, Schmerer M, Chaudhry WN, Levin BR.

PLoS One. 2014 Apr 17;9(4):e94690. doi: 10.1371/journal.pone.0094690. eCollection 2014.


Wolbachia versus dengue: Evolutionary forecasts.

Bull JJ, Turelli M.

Evol Med Public Health. 2013 Jan;2013(1):197-207. doi: 10.1093/emph/eot018. Epub 2013 Sep 11.


Lethal mutagenesis failure may augment viral adaptation.

Paff ML, Stolte SP, Bull JJ.

Mol Biol Evol. 2014 Jan;31(1):96-105. doi: 10.1093/molbev/mst173. Epub 2013 Oct 3.


Empirical complexities in the genetic foundations of lethal mutagenesis.

Bull JJ, Joyce P, Gladstone E, Molineux IJ.

Genetics. 2013 Oct;195(2):541-52. doi: 10.1534/genetics.113.154195. Epub 2013 Aug 9.


Evolutionarily stable attenuation by genome rearrangement in a virus.

Cecchini N, Schmerer M, Molineux IJ, Springman R, Bull JJ.

G3 (Bethesda). 2013 Aug 7;3(8):1389-97. doi: 10.1534/g3.113.006403.


Evolutionary stability of a refactored phage genome.

Springman R, Molineux IJ, Duong C, Bull RJ, Bull JJ.

ACS Synth Biol. 2012 Sep 21;1(9):425-30.


Evolutionary principles and synthetic biology: avoiding a molecular tragedy of the commons with an engineered phage.

Gladstone EG, Molineux IJ, Bull JJ.

J Biol Eng. 2012 Sep 4;6(1):13. doi: 10.1186/1754-1611-6-13.


Algae for biofuel: will the evolution of weeds limit the enterprise?

Bull JJ, Collins S.

Evolution. 2012 Sep;66(9):2983-7. doi: 10.1111/j.1558-5646.2012.01652.x. Epub 2012 May 1.


Evolutionary recovery of a recombinant viral genome.

Springman R, Kapadia-Desai DS, Molineux IJ, Bull JJ.

G3 (Bethesda). 2012 Jul;2(7):825-30. doi: 10.1534/g3.112.002758. Epub 2012 Jul 1.


Interactions between evolutionary processes at high mutation rates.

Keller TE, Wilke CO, Bull JJ.

Evolution. 2012 Jul;66(7):2303-14. doi: 10.1111/j.1558-5646.2012.01596.x. Epub 2012 Mar 19.


Slow fitness recovery in a codon-modified viral genome.

Bull JJ, Molineux IJ, Wilke CO.

Mol Biol Evol. 2012 Oct;29(10):2997-3004. Epub 2012 Apr 24.


Multiple genetic pathways to similar fitness limits during viral adaptation to a new host.

Nguyen AH, Molineux IJ, Springman R, Bull JJ.

Evolution. 2012 Feb;66(2):363-74. doi: 10.1111/j.1558-5646.2011.01433.x. Epub 2011 Sep 20.


The phenotype-fitness map in experimental evolution of phages.

Bull JJ, Heineman RH, Wilke CO.

PLoS One. 2011;6(11):e27796. doi: 10.1371/journal.pone.0027796. Epub 2011 Nov 22.


In vivo growth rates are poorly correlated with phage therapy success in a mouse infection model.

Bull JJ, Otto G, Molineux IJ.

Antimicrob Agents Chemother. 2012 Feb;56(2):949-54. doi: 10.1128/AAC.05842-11. Epub 2011 Nov 21.


Parasite evolution and life history theory.

Kochin BF, Bull JJ, Antia R.

PLoS Biol. 2010 Oct 19;8(10):e1000524. doi: 10.1371/journal.pbio.1000524. No abstract available.


Optimality models in the age of experimental evolution and genomics.

Bull JJ, Wang IN.

J Evol Biol. 2010 Sep 1;23(9):1820-38. doi: 10.1111/j.1420-9101.2010.02054.x. Epub 2010 Jul 14. Review.


Deathly drool: evolutionary and ecological basis of septic bacteria in Komodo dragon mouths.

Bull JJ, Jessop TS, Whiteley M.

PLoS One. 2010 Jun 21;5(6):e11097. doi: 10.1371/journal.pone.0011097.


A tale of tails: Sialidase is key to success in a model of phage therapy against K1-capsulated Escherichia coli.

Bull JJ, Vimr ER, Molineux IJ.

Virology. 2010 Mar 1;398(1):79-86. doi: 10.1016/j.virol.2009.11.040. Epub 2009 Dec 16.


Evolution at a high imposed mutation rate: adaptation obscures the load in phage T7.

Springman R, Keller T, Molineux IJ, Bull JJ.

Genetics. 2010 Jan;184(1):221-32. doi: 10.1534/genetics.109.108803. Epub 2009 Oct 26.

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