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Items: 28

1.

Increasing growth rate slows adaptation when genotypes compete for diffusing resources.

Chacón JM, Shaw AK, Harcombe WR.

PLoS Comput Biol. 2020 Jan 7;16(1):e1007585. doi: 10.1371/journal.pcbi.1007585. eCollection 2020 Jan.

2.

Lytic bacteriophage have diverse indirect effects in a synthetic cross-feeding community.

Fazzino L, Anisman J, Chacón JM, Heineman RH, Harcombe WR.

ISME J. 2020 Jan;14(1):123-134. doi: 10.1038/s41396-019-0511-z. Epub 2019 Oct 2.

3.

Common principles and best practices for engineering microbiomes.

Lawson CE, Harcombe WR, Hatzenpichler R, Lindemann SR, Löffler FE, O'Malley MA, García Martín H, Pfleger BF, Raskin L, Venturelli OS, Weissbrodt DG, Noguera DR, McMahon KD.

Nat Rev Microbiol. 2019 Dec;17(12):725-741. doi: 10.1038/s41579-019-0255-9. Epub 2019 Sep 23. Review.

PMID:
31548653
4.

Refining the stress gradient hypothesis in a microbial community.

Hammarlund SP, Harcombe WR.

Proc Natl Acad Sci U S A. 2019 Aug 6;116(32):15760-15762. doi: 10.1073/pnas.1910420116. Epub 2019 Jul 18. No abstract available.

5.

Genomewide Assessment of Mycobacterium tuberculosis Conditionally Essential Metabolic Pathways.

Minato Y, Gohl DM, Thiede JM, Chacón JM, Harcombe WR, Maruyama F, Baughn AD.

mSystems. 2019 Jun 25;4(4). pii: e00070-19. doi: 10.1128/mSystems.00070-19.

6.

The Power of Metabolism for Predicting Microbial Community Dynamics.

Chacón JM, Harcombe WR.

mSystems. 2019 Jun 11;4(3). pii: e00146-19. doi: 10.1128/mSystems.00146-19.

7.

A shared limiting resource leads to competitive exclusion in a cross-feeding system.

Hammarlund SP, Chacón JM, Harcombe WR.

Environ Microbiol. 2019 Feb;21(2):759-771. doi: 10.1111/1462-2920.14493. Epub 2019 Jan 8.

8.

Environmentally Mediated Social Dilemmas.

Estrela S, Libby E, Van Cleve J, Débarre F, Deforet M, Harcombe WR, Peña J, Brown SP, Hochberg ME.

Trends Ecol Evol. 2019 Jan;34(1):6-18. doi: 10.1016/j.tree.2018.10.004. Epub 2018 Nov 8. Review.

PMID:
30415827
9.

Evolution of bidirectional costly mutualism from byproduct consumption.

Harcombe WR, Chacón JM, Adamowicz EM, Chubiz LM, Marx CJ.

Proc Natl Acad Sci U S A. 2018 Nov 20;115(47):12000-12004. doi: 10.1073/pnas.1810949115. Epub 2018 Oct 22.

10.

Cross-feeding modulates antibiotic tolerance in bacterial communities.

Adamowicz EM, Flynn J, Hunter RC, Harcombe WR.

ISME J. 2018 Nov;12(11):2723-2735. doi: 10.1038/s41396-018-0212-z. Epub 2018 Jul 10.

11.

Competitive resource allocation to metabolic pathways contributes to overflow metabolisms and emergent properties in cross-feeding microbial consortia.

Carlson RP, Beck AE, Phalak P, Fields MW, Gedeon T, Hanley L, Harcombe WR, Henson MA, Heys JJ.

Biochem Soc Trans. 2018 Apr 17;46(2):269-284. doi: 10.1042/BST20170242. Epub 2018 Feb 22. Review.

PMID:
29472366
12.

The spatial and metabolic basis of colony size variation.

Chacón JM, Möbius W, Harcombe WR.

ISME J. 2018 Mar;12(3):669-680. doi: 10.1038/s41396-017-0038-0. Epub 2018 Jan 24.

13.

Engineering species-like barriers to sexual reproduction.

Maselko M, Heinsch SC, Chacón JM, Harcombe WR, Smanski MJ.

Nat Commun. 2017 Oct 12;8(1):883. doi: 10.1038/s41467-017-01007-3.

14.

Identification of the potentiating mutations and synergistic epistasis that enabled the evolution of inter-species cooperation.

Douglas SM, Chubiz LM, Harcombe WR, Marx CJ.

PLoS One. 2017 May 11;12(5):e0174345. doi: 10.1371/journal.pone.0174345. eCollection 2017.

15.

Antimicrobials: Constraints on microbial warfare.

Chacón JM, Harcombe WR.

Nat Microbiol. 2016 Nov 25;1:16225. doi: 10.1038/nmicrobiol.2016.225. No abstract available.

PMID:
27886193
16.

Parallel Mutations Result in a Wide Range of Cooperation and Community Consequences in a Two-Species Bacterial Consortium.

Douglas SM, Chubiz LM, Harcombe WR, Ytreberg FM, Marx CJ.

PLoS One. 2016 Sep 12;11(9):e0161837. doi: 10.1371/journal.pone.0161837. eCollection 2016.

17.

Adding biotic complexity alters the metabolic benefits of mutualism.

Harcombe WR, Betts A, Shapiro JW, Marx CJ.

Evolution. 2016 Aug;70(8):1871-81. doi: 10.1111/evo.12973. Epub 2016 Jun 24.

18.

Species interactions differ in their genetic robustness.

Chubiz LM, Granger BR, Segrè D, Harcombe WR.

Front Microbiol. 2015 Apr 14;6:271. doi: 10.3389/fmicb.2015.00271. eCollection 2015.

19.

Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics.

Harcombe WR, Riehl WJ, Dukovski I, Granger BR, Betts A, Lang AH, Bonilla G, Kar A, Leiby N, Mehta P, Marx CJ, Segrè D.

Cell Rep. 2014 May 22;7(4):1104-15. doi: 10.1016/j.celrep.2014.03.070. Epub 2014 May 1.

20.

Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli.

Plucain J, Hindré T, Le Gac M, Tenaillon O, Cruveiller S, Médigue C, Leiby N, Harcombe WR, Marx CJ, Lenski RE, Schneider D.

Science. 2014 Mar 21;343(6177):1366-9. doi: 10.1126/science.1248688. Epub 2014 Mar 6.

PMID:
24603152
21.

The ability of flux balance analysis to predict evolution of central metabolism scales with the initial distance to the optimum.

Harcombe WR, Delaney NF, Leiby N, Klitgord N, Marx CJ.

PLoS Comput Biol. 2013;9(6):e1003091. doi: 10.1371/journal.pcbi.1003091. Epub 2013 Jun 20.

22.
23.

Compensatory evolution for a gene deletion is not limited to its immediate functional network.

Harcombe WR, Springman R, Bull JJ.

BMC Evol Biol. 2009 May 16;9:106. doi: 10.1186/1471-2148-9-106.

24.

Population dynamics constrain the cooperative evolution of cross-feeding.

Bull JJ, Harcombe WR.

PLoS One. 2009;4(1):e4115. doi: 10.1371/journal.pone.0004115. Epub 2009 Jan 5.

25.

The ascent of the abundant: how mutational networks constrain evolution.

Cowperthwaite MC, Economo EP, Harcombe WR, Miller EL, Meyers LA.

PLoS Comput Biol. 2008 Jul 18;4(7):e1000110. doi: 10.1371/journal.pcbi.1000110.

26.

From parasite to mutualist: rapid evolution of Wolbachia in natural populations of Drosophila.

Weeks AR, Turelli M, Harcombe WR, Reynolds KT, Hoffmann AA.

PLoS Biol. 2007 May;5(5):e114.

27.

Impact of phages on two-species bacterial communities.

Harcombe WR, Bull JJ.

Appl Environ Microbiol. 2005 Sep;71(9):5254-9.

28.

Frequency-dependent Batesian mimicry.

Pfennig DW, Harcombe WR, Pfennig KS.

Nature. 2001 Mar 15;410(6826):323. No abstract available.

PMID:
11268195

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