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Results: 1 to 20 of 49

1.

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.

PMID:
24794435
[PubMed - in process]
Free Article
2.

Phylogeny poorly predicts the utility of a challenging horizontally transferred gene in Methylobacterium strains.

Michener JK, Vuilleumier S, Bringel F, Marx CJ.

J Bacteriol. 2014 Jun;196(11):2101-7. doi: 10.1128/JB.00034-14. Epub 2014 Mar 28.

PMID:
24682326
[PubMed - indexed for MEDLINE]
3.

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
[PubMed - indexed for MEDLINE]
4.

Mapping the fitness landscape of gene expression uncovers the cause of antagonism and sign epistasis between adaptive mutations.

Chou HH, Delaney NF, Draghi JA, Marx CJ.

PLoS Genet. 2014 Feb 27;10(2):e1004149. doi: 10.1371/journal.pgen.1004149. eCollection 2014 Feb.

PMID:
24586190
[PubMed - in process]
Free PMC Article
5.

Metabolic erosion primarily through mutation accumulation, and not tradeoffs, drives limited evolution of substrate specificity in Escherichia coli.

Leiby N, Marx CJ.

PLoS Biol. 2014 Feb 18;12(2):e1001789. doi: 10.1371/journal.pbio.1001789. eCollection 2014 Feb.

PMID:
24558347
[PubMed - in process]
Free PMC Article
6.

Laboratory divergence of Methylobacterium extorquens AM1 through unintended domestication and past selection for antibiotic resistance.

Carroll SM, Xue KS, Marx CJ.

BMC Microbiol. 2014 Jan 2;14:2. doi: 10.1186/1471-2180-14-2.

PMID:
24384040
[PubMed - in process]
Free PMC Article
7.

Sign epistasis limits evolutionary trade-offs at the confluence of single- and multi-carbon metabolism in Methylobacterium extorquens AM1.

Carroll SM, Lee MC, Marx CJ.

Evolution. 2014 Mar;68(3):760-71. doi: 10.1111/evo.12301. Epub 2013 Nov 20.

PMID:
24164359
[PubMed - in process]
8.

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.

PMID:
23818838
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

A novel pair of inducible expression vectors for use in Methylobacterium extorquens.

Chubiz LM, Purswani J, Carroll SM, Marx CJ.

BMC Res Notes. 2013 May 6;6:183. doi: 10.1186/1756-0500-6-183.

PMID:
23648175
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Development of an optimized medium, strain and high-throughput culturing methods for Methylobacterium extorquens.

Delaney NF, Kaczmarek ME, Ward LM, Swanson PK, Lee MC, Marx CJ.

PLoS One. 2013 Apr 30;8(4):e62957. doi: 10.1371/journal.pone.0062957. Print 2013.

PMID:
23646164
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Evolution after introduction of a novel metabolic pathway consistently leads to restoration of wild-type physiology.

Carroll SM, Marx CJ.

PLoS Genet. 2013 Apr;9(4):e1003427. doi: 10.1371/journal.pgen.1003427. Epub 2013 Apr 4.

PMID:
23593025
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Massive mitochondrial gene transfer in a parasitic flowering plant clade.

Xi Z, Wang Y, Bradley RK, Sugumaran M, Marx CJ, Rest JS, Davis CC.

PLoS Genet. 2013;9(2):e1003265. doi: 10.1371/journal.pgen.1003265. Epub 2013 Feb 14.

PMID:
23459037
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Can you sequence ecology? Metagenomics of adaptive diversification.

Marx CJ.

PLoS Biol. 2013;11(2):e1001487. doi: 10.1371/journal.pbio.1001487. Epub 2013 Feb 19.

PMID:
23431268
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Synchronous waves of failed soft sweeps in the laboratory: remarkably rampant clonal interference of alleles at a single locus.

Lee MC, Marx CJ.

Genetics. 2013 Mar;193(3):943-52. doi: 10.1534/genetics.112.148502. Epub 2013 Jan 10.

PMID:
23307898
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Good codons, bad transcript: large reductions in gene expression and fitness arising from synonymous mutations in a key enzyme.

Agashe D, Martinez-Gomez NC, Drummond DA, Marx CJ.

Mol Biol Evol. 2013 Mar;30(3):549-60. doi: 10.1093/molbev/mss273. Epub 2012 Dec 4.

PMID:
23223712
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

FREQ-Seq: a rapid, cost-effective, sequencing-based method to determine allele frequencies directly from mixed populations.

Chubiz LM, Lee MC, Delaney NF, Marx CJ.

PLoS One. 2012;7(10):e47959. doi: 10.1371/journal.pone.0047959. Epub 2012 Oct 31.

PMID:
23118913
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Clarity: an open-source manager for laboratory automation.

Delaney NF, Rojas Echenique JI, Marx CJ.

J Lab Autom. 2013 Apr;18(2):171-7. doi: 10.1177/2211068212460237. Epub 2012 Oct 2.

PMID:
23032169
[PubMed - indexed for MEDLINE]
18.

Multiple long-term, experimentally-evolved populations of Escherichia coli acquire dependence upon citrate as an iron chelator for optimal growth on glucose.

Leiby N, Harcombe WR, Marx CJ.

BMC Evol Biol. 2012 Aug 21;12:151. doi: 10.1186/1471-2148-12-151.

PMID:
22909317
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

OASIS: an automated program for global investigation of bacterial and archaeal insertion sequences.

Robinson DG, Lee MC, Marx CJ.

Nucleic Acids Res. 2012 Dec;40(22):e174. doi: 10.1093/nar/gks778. Epub 2012 Aug 16.

PMID:
22904081
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Epistasis from functional dependence of fitness on underlying traits.

Chiu HC, Marx CJ, Segrè D.

Proc Biol Sci. 2012 Oct 22;279(1745):4156-64. doi: 10.1098/rspb.2012.1449. Epub 2012 Aug 15.

PMID:
22896647
[PubMed - indexed for MEDLINE]
Free PMC Article

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