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Items: 1 to 50 of 76

1.

Pathogen population structure can explain hospital outbreaks.

Spagnolo F, Cristofari P, Tatonetti NP, Ginzburg LR, Dykhuizen DE.

ISME J. 2018 Dec;12(12):2835-2843. doi: 10.1038/s41396-018-0235-5. Epub 2018 Jul 25.

PMID:
30046167
2.

Different adaptive strategies in E. coli populations evolving under macronutrient limitation and metal ion limitation.

Warsi OM, Andersson DI, Dykhuizen DE.

BMC Evol Biol. 2018 May 18;18(1):72. doi: 10.1186/s12862-018-1191-4.

3.

Evolutionary implications of Liebig's law of the minimum: Selection under low concentrations of two nonsubstitutable nutrients.

Warsi OM, Dykhuizen DE.

Ecol Evol. 2017 Jun 8;7(14):5296-5309. doi: 10.1002/ece3.3096. eCollection 2017 Jul.

4.

Evolution of Resistance to Continuously Increasing Streptomycin Concentrations in Populations of Escherichia coli.

Spagnolo F, Rinaldi C, Sajorda DR, Dykhuizen DE.

Antimicrob Agents Chemother. 2015 Dec 14;60(3):1336-42. doi: 10.1128/AAC.01359-15.

5.

Assessment of coyote-wolf-dog admixture using ancestry-informative diagnostic SNPs.

Monzón J, Kays R, Dykhuizen DE.

Mol Ecol. 2014 Jan;23(1):182-97. doi: 10.1111/mec.12570. Epub 2013 Nov 26.

6.

Tracking recent adaptive evolution in microbial species using TimeZone.

Chattopadhyay S, Paul S, Dykhuizen DE, Sokurenko EV.

Nat Protoc. 2013 Apr;8(4):652-65. doi: 10.1038/nprot.2013.031. Epub 2013 Mar 7.

PMID:
23471110
7.

Waste and yet want not.

Stoebel DM, Dykhuizen DE.

Mol Cell. 2010 Jun 11;38(5):625-6. doi: 10.1016/j.molcel.2010.05.028.

8.

Evolution of northeastern and midwestern Borrelia burgdorferi, United States.

Brisson D, Vandermause MF, Meece JK, Reed KD, Dykhuizen DE.

Emerg Infect Dis. 2010 Jun;16(6):911-7. doi: 10.3201/eid1606.090329.

9.

Transcription, translation, and the evolution of specialists and generalists.

Zhong S, Miller SP, Dykhuizen DE, Dean AM.

Mol Biol Evol. 2009 Dec;26(12):2661-78. doi: 10.1093/molbev/msp187. Epub 2009 Aug 25.

10.

High frequency of hotspot mutations in core genes of Escherichia coli due to short-term positive selection.

Chattopadhyay S, Weissman SJ, Minin VN, Russo TA, Dykhuizen DE, Sokurenko EV.

Proc Natl Acad Sci U S A. 2009 Jul 28;106(30):12412-7. doi: 10.1073/pnas.0906217106. Epub 2009 Jul 15.

11.

Comparative evolutionary analysis of the major structural subunit of Vibrio vulnificus type IV pili.

Chattopadhyay S, Paranjpye RN, Dykhuizen DE, Sokurenko EV, Strom MS.

Mol Biol Evol. 2009 Oct;26(10):2185-96. doi: 10.1093/molbev/msp124. Epub 2009 Jun 25.

12.

The propensity of different Borrelia burgdorferi sensu stricto genotypes to cause disseminated infections in humans.

Dykhuizen DE, Brisson D, Sandigursky S, Wormser GP, Nowakowski J, Nadelman RB, Schwartz I.

Am J Trop Med Hyg. 2008 May;78(5):806-10.

13.

The cost of expression of Escherichia coli lac operon proteins is in the process, not in the products.

Stoebel DM, Dean AM, Dykhuizen DE.

Genetics. 2008 Mar;178(3):1653-60. doi: 10.1534/genetics.107.085399. Epub 2008 Feb 3.

14.

Conspicuous impacts of inconspicuous hosts on the Lyme disease epidemic.

Brisson D, Dykhuizen DE, Ostfeld RS.

Proc Biol Sci. 2008 Jan 22;275(1631):227-35.

15.

ZPS: visualization of recent adaptive evolution of proteins.

Chattopadhyay S, Dykhuizen DE, Sokurenko EV.

BMC Bioinformatics. 2007 Jun 7;8:187.

16.

Selection for functional diversity drives accumulation of point mutations in Dr adhesins of Escherichia coli.

Korotkova N, Chattopadhyay S, Tabata TA, Beskhlebnaya V, Vigdorovich V, Kaiser BK, Strong RK, Dykhuizen DE, Sokurenko EV, Moseley SL.

Mol Microbiol. 2007 Apr;64(1):180-94.

17.

Haplotype diversity in "source-sink" dynamics of Escherichia coli urovirulence.

Chattopadhyay S, Feldgarden M, Weissman SJ, Dykhuizen DE, van Belle G, Sokurenko EV.

J Mol Evol. 2007 Feb;64(2):204-14. Epub 2006 Dec 19.

PMID:
17177088
18.

Source-sink dynamics of virulence evolution.

Sokurenko EV, Gomulkiewicz R, Dykhuizen DE.

Nat Rev Microbiol. 2006 Jul;4(7):548-55. Review.

PMID:
16778839
19.

A modest model explains the distribution and abundance of Borrelia burgdorferi strains.

Brisson D, Dykhuizen DE.

Am J Trop Med Hyg. 2006 Apr;74(4):615-22.

20.

ospC diversity in Borrelia burgdorferi: different hosts are different niches.

Brisson D, Dykhuizen DE.

Genetics. 2004 Oct;168(2):713-22.

21.

Evolution of specialists in an experimental microcosm.

Dykhuizen DE, Dean AM.

Genetics. 2004 Aug;167(4):2015-26.

22.

Evolutionary genomics of ecological specialization.

Zhong S, Khodursky A, Dykhuizen DE, Dean AM.

Proc Natl Acad Sci U S A. 2004 Aug 10;101(32):11719-24. Epub 2004 Aug 2.

23.

Selection footprint in the FimH adhesin shows pathoadaptive niche differentiation in Escherichia coli.

Sokurenko EV, Feldgarden M, Trintchina E, Weissman SJ, Avagyan S, Chattopadhyay S, Johnson JR, Dykhuizen DE.

Mol Biol Evol. 2004 Jul;21(7):1373-83. Epub 2004 Mar 24.

PMID:
15044596
24.

SIZE DOESN'T MATTER: MICROBIAL SELECTION EXPERIMENTS ADDRESS ECOLOGICAL PHENOMENA.

Feldgarden M, Stoebel DM, Brisson D, Dykhuizen DE.

Ecology. 2003 Jul;84(7):1679-1687.

25.

Enterobacterial adhesins and the case for studying SNPs in bacteria.

Weissman SJ, Moseley SL, Dykhuizen DE, Sokurenko EV.

Trends Microbiol. 2003 Mar;11(3):115-7. Review.

PMID:
12648942
26.
28.

Clonal and pathotypic analysis of archetypal Escherichia coli cystitis isolate NU14.

Johnson JR, Weissman SJ, Stell AL, Trintchina E, Dykhuizen DE, Sokurenko EV.

J Infect Dis. 2001 Dec 15;184(12):1556-65. Epub 2001 Nov 1.

PMID:
11740731
29.

The implications of a low rate of horizontal transfer in Borrelia.

Dykhuizen DE, Baranton G.

Trends Microbiol. 2001 Jul;9(7):344-50. Review.

PMID:
11435109
30.
31.

Yersinia pestis: an instant species?

Dykhuizen DE.

Trends Microbiol. 2000 Jul;8(7):296-8. No abstract available.

PMID:
10878759
32.

Recombinant chimeric Borrelia proteins for diagnosis of Lyme disease.

Gomes-Solecki MJ, Dunn JJ, Luft BJ, Castillo J, Dykhuizen DE, Yang X, Glass JD, Dattwyler RJ.

J Clin Microbiol. 2000 Jul;38(7):2530-5.

33.

Methods for estimating gene frequencies and detecting selection in bacterial populations.

Rannala B, Qiu WG, Dykhuizen DE.

Genetics. 2000 Jun;155(2):499-508. Erratum in: Genetics 2001 Jul;158(3):1387.

34.

Infection with multiple strains of Borrelia burgdorferi sensu stricto in patients with Lyme disease.

Seinost G, Golde WT, Berger BW, Dunn JJ, Qiu D, Dunkin DS, Dykhuizen DE, Luft BJ, Dattwyler RJ.

Arch Dermatol. 1999 Nov;135(11):1329-33.

PMID:
10566830
35.

Response from sokurenko and dykhuizen

Sokurenko EV, Dykhuizen DE.

Trends Microbiol. 1999 Jul;7(7):272. No abstract available.

PMID:
10390636
36.

Four clones of Borrelia burgdorferi sensu stricto cause invasive infection in humans.

Seinost G, Dykhuizen DE, Dattwyler RJ, Golde WT, Dunn JJ, Wang IN, Wormser GP, Schriefer ME, Luft BJ.

Infect Immun. 1999 Jul;67(7):3518-24.

37.

Pathoadaptive mutations: gene loss and variation in bacterial pathogens.

Sokurenko EV, Hasty DL, Dykhuizen DE.

Trends Microbiol. 1999 May;7(5):191-5.

PMID:
10354593
38.

Genetic diversity of ospC in a local population of Borrelia burgdorferi sensu stricto.

Wang IN, Dykhuizen DE, Qiu W, Dunn JJ, Bosler EM, Luft BJ.

Genetics. 1999 Jan;151(1):15-30.

39.

Pathogenic adaptation of Escherichia coli by natural variation of the FimH adhesin.

Sokurenko EV, Chesnokova V, Dykhuizen DE, Ofek I, Wu XR, Krogfelt KA, Struve C, Schembri MA, Hasty DL.

Proc Natl Acad Sci U S A. 1998 Jul 21;95(15):8922-6.

40.

Santa Rosalia revisited: why are there so many species of bacteria?

Dykhuizen DE.

Antonie Van Leeuwenhoek. 1998 Jan;73(1):25-33.

PMID:
9602276
41.
42.

Multiple infections of Ixodes scapularis ticks by Borrelia burgdorferi as revealed by single-strand conformation polymorphism analysis.

Guttman DS, Wang PW, Wang IN, Bosler EM, Luft BJ, Dykhuizen DE.

J Clin Microbiol. 1996 Mar;34(3):652-6.

43.

Detecting selective sweeps in naturally occurring Escherichia coli.

Guttman DS, Dykhuizen DE.

Genetics. 1994 Dec;138(4):993-1003.

44.

Clonal divergence in Escherichia coli as a result of recombination, not mutation.

Guttman DS, Dykhuizen DE.

Science. 1994 Nov 25;266(5189):1380-3.

PMID:
7973728
45.

Borrelia burgdorferi is clonal: implications for taxonomy and vaccine development.

Dykhuizen DE, Polin DS, Dunn JJ, Wilske B, Preac-Mursic V, Dattwyler RJ, Luft BJ.

Proc Natl Acad Sci U S A. 1993 Nov 1;90(21):10163-7.

46.

THE INCREASED POTENTIAL FOR SELECTION OF THE LAC OPERON OF ESCHERICHIA COLI.

Silva PJN, Dykhuizen DE.

Evolution. 1993 Jun;47(3):741-749. doi: 10.1111/j.1558-5646.1993.tb01230.x.

PMID:
28567900
47.

Chemostats used for studying natural selection and adaptive evolution.

Dykhuizen DE.

Methods Enzymol. 1993;224:613-31. No abstract available.

PMID:
8264415
48.

Experimental evolution: Replicating history.

Dykhuizen DE.

Trends Ecol Evol. 1992 Aug;7(8):250-2. doi: 10.1016/0169-5347(92)90167-A. No abstract available.

PMID:
21236021
49.

Recombination in Escherichia coli and the definition of biological species.

Dykhuizen DE, Green L.

J Bacteriol. 1991 Nov;173(22):7257-68.

50.

Quantifying the risks of invasion by genetically engineered organisms.

Kim J, Ginzburg LR, Dykhuizen DE.

Biotechnology. 1991;15:193-214. Review. No abstract available.

PMID:
2009381

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