People in the lab

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 Vincent Denef, Principal investigator

 Focus:  Ecoevolutionary impacts of invasive species on
 freshwater microbial communities

Highslide JS

 Office address: 1141 Kraus Natural Science Building
 Tel: +1 (734) 764 6481
 E-mail V. Denef   

First steps: University of Leuven, Belgium



2012 - … : Assistant Professor, Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA.
2005 – 2011: Post-doctoral researcher, Banfield Laboratory, University of California Berkeley, USA.
2001 – 2005: Ph.D. in Applied Biological Sciences, LabMET, Universiteit Gent, Belgium.
2000 – 2005: Visiting Scholar at the Center for Microbial Ecology, Michigan State University, USA.
1996 – 2001: Bachelor/Master Bio-engineering, magna cum laude, University of Leuven, Belgium.
2008: Teaching assistant, NSF International Antarctic Biology Course, McMurdo Station, Antarctica.
2003: Advanced Bacterial Genetics Summer Course (Cold Spring Harbor Laboratory, NY, USA)
2002: Microbial Diversity Summer Course (Marine Biological Laboratory, Woods Hole, MA, USA).


Selected Publications

Denef V.J., J.F. Banfield. 2012. In situ evolutionary rate measurements show ecological success of recently emerged bacterial hybrids. Science 336(6080):462-6    Pubmed

Morowitz, M.J., V.J. Denef, E. Costello, B. Thomas, D.A. Relman, J.F. Banfield. 2011. Strain-resolved community genomic analysis of gut microbial colonization in a premature infant. Proc Natl Acad Sci U S A 108(3): 1128–1133    Pubmed

Denef, V.J., Mueller, R.S., and Banfield J.F. 2010. Winogradsky review: AMD biofilms: using model communities to study microbial evolution and ecological complexity in nature. ISME J. 4(5):599-610.   Pubmed

Denef, V.J., L. Kalnejais, P., Mueller, R.S., Wilmes, B. Baker, Brian C. Thomas, N.C. VerBerkmoes, R.L. Hettich, and J.F. Banfield. 2010. Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities. Proc Natl Acad Sci U S A 107(6):2383-90.   Pubmed

Denef, V.J., N.C. VerBerkmoes, M.B. Shah, P. Abraham, M. Lefsrud, R.L. Hettich, and J.F. Banfield. 2009. Proteomics-inferred genome typing (PIGT) demonstrates inter-population recombination as a strategy for environmental adaptation. Environ Microbiol. 11(2), 313-325.   Pubmed

 Marian L. Schmidt, PhD student (2012-)

 Focus: Microbial Ecology of freshwater lakes

Highslide JS

 Office address: 1141 Kraus Natural Science Building
 E-mail M. Schmidt   

First steps:

Hampshire College, Amherst, MA


2012 - … : PhD student, Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA.
July 2011- present: Academic Research Fellow, Harvard University Earth and Planetary Science Department, Cambridge, MA
2007-2011: Bachelor of Arts, Hampshire College, Amherst, MA - Microbiology and Global Health (focus on environmentalmicrobiology)
Summer 2009, Fall 2010: Research Intern, NSF’s Research Experience for Undergraduates, University of Nevada Las Vegas, Las Vegas, NV
Summer 2010: Research Intern, NSF’s Research Experience for Undergraduates,University of Minnesota Twin Cities, Minneapolis and St. Paul, MN
January 2011, Fall 2009, Fall 2008: Teaching assistant, Hampshire College Natural Sience Department, Amherst, MA

Selected Publications

Lefèvre, C.T., Viloria, N., Schmidt, M.L., Pósfai, M., Frankel, R.B., and D.A. Bazylinski. (2012) “Novel magnetite-producing magnetotactic bacteria belonging to the Gammaproteobacteria,” ISME J: 6:440-450.   Pubmed

Lefèvre, C.T., Abreu, F., Schmidt, M.L., Lins, U., Frankel, R.B., Hedlund, B.P., and D.A. Bazylinski. (2010) “Moderately thermophilic magnetotactic acteria from hot springs in Nevada,” Applied and Environmental Microbiology 76: 3740 – 3743.    Pubmed

 Edna Chiang, Undergraduate researcher (2012-)

 Focus: Microbial Ecology of freshwater Verrucomicrobia

Highslide JS

 Office address: 1141 Kraus Natural Science Building

First steps:


 Amelia Waters, Undergraduate researcher (2013-)

 Focus: Impact invasive zebra mussels on lake bacteria
 and viruses; Zebra mussel eDNA

 Michelle Berry, Research technician (2014-)

 Focus: Microbial ecology of Lake Erie during cyanobacterial
 blooms; Interactions between aquatic bacteriaand viruses;

 Seana Florida, Undergraduate researcher (2014-)

 Focus: Impact invasive zebra mussels on lake bacteria

 Masanori Fujimoto, Postdoc (2015-)

 Focus: Meta'omics-enabled studies of microbial community
 ecology of Lake Michigan

Lab Alumni - Current position

Joe Batdorff, undergraduate researcher (2014-2015) - student @ UM

Justin Millar, technician (2014) - PhD student @ University of Florida

Michelle Park, undergraduate researcher (2014)

Natalie Imirzian, undergraduate researcher (2013-2014) - undergrad researcher @ UM

Katherine Hunsberger, undergraduate researcher (2012) - technician @ UM

Ann McCarthy, lab manager (2012-2014) - technician @ biotech startup

Selected Publications

Pannu, J., McCarthy A.,. Martin A., Hamouda T., Ciotti S., Ma L., Sutcliffe J., Baker J.R., Jr. (2011) In vitro antibacterial activity of NB-003 against Propionibacterium acnes, Antimicrobial Agents and Chemotherapy, 55: 4211 – 4217   Pubmed

Pannu J., McCarthy, A., Martin, A., Hamouda, T., Ciotti, S., Fothergill, A., Sutcliffe J. (2009) NB-002, a novel nanoemulsion with broad antifungal activity against Dermatophytes, other filamentous fungi, and Candida albicans. Antimicrobial Agents & Chemotherapy, 53: 3273–3279    Pubmed

photo of V. Denef by M. Duhaime