Publications

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2014
Kirchberger PC, Turnsek M, Hunt DE, Haley BJ, Colwell RR, Polz MF, Tarr CL, Boucher Y.  2014.  Vibrio metoecus sp.nov., a close relative of Vibrio cholerae isolated from coastal brackish ponds and clinical specimens.. Int J Syst Evol Microbiol.
2013
Goudenège D, Labreuche Y, Krin E, Ansquer D, Mangenot S, Calteau A, Médigue C, Mazel D, Polz MF, Le Roux F.  2013.  Comparative genomics of pathogenic lineages of Vibrio nigripulchritudo identifies virulence-associated traits.. ISME J. 7(10):1985-96.
Polz MF, Alm EJ, Hanage WP.  2013.  Horizontal gene transfer and the evolution of bacterial and archaeal population structure.. Trends Genet.
Szabó G, Preheim SP, Kauffman KM, David LA, Shapiro J, Alm EJ, Polz MF.  2013.  Reproducibility of Vibrionaceae population structure in coastal bacterioplankton.. ISME J. 7(3):509-19.
2012
Cordero OX, Wildschutte H, Kirkup B, Proehl S, Ngo L, Hussain F, Le Roux F, Mincer T, Polz MF.  2012.  Ecological populations of bacteria act as socially cohesive units of antibiotic production and resistance.. Science. 337(6099):1228-31.
Xue H, Xu Y, Boucher Y, Polz MF.  2012.  High Frequency of a Novel Filamentous Phage, VCY{Phi}, within an Environmental Vibrio cholerae Population. Applied and environmental microbiology. 78(1):28-33.
Wollenberg MS, Preheim SP, Polz MF, Ruby EG.  2012.  Polyphyly of non-bioluminescent Vibrio fischeri sharing a lux-locus deletion. Environmental microbiology. 14(3):655-68.
Shapiro JB, Friedman J, Cordero OX, Preheim SP, Timberlake SC, Szabó G, Polz MF, Alm EJ.  2012.  Population genomics of early events in the ecological differentiation of bacteria.. Science. 336(6077):48-51.
Cordero OX, Ventouras L-A, Delong EF, Polz MF.  2012.  Public good dynamics drive evolution of iron acquisition strategies in natural bacterioplankton populations.. Proc Natl Acad Sci U S A.
Szabo G, Preheim SP, Kauffman KM, David LA, Shapiro J, Alm EJ, Polz MF.  2012.  Reproducibility of Vibrionaceae population structure in coastal bacterioplankton.. ISME J.
Materna AC, Friedman J, Bauer C, David C, Chen S, Huang IB, Gillens A, Clarke SA, Polz MF, Alm EJ.  2012.  Shape and evolution of the fundamental niche in marine Vibrio.. ISME J.
2011
Wang L, Chen S, Vergin KL, Giovannoni SJ, Chan SW, DeMott MS, Taghizadeh K, Cordero OX, Cutler M, Timberlake S et al..  2011.  DNA phosphorothioation is widespread and quantized in bacterial genomes. Proceedings of the National Academy of Sciences of the United States of America. 108(7):2963-8.
Boucher Y, Cordero OX, Takemura A, Hunt DE, Schliep K, Bapteste E, Lopez P, Tarr CL, Polz MF.  2011.  Local mobile gene pools rapidly cross species boundaries to create endemicity within global Vibrio cholerae populations. mBio. 2(2)
Preheim SP, Timberlake S, Polz MF.  2011.  Merging taxonomy with ecological population prediction in a case study of vibrionaceae. Applied and environmental microbiology. 77(20):7195-206.
Preheim SP, Boucher Y, Wildschutte H, David LA, Veneziano D, Alm EJ, Polz MF.  2011.  Metapopulation structure of Vibrionaceae among coastal marine invertebrates. Environ. Microbiol.. 13(1):265-275.
John SG, Mendez CB, Deng L, Poulos B, Kauffman A KM, Kern S, Brum J, Polz MF, Boyle EA, Sullivan MB.  2011.  A simple and efficient method for concentration of ocean viruses by chemical flocculation. Environmental microbiology reports. 3(2):195-202.
2010
Man-Aharonovich D, Philosof A, Kirkup BC, Le Gall F, Yogev T, Berman-Frank I, Polz MF, Vaulot D, Beja O.  2010.  Diversity of active marine picoeukaryotes in the Eastern Mediterranean Sea unveiled using photosystem-II psbA transcripts. ISME Journal. 4:1044–1052.
Wildschutte H, Preheim SP, Hernandez Y, Polz MF.  2010.  O-antigen diversity and lateral transfer of the wbe region among Vibrio splendidus. Environ. Microbiol.. 12(11):2977-2987.
Kirkup BC, Chang L, Chang S, Gevers D, Polz MF.  2010.  Vibrio chromosomes share common history. BMC Microbiol.. 10:137.
2009
Joss MJ, Koenig J, Labbate M, Polz MF, Gillings MR, Stokes HW, Doolittle WF, Boucher Y.  2009.  ACID: annotation of cassette and integron data. BMC Bioinformatics. 10:118.
Fraser C, Alm EJ, Polz MF, Spratt BG, Hanage WP.  2009.  The Bacterial Species Challenge: Making Sense of Genetic and Ecological Diversity. Science. 232(5915):741-746.
Le Roux F, Zouine M, Chakroun N, Binesse J, Saulnier D, Bouchier C, Zidane N, Ma L, Rusniok C, Lajus A et al..  2009.  Genome sequence of Vibrio splendidus: an abundant marine species with a large genotypic diversity. Environ. Microbiol.. 11(8):1959-1970.
Man-Aharonovich D, Tzahor S, Kirkup BC, Yogev T, Berman-Frank I, Polz MF, Béjà O, Mandel-Gutfreund Y.  2009.  A supervised learning approach for taxonomic classification of core-photosystem-II genes and transcripts in the marine environment. BMC Genomics. 10:229.
Tzahor S, Man-Aharonovich D, Kirkup BC, Yogev T, Berman-Frank I, Polz MF, Beja O, Mandel-Gutfreund Y.  2009.  A supervised learning approach for taxonomic classification of core-photosystem-II genes and transcripts in the marine environment. BMC Genomics. 10(229)
2008
Stewart JR, Gast RJ, Fujioka RS, Solo-Gabriele HM, Meschke JS, Amaral-Zettler LA, Del Castillo E, Polz MF, Collier TK, Strom MS et al..  2008.  The coastal environment and human health: Microbial indicators, pathogens, sentinels and reservoirs. Environ. Health. 7:S3Suppl.2.
Hunt DE, Gevers D, Vahora NM, Polz MF.  2008.  Conservation of the chitin utilization pathway in the Vibrionaceae. Applied and Environmental Microbiology. 74(1):44-51.
Stocker R, Seymour JR, Samandani A, Hunt DE, Polz MF.  2008.  Rapic chemotactic response enables marine bacteria to exploit ephemeral microscale nutrient patches. Proc Natl Acad Sci U S A. 105(11):4209-4214.
Hunt DE, David LD, Gevers D, Preheim SP, Alm EJ, Polz MF.  2008.  Resource partitioning and sympatric differentiation among closely related bacterioplankton. Science. 320:1081-1085.
2007
Sabehi G, Kirkup BC, Rozenberg M, Stambler N, Polz MF, Beja O.  2007.  Niche adaptation and spectral tuning in marine proteorhodopsins. ISME Journal. in press
2006
Marcelino LA, Backman V, Donaldson A, Steadman C, Thompson JR, Pacocha-Preheim S, Lien C, Lim E, Veneziano D, Polz MF.  2006.  Accurate identification of low abundant targets amidst similar sequences by revealing hidden correlations oligonucleotide microarray data. Proc. Natl. Acad. Sci. U S A. 103(37):13629-13634.
Klepac-Ceraj V, Ceraj I, Polz MF.  2006.  CLUSTERER: extendable java application for sequence grouping and cluster analysis. Online J. Bioinf.. 7(1):15-21.
Ge Z, Feng Y, Taylor N, Ohtani M, Polz MF, Schauer DB, Fox JG.  2006.  Colonization of Altered Schaedler Flora is influenced by gender, aging and Helicobacter hepaticus infection in the intestine of Swiss Webster mice. Applied and Environmental Microbiology. 72(7):5100-5103.
Thompson JR, Polz MF.  2006.  Dynamics of Vibrio populations and their role in environmental nutrient cycling. The Biology of Vibrios. :190-203.
Hunt DE, Klepac-Ceraj V, Acinas SG, Gauthier C, Bertilsson S, Polz MF.  2006.  Evaluation of 23S rRNA PCR Primers for use in Phylogenetic Studies of Bacterial Diversity. Appl. Environ. Microbiol.. 72(3):2221-2225.
Polz MF, Hunt DE, Preheim SP, Weinreich DM.  2006.  Patterns and mechanisms of genetic and phenotypic differentiation in marine microbes. Phil. Trans. R. Soc. Lond. B. 361:2009-2021.
Luyten YA, Thompson JR, Polz MF, Distel DL.  2006.  Symbiont community composition varies among members of a single host population of the wood-boring bivalve Lyrodus pedicellatus (Bivalvia: Teredinidae). Applied and Environmental Microbiology. 72(1):412-417.
2005
Thompson JR, Marcelino LA, Polz MF.  2005.  Diversity, sources, and detection of human bacterial pathogens in the marine environment. Oceans and Health: Pathogens in the Marine Environment. :29-68.
Thompson JR, Pacocha S, Pharino C, Klepac-Ceraj V, Hunt DE, Benoit J, Sarma-Rupavtarm R, Distel DL, Polz MF.  2005.  Genotypic diversity within a natural coastal bacterioplankton population. Science. 307(5713):1311-1313.
Acinas SG, Sarma-Rupavtarm R, Klepac-Ceraj V, Polz MF.  2005.  PCR-induced sequence artifacts and bias: Insights from comparison of two 16S rRNA clone libraries constructed from the same sample. Applied and Environmental Microbiology. 71(12):8966-8969.
2004
Acinas SG, Marcelino LA, Klepac-Ceraj V, Polz MF.  2004.  Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons. J. Bacteriol.. 186(9):2629-2635.

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