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Function and functional redundancy in microbial systems.

Louca S, Polz MF, Mazel F, Albright MBN, Huber JA, O'Connor MI, Ackermann M, Hahn AS, Srivastava DS, Crowe SA, Doebeli M, Parfrey LW.

Nat Ecol Evol. 2018 Apr 16. doi: 10.1038/s41559-018-0519-1. [Epub ahead of print] Review.


Evolution of a Vegetarian Vibrio: Metabolic Specialization of V. breoganii to Macroalgal Substrates.

Corzett CH, Elsherbini J, Chien DM, Hehemann JH, Henschel A, Preheim SP, Yu X, Alm EJ, Polz MF.

J Bacteriol. 2018 Apr 9. pii: JB.00020-18. doi: 10.1128/JB.00020-18. [Epub ahead of print]


A major lineage of non-tailed dsDNA viruses as unrecognized killers of marine bacteria.

Kauffman KM, Hussain FA, Yang J, Arevalo P, Brown JM, Chang WK, VanInsberghe D, Elsherbini J, Sharma RS, Cutler MB, Kelly L, Polz MF.

Nature. 2018 Feb 1;554(7690):118-122. doi: 10.1038/nature25474. Epub 2018 Jan 24.


High resolution time series reveals cohesive but short-lived communities in coastal plankton.

Martin-Platero AM, Cleary B, Kauffman K, Preheim SP, McGillicuddy DJ, Alm EJ, Polz MF.

Nat Commun. 2018 Jan 18;9(1):266. doi: 10.1038/s41467-017-02571-4.


Exploiting fine-scale genetic and physiological variation of closely related microbes to reveal unknown enzyme functions.

Badur AH, Plutz MJ, Yalamanchili G, Jagtap SS, Schweder T, Unfried F, Markert S, Polz MF, Hehemann JH, Rao CV.

J Biol Chem. 2017 Aug 4;292(31):13056-13067. doi: 10.1074/jbc.M117.787192. Epub 2017 Jun 7.


Natural resource landscapes of a marine bacterium reveal distinct fitness-determining genes across the genome.

Takemura AF, Corzett CH, Hussain F, Arevalo P, Datta M, Yu X, Le Roux F, Polz MF.

Environ Microbiol. 2017 Jun;19(6):2422-2433. doi: 10.1111/1462-2920.13765. Epub 2017 May 26.


Microbial community assembly and evolution in subseafloor sediment.

Starnawski P, Bataillon T, Ettema TJ, Jochum LM, Schreiber L, Chen X, Lever MA, Polz MF, Jørgensen BB, Schramm A, Kjeldsen KU.

Proc Natl Acad Sci U S A. 2017 Mar 14;114(11):2940-2945. doi: 10.1073/pnas.1614190114. Epub 2017 Feb 27.


Accurate Quantification of Laminarin in Marine Organic Matter with Enzymes from Marine Microbes.

Becker S, Scheffel A, Polz MF, Hehemann JH.

Appl Environ Microbiol. 2017 Apr 17;83(9). pii: e03389-16. doi: 10.1128/AEM.03389-16. Print 2017 May 1.


A Mobile Element in mutS Drives Hypermutation in a Marine Vibrio.

Chu ND, Clarke SA, Timberlake S, Polz MF, Grossman AD, Alm EJ.

MBio. 2017 Feb 7;8(1). pii: e02045-16. doi: 10.1128/mBio.02045-16.


Endemicity of the cosmopolitan mesophilic chemolithoautotroph Sulfurimonas at deep-sea hydrothermal vents.

Mino S, Nakagawa S, Makita H, Toki T, Miyazaki J, Sievert SM, Polz MF, Inagaki F, Godfroy A, Kato S, Watanabe H, Nunoura T, Nakamura K, Imachi H, Watsuji TO, Kojima S, Takai K, Sawabe T.

ISME J. 2017 Apr;11(4):909-919. doi: 10.1038/ismej.2016.178. Epub 2017 Jan 3.


Vibrio crassostreae, a benign oyster colonizer turned into a pathogen after plasmid acquisition.

Bruto M, James A, Petton B, Labreuche Y, Chenivesse S, Alunno-Bruscia M, Polz MF, Le Roux F.

ISME J. 2017 Apr;11(4):1043-1052. doi: 10.1038/ismej.2016.162. Epub 2016 Dec 6.


Direct single-cell biomass estimates for marine bacteria via Archimedes' principle.

Cermak N, Becker JW, Knudsen SM, Chisholm SW, Manalis SR, Polz MF.

ISME J. 2017 Mar;11(3):825-828. doi: 10.1038/ismej.2016.161. Epub 2016 Dec 6.


Evidence for Ecological Flexibility in the Cosmopolitan Genus Curtobacterium.

Chase AB, Arevalo P, Polz MF, Berlemont R, Martiny JB.

Front Microbiol. 2016 Nov 22;7:1874. eCollection 2016.


Bacterial evolution: Genomics of metabolic trade-offs.

Polz MF, Cordero OX.

Nat Microbiol. 2016 Oct 26;1(11):16181. doi: 10.1038/nmicrobiol.2016.181. No abstract available.


Adaptive radiation by waves of gene transfer leads to fine-scale resource partitioning in marine microbes.

Hehemann JH, Arevalo P, Datta MS, Yu X, Corzett CH, Henschel A, Preheim SP, Timberlake S, Alm EJ, Polz MF.

Nat Commun. 2016 Sep 22;7:12860. doi: 10.1038/ncomms12860.


A Small Number of Phylogenetically Distinct Clonal Complexes Dominate a Coastal Vibrio cholerae Population.

Kirchberger PC, Orata FD, Barlow EJ, Kauffman KM, Case RJ, Polz MF, Boucher Y.

Appl Environ Microbiol. 2016 Aug 30;82(18):5576-86. doi: 10.1128/AEM.01177-16. Print 2016 Sep 15.


Population genomics of the symbiotic plasmids of sympatric nitrogen-fixing Rhizobium species associated with Phaseolus vulgaris.

Pérez Carrascal OM, VanInsberghe D, Juárez S, Polz MF, Vinuesa P, González V.

Environ Microbiol. 2016 Sep;18(8):2660-76. doi: 10.1111/1462-2920.13415. Epub 2016 Jul 12.


Microbial interactions lead to rapid micro-scale successions on model marine particles.

Datta MS, Sliwerska E, Gore J, Polz MF, Cordero OX.

Nat Commun. 2016 Jun 17;7:11965. doi: 10.1038/ncomms11965.


A genomic comparison of 13 symbiotic Vibrio fischeri isolates from the perspective of their host source and colonization behavior.

Bongrand C, Koch EJ, Moriano-Gutierrez S, Cordero OX, McFall-Ngai M, Polz MF, Ruby EG.

ISME J. 2016 Dec;10(12):2907-2917. doi: 10.1038/ismej.2016.69. Epub 2016 Apr 29.


Oysters and Vibrios as a Model for Disease Dynamics in Wild Animals.

Le Roux F, Wegner KM, Polz MF.

Trends Microbiol. 2016 Jul;24(7):568-580. doi: 10.1016/j.tim.2016.03.006. Epub 2016 Mar 30. Review.


Microbial Speciation.

Shapiro BJ, Polz MF.

Cold Spring Harb Perspect Biol. 2015 Sep 9;7(10):a018143. doi: 10.1101/cshperspect.a018143. Review.


Endosymbionts escape dead hydrothermal vent tubeworms to enrich the free-living population.

Klose J, Polz MF, Wagner M, Schimak MP, Gollner S, Bright M.

Proc Natl Acad Sci U S A. 2015 Sep 8;112(36):11300-5. doi: 10.1073/pnas.1501160112. Epub 2015 Aug 17.


Eco-Evolutionary Dynamics of Episomes among Ecologically Cohesive Bacterial Populations.

Xue H, Cordero OX, Camas FM, Trimble W, Meyer F, Guglielmini J, Rocha EP, Polz MF.

MBio. 2015 May 5;6(3):e00552-15. doi: 10.1128/mBio.00552-15.


Microbial taxonomy in the post-genomic era: rebuilding from scratch?

Thompson CC, Amaral GR, Campeão M, Edwards RA, Polz MF, Dutilh BE, Ussery DW, Sawabe T, Swings J, Thompson FL.

Arch Microbiol. 2015 Apr;197(3):359-70. doi: 10.1007/s00203-014-1071-2. Epub 2014 Dec 23.


Vibrio metoecus sp. nov., a close relative of Vibrio cholerae isolated from coastal brackish ponds and clinical specimens.

Kirchberger PC, Turnsek M, Hunt DE, Haley BJ, Colwell RR, Polz MF, Tarr CL, Boucher Y.

Int J Syst Evol Microbiol. 2014 Sep;64(Pt 9):3208-14. doi: 10.1099/ijs.0.060145-0. Epub 2014 Jun 27.


Comparative biochemical characterization of three exolytic oligoalginate lyases from Vibrio splendidus reveals complementary substrate scope, temperature, and pH adaptations.

Jagtap SS, Hehemann JH, Polz MF, Lee JK, Zhao H.

Appl Environ Microbiol. 2014 Jul;80(14):4207-14. doi: 10.1128/AEM.01285-14. Epub 2014 May 2.


Competition-dispersal tradeoff ecologically differentiates recently speciated marine bacterioplankton populations.

Yawata Y, Cordero OX, Menolascina F, Hehemann JH, Polz MF, Stocker R.

Proc Natl Acad Sci U S A. 2014 Apr 15;111(15):5622-7. doi: 10.1073/pnas.1318943111. Epub 2014 Apr 1.


Ordering microbial diversity into ecologically and genetically cohesive units.

Shapiro BJ, Polz MF.

Trends Microbiol. 2014 May;22(5):235-47. doi: 10.1016/j.tim.2014.02.006. Epub 2014 Mar 13. Review.


Explaining microbial genomic diversity in light of evolutionary ecology.

Cordero OX, Polz MF.

Nat Rev Microbiol. 2014 Apr;12(4):263-73. doi: 10.1038/nrmicro3218. Epub 2014 Mar 3. Review.


Associations and dynamics of Vibrionaceae in the environment, from the genus to the population level.

Takemura AF, Chien DM, Polz MF.

Front Microbiol. 2014 Feb 11;5:38. doi: 10.3389/fmicb.2014.00038. eCollection 2014. Review.


Comparative genomics of pathogenic lineages of Vibrio nigripulchritudo identifies virulence-associated traits.

Goudenège D, Labreuche Y, Krin E, Ansquer D, Mangenot S, Calteau A, Médigue C, Mazel D, Polz MF, Le Roux F.

ISME J. 2013 Oct;7(10):1985-96. doi: 10.1038/ismej.2013.90. Epub 2013 Jun 6.


Horizontal gene transfer and the evolution of bacterial and archaeal population structure.

Polz MF, Alm EJ, Hanage WP.

Trends Genet. 2013 Mar;29(3):170-5. doi: 10.1016/j.tig.2012.12.006. Epub 2013 Jan 15. Review.


Reproducibility of Vibrionaceae population structure in coastal bacterioplankton.

Szabo G, Preheim SP, Kauffman KM, David LA, Shapiro J, Alm EJ, Polz MF.

ISME J. 2013 Mar;7(3):509-19. doi: 10.1038/ismej.2012.134. Epub 2012 Nov 22.


Public good dynamics drive evolution of iron acquisition strategies in natural bacterioplankton populations.

Cordero OX, Ventouras LA, DeLong EF, Polz MF.

Proc Natl Acad Sci U S A. 2012 Dec 4;109(49):20059-64. doi: 10.1073/pnas.1213344109. Epub 2012 Nov 19.


Ecological populations of bacteria act as socially cohesive units of antibiotic production and resistance.

Cordero OX, Wildschutte H, Kirkup B, Proehl S, Ngo L, Hussain F, Le Roux F, Mincer T, Polz MF.

Science. 2012 Sep 7;337(6099):1228-31. doi: 10.1126/science.1219385.


Shape and evolution of the fundamental niche in marine Vibrio.

Materna AC, Friedman J, Bauer C, David C, Chen S, Huang IB, Gillens A, Clarke SA, Polz MF, Alm EJ.

ISME J. 2012 Dec;6(12):2168-77. doi: 10.1038/ismej.2012.65. Epub 2012 Jul 26.


Population genomics of early events in the ecological differentiation of bacteria.

Shapiro BJ, Friedman J, Cordero OX, Preheim SP, Timberlake SC, Szabó G, Polz MF, Alm EJ.

Science. 2012 Apr 6;336(6077):48-51. doi: 10.1126/science.1218198.


High frequency of a novel filamentous phage, VCY φ, within an environmental Vibrio cholerae population.

Xue H, Xu Y, Boucher Y, Polz MF.

Appl Environ Microbiol. 2012 Jan;78(1):28-33. doi: 10.1128/AEM.06297-11. Epub 2011 Oct 21.


Polyphyly of non-bioluminescent Vibrio fischeri sharing a lux-locus deletion.

Wollenberg MS, Preheim SP, Polz MF, Ruby EG.

Environ Microbiol. 2012 Mar;14(3):655-68. doi: 10.1111/j.1462-2920.2011.02608.x. Epub 2011 Oct 9.


Merging taxonomy with ecological population prediction in a case study of Vibrionaceae.

Preheim SP, Timberlake S, Polz MF.

Appl Environ Microbiol. 2011 Oct;77(20):7195-206. doi: 10.1128/AEM.00665-11. Epub 2011 Aug 26.


A simple and efficient method for concentration of ocean viruses by chemical flocculation.

John SG, Mendez CB, Deng L, Poulos B, Kauffman AK, Kern S, Brum J, Polz MF, Boyle EA, Sullivan MB.

Environ Microbiol Rep. 2011 Apr;3(2):195-202.


Local mobile gene pools rapidly cross species boundaries to create endemicity within global Vibrio cholerae populations.

Boucher Y, Cordero OX, Takemura A, Hunt DE, Schliep K, Bapteste E, Lopez P, Tarr CL, Polz MF.

MBio. 2011 Apr 12;2(2). pii: e00335-10. doi: 10.1128/mBio.00335-10. Print 2011.


DNA phosphorothioation is widespread and quantized in bacterial genomes.

Wang L, Chen S, Vergin KL, Giovannoni SJ, Chan SW, DeMott MS, Taghizadeh K, Cordero OX, Cutler M, Timberlake S, Alm EJ, Polz MF, Pinhassi J, Deng Z, Dedon PC.

Proc Natl Acad Sci U S A. 2011 Feb 15;108(7):2963-8. doi: 10.1073/pnas.1017261108. Epub 2011 Feb 1.


Metapopulation structure of Vibrionaceae among coastal marine invertebrates.

Preheim SP, Boucher Y, Wildschutte H, David LA, Veneziano D, Alm EJ, Polz MF.

Environ Microbiol. 2011 Jan;13(1):265-275. doi: 10.1111/j.1462-2920.2010.02328.x. Epub 2010 Sep 1.


O-antigen diversity and lateral transfer of the wbe region among Vibrio splendidus isolates.

Wildschutte H, Preheim SP, Hernandez Y, Polz MF.

Environ Microbiol. 2010 Nov;12(11):2977-87. doi: 10.1111/j.1462-2920.2010.02274.x.


Vibrio chromosomes share common history.

Kirkup BC Jr, Chang L, Chang S, Gevers D, Polz MF.

BMC Microbiol. 2010 May 10;10:137. doi: 10.1186/1471-2180-10-137.


Diversity of active marine picoeukaryotes in the Eastern Mediterranean Sea unveiled using photosystem-II psbA transcripts.

Man-Aharonovich D, Philosof A, Kirkup BC, Le Gall F, Yogev T, Berman-Frank I, Polz MF, Vaulot D, Béjà O.

ISME J. 2010 Aug;4(8):1044-52. doi: 10.1038/ismej.2010.25. Epub 2010 Mar 18.


A supervised learning approach for taxonomic classification of core-photosystem-II genes and transcripts in the marine environment.

Tzahor S, Man-Aharonovich D, Kirkup BC, Yogev T, Berman-Frank I, Polz MF, Béjà O, Mandel-Gutfreund Y.

BMC Genomics. 2009 May 16;10:229. doi: 10.1186/1471-2164-10-229.


ACID: annotation of cassette and integron data.

Joss MJ, Koenig JE, Labbate M, Polz MF, Gillings MR, Stokes HW, Doolittle WF, Boucher Y.

BMC Bioinformatics. 2009 Apr 21;10:118. doi: 10.1186/1471-2105-10-118.


Genome sequence of Vibrio splendidus: an abundant planctonic marine species with a large genotypic diversity.

Le Roux F, Zouine M, Chakroun N, Binesse J, Saulnier D, Bouchier C, Zidane N, Ma L, Rusniok C, Lajus A, Buchrieser C, Médigue C, Polz MF, Mazel D.

Environ Microbiol. 2009 Aug;11(8):1959-70. doi: 10.1111/j.1462-2920.2009.01918.x. Epub 2009 Apr 1.


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