Zur Hauptnavigation / To main navigation

Zur Sekundärnavigation / To secondary navigation

Zum Inhalt dieser Seite / To the content of this page

Sekundärnavigation / Secondary navigation

Inhaltsbereich / Content

Micah Dunthorn

Micah Dunthorn

Appointments

2012-present Emmy Noether Independent Junior Research Group Leader, University of Kaiserslautern, Germany
2010-2012 Alexander von Humboldt Postdoctoral Fellow, University of Kaiserslautern, Germany
2009-2010 Faculty of Biology Postdoctoral Fellow, University of Kaiserslautern, Germany
2003 Visiting Professor, Universidad San Francisco de Quito, Ecuador
   

Education

Ph.D. 2009 University of Massachusetts Amherst; thesis: Ciliate biodiversity and phylogenetic reconstruction assessed by multiple molecular markers
M.S. 2002 University of Missouri St. Louis; thesis: Anatomy and palynology of Mammea L. (Clusiaceae)
B.A. 2000 George Mason University, with Honors

Publications

Forster, D., L. Bittner, S. Karkar, M. Dunthorn, S. Romac, S. Audic, P. Lopez, T. Stoeck, E. Bapteste (submitted). Testing ecological theories with sequence similarity networks: marine ciliates exhibit similar geographic dispersal patterns as multicellular organisms. 

 

Filker, S., A. Gimmler, M. Dunthorn, F. Mahé, T. Stoeck (in revision). Deep sequencing uncovers high and substantial novel diversity in protistan plankton of solar saltern ponds. Extremophiles.

 

Mahé, F., J. Mayor, J. Bunge, J. Chi, T. Siemensmeyer, T. Stoeck, B. Wahl, T. Paprotka, S. Filker, M. Dunthorn (in revision). Comparing high-throughput platforms for sequencing the hyper-variable V4 region in environmental eukaryotic diversity surveys. Journal of Eukaryotic Microbiology.

 

Mahé, F., T. Rognes, C. Quince, C. de Vargas, M. Dunthorn (2014). Swarm: a fast and robust clustering method for amplicon-based studies. PeerJ[C++ version]

 

Dunthorn, M., T. Stoeck, J. Clamp, A. Warren, F. Mahé (2014). Ciliates and the rare biosphere: a review. Journal of Eukaryotic Microbiology 61:404-409. [pdf]

 

Dunthorn, M., M. Hall, W. Foissner, T. Stoeck, L.A. Katz (2014). Broad taxon sampling of ciliates using mitochondrial small subunit ribosomal DNA. Acta Protozoologica 53:207-213. [pdf]

 

Filker, S., M. Kaiser, R. Rosselló-Móra, M. Dunthorn, G. Lax, T. Stoeck. (2014). Candidatus Haloectosymbiotes riaformosensis (Halobacteriaceae), an archaeal ectosymbiont of the hypersaline ciliate Platynematum salinarumSystematic and Applied Microbiology 37:244-251. [pdf]

 

Chi, J., M. Parrow, M. Dunthorn (2014). Cryptic sex in Symbiodinium (Alveolata, Dinoflagellata) is supported by an inventory of meiosis genes. Journal of Eukaryotic Microbiology 61:322-327. [pdf]

 

Stoeck, T., E. Przybos, M. Dunthorn (2014). The D1-D2 region of the large subunit ribosomal DNA as barcode for ciliates. Molecular Ecology Resources 14:458-468. [pdf]

 

Logares, R., S. Audic, D. Bass, L. Bittner, C. Boutte, R. Christen, J.-M. Claverie, J. Decelle, J. Dolan, M. Dunthorn, B. Edvardsen, A. Gobet, W. Kooistra, F. Mahé, F. Not, H. Ogata, J. Pawlowski, M.C. Pernice, S. Romac, K. Shalchian-Tabrizi, N. Simon, T. Stoeck, S. Santini, R. Siano, P. Wincker, A. Zingone, T. Richards, C. de Vargas, R. Massana (2014). Patterns of rare and abundant marine microbial eukaryotes. Current Biology 24:813-821. [pdf]

 

Dunthorn, M., J. Otto, S.A. Berger, A. Stamatakis, F. Mahé, S. Romac, C. de Vargas, S. Audic, BioMarKs Consortium (= B. Edvardsen, R. Massana, F. Not, N. Simon, A. Zingone), A. Stock, F. Kauff, T. Stoeck (2014). Placing environmental next-generation sequencing amplicons from microbial eukaryotes into a phylogenetic context. Molecular Biology and Evolution 31:993-1009. [pdf]

 

Chi, J., F. Mahé, J. Loidl, J. Logsdon, M. Dunthorn (2014). Meiosis gene inventory of four ciliates reveals the prevalence of a synaptonemal complex-independent crossover pathway. Molecular Biology and Evolution 31:660-672. [pdf]

 

Vďačnýa, P., H.-W. Breiner, V. Yashchenko, M. Dunthorn, T. Stoeck, W. Foissner (2014). The chaos prevails: molecular phylogeny of the Haptoria (Ciliophora, Litostomatea). Protist 165: 93–111. [pdf]

 

Foissner, W., W.A. Bourland, K.W. Wolf, T. Stoeck, M. Dunthorn (2014). New SSU-rDNA gene sequences for eleven colpodeans (Ciliophora, Colpodea) and description of Apocyrtolophosis nov. gen. European Journal of Protistology 50:40-46. [pdf]

 

Zhan, Z., T. Stoeck, M. Dunthorn, K. Xu (2014). Identification of a pathogenic ciliate Pseudocohnilembus persalinus (Oligohymenophorea: Scuticociliatia) by fluorescence in situ hybridization. European Journal of Protistology 50:16-24. [pdf]

 

Zhan, Z., K. Xu, M. Dunthorn (2013). Evaluating molecular support for and againt the monophyly of the Peritrichia and phylogenetic relationships in the Mobilida (Ciliophora, Oligohymenophorea). Zoologica Scripta 42:213-226. [pdf]

 

Guillou L., D. Bachar, S. Audic, D. Bass, C. Berney, L. Bittner, C. Boutte, G. Burgaud, C. de Vargas, J. Decelle, J. del Campo, J.R. Dolan, M. Dunthorn, B. Edvardsen, M. Holzmann, W.H.C.F. Kooistra, E. Lara, N. Lebescot, R. Logares, F. Mahé, R. Massana, M. Montresor, R. Morard, F. Not, J. Pawlowski, I. Probert, A.-L. Sauvadet, R. Siano, T. Stoeck, D. Vaulot Daniel, P. Zimmermann, R. Christen (2013). The Protist Ribosomal Reference Database (PR2): a catalog of unicellular eukaryote small subunit rRNA sequences with curated taxonomy. Nucleic Acids Research 41:D597-D604. [pdf]

 

Lipps, J.H., T. Stoeck, M. Dunthorn (2013). Fossil tintinnids. In Dolan, J., D. Montagnes, S. Agatha, W. Coats, D. Stoecker (Eds.), Biology and ecology of tintinnid ciliates: models for marine plankton. Blackwell-Wiley, pp. 186-197. [pdf]

 

Pawlowski, J., S. Audic, S. Adl,  D. Bass, L. Belbahri, C. Berney, S.S. Bowser, I. Cepicka, J. Decelle, M. Dunthorn, A.M. Fiore-Donno, G. Gile, M. Holzmann, R. Jahn, M. Jirků, P.J. Keeling, M. Kostka, A. Kudryavtsev, E. Lara, J. Lukeš, D.G. Mann, E.A.D. Mitchell, F. Nitsche, M. Romeralo, G.W. Saunders, A.G.B. Simpson, A.V. Smirnov, J. Spouge, R.F. Stern, T. Stoeck, J. Zimmermann, D. Schindel, C. de Vargas (2012). CBOL Protist Working Group: barcoding eukaryotic richness beyond the animal, plant and fungal kingdoms. PLoS Biology e:1001419. [pdf]

 

Dunthorn, M., W. Foissner, L.A. Katz, T. Stoeck (2012). Congruence and indifference between two molecular markers for understanding oral evolution in the Marynidae sensu lato (Ciliophora, Colpodea). European Journal of Protistology 48:297-304. [pdf]

 

Adl, S.M., A.G.B. Simpson, C.E. Lane, J. Lukeš, D. Bass, S.S. Bowser, M.W. Brown, F. Burki, M. Dunthorn, V. Hampl, A. Heiss, M. Hoppenrath, E. Lara, L. Le Gall, D.H. Lynn, H. McManus, E.A.D. Mitchell, S.E. Mozley-Stanridge, L.W. Parfrey, J. Pawloski, S. Rueckert, L. Shadwick, C. Schoch, A. Smirnov, F. W. Spiegel (2012). The revised classification of the eukaryotes. Journal of Eukaryotic Microbiology 59:429-493. [pdf]

 

Dunthorn, M., T. Stoeck, K. Wolf, H.-W. Breiner, W. Foissner (2012). Diversity and endemism of ciliates inhabiting Neotropical phytotelmata. Systematics and Biodiversity 10: 195-205. [pdf]

 

Huang, J., M. Dunthorn, W. Song (2012). Expanding character sampling for the molecular phylogeny of euplotid ciliates (Protozoa, Ciliophora) using three markers, with a focus on the family Uronychiidae. Molecular Phylogenetics and Evolution 63:598-605. [pdf]

 

Trueba, G., M. Dunthorn (2012). Many neglected tropical diseases may have originated in the Paleolithic or before: new insights from genetics. PLoS Neglected Tropical Diseases 6:e1393. [pdf]

 

Dunthorn, M., L.A. Katz. (2012). Secretive ciliates and putative asexuality in microbial eukaryotes. In Schaechter, M. (Ed), Eukaryotic microbes. Academic Press: Amsterdam pp. 227-233. 

 

Dunthorn, M., J. Kleir, J. Bunge, T. Stoeck (2012). Comparing the hyper-variable V4 and V9 regions for assessment of ciliate environmental diversity. Journal of Eukaryotic Microbiology 59:185-187. [pdf]

 

Katz, L.A., J. DeBerardinis, M. Hall, A.M. Kovner, M. Dunthorn, S.V. Muse (2011). Heterogeneous rates of molecular evolution between cryptic species of the ciliate morphospecies Chilodonella uncinata. Journal of Molecular Evolution 73:266-272. [pdf]

 

Foissner, W., T. Stoeck, S. Agatha, M. Dunthorn (2011). Intraclass evolution and classification of the Colpodea (Ciliophora). Journal of Eukaryotic Microbiology 58:397-415. [pdf]

 

Nebel, M., C. Pfabel, A. Stock, M. Dunthorn, T. Stoeck (2011). Delimiting operational taxonomic units for assessing ciliate environmental diversity using small-subunit rRNA gene sequences. Environmental Microbiology Reports 3:154-158. [pdf]

 

Dunthorn, M., W. Foissner, L.A. Katz (2011). Expanding character sampling in ciliate phylogenetic inference using mitochondrial SSU-rDNA as a molecular marker. Protist 162:85-99. [pdf]

 

Yi, Z., M. Dunthorn, W. Song, T. Stoeck (2010). Increasing taxon sampling using both unidentified environmental sequences and identified cultures improves phylogenetic inference in the Prorodontida (Ciliophora, Prostomatea). Molecular Phylogenetics and Evolution 57:937-941. [pdf]

 

Dunthorn, M., J.H. Lipps, T. Stoeck (2010). Reassessment of the Putative Ciliate Fossils Eotintinnopsis, Wujiangella, and Yonyangella from the Neoproterozoic Doushantuo Formation in China. Acta Protozoologica 49:139-144. [pdf]

 

Dunthorn, M., L.A. Katz. (2010). Secretive ciliates and putative asexuality in microbial eukaryotes. Trends in Microbiology 18:183-188. [pdf]

 

Dunthorn, M., M. Eppinger, M.V.J. Schwarz, M. Schweikert. J. Boenigk, L.A. Katz, T. Stoeck (2009). Phylogenetic placement of the Cyrtolophosididae Stokes, 1888 (Ciliophora; Colpodea) and neotypification of Aristerostoma marinum Kahl, 1931. International Journal of Systematic and Evolutionary Microbiology 59:167-180. [pdf]

 

Dunthorn, M. (2009). Foliar anatomy and fiber motifs in Mammea (Clusiaceae). Plant Systematics and Evolution 280: 153-166. [pdf]

 

Dunthorn, M., L.A. Katz (2008). Richness of morphological hypotheses in ciliate systematics allows for detailed assessment of homology and comparisons with gene trees. Denisia 23:389-394. [pdf]

 

Dunthorn, M., N. Johnson (2008). Los Mecanismos de la Evolución. In Trueba, G., C. Montúfar (Eds.), Big Bang a Dolly, 3rd Ed. Universidad San Francisco de Quito Press: Quito (in Spanish; = The Mechanisms of Evolution) pp. 147-154.

 

Dunthorn, M., W. Foissner, L.A. Katz. (2008). Molecular phylogenetic analysis of the class Colpodea (Phylum Ciliophora) using broad taxon sampling. Molecular Phylogenetics and Evolution 46: 316-327. [pdf]

 

Patterson, D.J., D. Battacharya, J. Cole, M. Dunthorn, J. Logsdon, L.A. Katz, L.W. Parfrey (2007). Classifying protists. Microbiology Today February: 44-45.

 

Parfrey, L.W., E. Barbero, E. Lasser, M. Dunthorn, D. Bhattacharya, D.J. Patterson, L.A. Katz. (2006). Evaluating support for the current classification of eukaryotic diversity. PLoS Genetics 2:e220. [pdf]

 

Dunthorn, M. (2004). Cryptic dioecy in Mammea (Clusiaceae). Plant Systematics and Evolution 249: 191-196. [pdf]

Invited Talks

2014 “Barcoding and ciliates,” Joint meeting of the International Research Coordination Network for Biodiversity of Ciliates and British Society of Protist Biology, London, England
2013 Meiotic pathways in the alveolates: microbial eukaryotes with diverse genome architectures,” Department of Chromosome Biology, Max F. Perutz Laboratories, University of Vienna, Vienna, Austria
2013 Ciliates and the rare biosphere: a review,” International Congress of Protistology, Vancouver, Canada
2013 “Placing short environmental next generation sequencing amplicons from microbial eukaryotes into a phylogenetic context,” Joint meeting of the British Society of Protist Biology and the Linnean Society of London, London, England
2012 Keynote Lecture: “Placing short environmental next generation sequences into a phylogenetic context: ciliates as an example,” International Society of Protistologists North American Section Meeting, Durham, North Carolina
2011 “Ciliate diversity and biogeography,” Université de Neuchâtel, Switzerland
2008 “Evolutionary genetics of (a)sexuality,” Universidad San Francisco de Quito, Ecuador

Contributed Talks

2012 Dunthorn, M., T. Stoeck, “A marine environmental pyrosequencing view of traditionally terrestrial and freshwater colpodean ciliates,” German Society of Protozoologists, Wuppertal, Germany
2010 Dunthorn, M., A. Behnke, T. Stoeck, “Ciliate diversity in Oslo Fjord and Naples Bay assessed by massively parallel pyrosequencing,” International Society of Protistologists, Canterbury, England
2010 Dunthorn, M., J. Kleir, W. Foissner, T. Stoeck, “Using two independent molecular markers to assess phylogenetic relationships of new Colpodea isolates,” German Society of Protozoologists, Düsseldorf, Germany
2009 Dunthorn, M., W. Foissner, L.A. Katz, “Expanding character sampling in ciliate phylogenetic reconstruction through analyses of mitochondrial sequences,” Society for the Study of Evolution, Moscow, Idaho
2008 Dunthorn, M., “A phylogenetic classification of colpodean ciliates,” International Society for Phylogenetic Nomenclature, Halifax, Nova Scotia
2008 Dunthorn, M., L.A. Katz “Mitochondrial small subunit ribosomal DNA as a molecular marker for higher-level systematics in colpodean and spirotrich ciliates,” International Society of Protistologists, and the International Society for Evolutionary Protistology, Halifax, Nova Scotia
2006 Dunthorn, M., W. Foissner, L.A. Katz, “Extensive pararphyly within the class Colpodea,” New England Molecular Evolutionary Biologists, Amherst, Massachusetts
2006 Dunthorn, M., W. Foissner, L.A. Katz, “Problems and prospects for the phylogenetic resolution of the class Colpodea (Ciliophora),” German Society of Protozoologists, Berlin, Germany

Posters

2014 Mahé, F., T. Rognes, C. Quince, C. de Vargas, M. Dunthorn, Swarm: fast & exact amplicon clustering,” European Conference on Computational Biology, Strasbourg, France
2014 Trautmann, I., F. Mahé, M. Dunthorn, “Estimation of ribosomal RNA copy number in ciliates using quantitative real-time PCR (qPCR), Joint meeting of the International Research Coordination Network for Biodiversity of Ciliates and British Society of Protist Biology, London, England
2014 Dunthorn, M., M.W. Parrow, J. Chi, “Cryptic sex in Symbiodinium (Alveolata, Dinoflagellata) is supported by an inventory of meiosis genes”, German Society of Protozoologists, Essen, Germany
2008 Dunthorn, M., L.A. Katz, “Are colpodean ciliates scandalous?”, International Society of Protistologists, and the International Society for Evolutionary Protistology, Halifax, Nova Scotia
2007 Dunthorn, M., L.A. Katz, “Reassessment of the order Cyrtolophosidida and subclass Oligotrichia (phylum Ciliophora) based on broader taxon and molecular sampling,” FASEB Ciliate Molecular Biology, Tucson, Arizona
2007 Dunthorn, M., W. Foissner, L.A. Katz, “Reassessment of the order Cyrtolophosidida and subclass Oligotrichia (phylum Ciliophora) based on broader taxon sampling,” Society of Molecular Biology and Evolution, Halifax, Nova Scotia
2007 Dunthorn, M., W. Foissner, L.A. Katz, “Molecular phylogenetic analysis of class Colpodea (Phylum Ciliophora) using increased taxon sampling,” Thinking Small: Microbial Diversity and Its Role in Conservation, American Museum of Natural History, New York, New York
2006 Dunthorn, M., W. Foissner, L.A. Katz, “Monophyly and paraphyly within the class Colpodea (Phylum Ciliophora,” Society of Protozoologists, Troy, New York
2004 Dunthorn, M., L.A. Katz, “Morphological and molecular analysis of bromeliad-inhabiting ciliates in Ecuador,” International Society of Protozoologists, Smithfield, Rhode Island

Research Grants

2012 Deutsche Forschungsgemeinschaft Emmy Noether-Programme Independent Junior Research Group, grant DU1319/1-1

Fellowships and Awards

2012 R. P. Hall Fund, International Society of Protistologists
2010 Alexander von Humboldt Foundation Research Fellowship for Postdoctoral Researchers
2010 Travel Award, International Society of Protistologists
2008 International Travel Award for Young Scholars, Society for the Study of Evolution
2008 Holz-Connor Travel Grant, International Society of Protistologists
2006 Graduate Student Travel Grant, University of Massachusetts Graduate Program
2005 Mini-PEET Award, Society of Systematic Biologists
2004 Graduate Research Award, Society of Systematic Biologists
2004 Travel Grant, International Society of Protozoologists
2003 Graduate Student Fellowship, Massachusetts Space Grant Consortium
2003 Travel Grant, Fourth International Symbiosis Society Congress

Teaching Experience

Winter 2013/2014 Lecture: Diversity, Evolution, and Ecology of Microbial Eukaryotes, University of Kaiserslautern
Winter 2013/2014 Literature Seminar: Sex in Evolutionary Theory, University of Kaiserslautern
Winter 2012/2013 Lecture: Diversity, Evolution, and Ecology of Microbial Eukaryotes, University of Kaiserslautern
Winter 2012/2013 Literature Seminar: Sex in Evolutionary Theory, University of Kaiserslautern
Winter 2011/2012 Literature Seminar: Molekulare Biodiversitätsforschung an marinen eukaryotischen Mikroorganismen, University of Kaiserslautern
Winter 2010/2011 Literature Seminar: Molekulare Biodiversitätsforschung an marinen eukaryotischen Mikroorganismen, University of Kaiserslautern
Fall 2008 Cosmos to Humanity—From the Big Bang to the Space Age, University of Massachusetts Amherst, Teaching Assistant
Spring 2008 Cosmos to Humanity—From the Big Bang to the Space Age, University of Massachusetts Amherst, Teaching Assistant
Fall 2007 Cosmos to Humanity—From the Big Bang to the Space Age, University of Massachusetts Amherst, Teaching Assistant
Spring 2004 Environmental Evolution, University of Massachusetts Amherst, Teaching Assistant
Fall 2003 Environmental Evolution, University of Massachusetts Amherst, Teaching Assistant
Fall 2002 Systematic Theory, Universidad San Francisco de Quito, Ecuador, Lecturer

Professional Services

2012-2016 Steering Committee, U.S.A. National Science Foundation funded Research Coordination Network for Biodiversity of Ciliates
2012-2014 Strategic Planning Committee, International Society of Protistologists
2011-2012 Nominating Committee, International Society of Protistologists
2010-present Associate Editor, International Journal of Systematic and Evolutionary Microbiology
2010-2012 Council Member-at-Large, International Society of Phylogenetic Nomenclature
2005 Co-organizer of First World Summit on Evolution, Galapagos Islands, Ecuador

Referee for the peer reviewed publications: Acta Protozoologica, Biological Bulletin, BMC Evolutionary Biology, Chinese Journal of Oceanology and Limnology, Ecological Indicators, Environmental Microbiology, European Journal of Protistology, International Journal of Systematic and Evolutionary Microbiology, FEMS Microbiology Ecology, International Journal of Food Microbiology, ISME Journal, Journal of Eukaryotic Microbiology, Journal of Foraminiferal Research, Journal of the Marine Biological Association of the United Kingdom, Journal of Ocean University of China, Marine Biology Research, Molecular Ecology, Molecular Phylogenetics and Evolution, PLoS One, Polar Biology, Protist, Systematics and Biodiversity, Systematic Parasitology, Zoologica Scripta, Zoological Journal of the Linnean Society, and Zootaxa