Dr. Jan Meier-Kolthoff
| Phone: | (+49) 0821 - 598 - 2631 |
| Email: | jan.meier-kolthoff@uni-auni-a.de () |
| Room: | 9003 (BCM) |
| Open hours: | by appointment |
| Address: | Alter Postweg 101 (Büro Center Messe), 86159 Augsburg |
CAREER
ACADEMIC POSITIONS
- Since August 2023: Head of the newly established Bioinformatics Core Facility located at the Chair of Biomedical Informatics, Data Mining and Data Analytics (led by Prof. Matthias Schlesner)
- 2014 to 2023: PostDoc / Senior Researcher, Bioinformatics, Department Bioinformatics and Databases, Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig, Germany
- 2014: PhD (Dr. rer. nat.), Biology/Bioinformatics, Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig, Germany, Title: “Comparison of nucleotide and protein sequences for genome-based classification and identification”
- 2011 to 2014: Doctoral student, Biology/Bioinformatics, Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig, Germany
- 2000 to 2007: Diploma, Computer Science (Bioinformatics), Eberhard Karls University Tübingen, Germany
INDUSTRY POSITIONS
- 2007 to 2010: Scientist Bioinformatics, Department of Process Development at Geneart / Life Technologies, Regensburg, Germany
RESEARCH FOCUS
- phylogenomics, genome-based taxonomy of prokaryotes, viruses and fungi
- design, development and establishment of state-of-the-art bioinformatic methods, databases and high-throughput systems
- author of the popular Genome-to-Genome Distance Calculator (GGDC), the Type Strain Genome Server (TYGS) or the Virus Classification and Tree Building Online Resource (VICTOR)
RESEARCH IMPACT
LECTURES AND COURSES
SUMMER SEMESTER 2024
- Bioinformatische Analysen (Vorlesung)
- Anpassungskurs Programmieren in Java
WINTER SEMESTER 2023/24
- Einführung in Data Science und Data Engineering (Vorlesung)
- Übungen zu Einführung in Data Science und Data Engineering
- Einführung in die Algorithmische Mathematik und Informatik (Vorlesung)
- Übungen zu Einführung in die Algorithmische Mathematik und Informatik
REFEREE ACTIVITIES
Working as a reviewer for international scientific journals such as Bioinformatics, Nature Communications, Genome Biology, PLoS Computational Biology, International Journal of Systematic and Evolutionary Microbiology, Viruses or Archives of Microbiology with focus on topics such as genome-based taxonomy, phylogenomics and bioinformatics in microbiology, in general.
PUBLICATIONS
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2024 |
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Michael Menzel, Mihaela Martis-Thiele, Hannah Goldschmid, Alexander Ott, Eva Romanovsky, Janna Siemanowski-Hrach, Lancelot Seillier, Nadina Ortiz Brüchle, Angela Maurer, Kjong-Van Lehmann, Matthias Begemann, Miriam Elbracht, Robert Meyer, Sebastian Dintner, Rainer Claus, Jan Meier-Kolthoff, Eric Blanc, Markus Möbs, Maria Joosten, Manuela Benary, Patrick Basitta, Florian Hölscher, Verena Tischler, Thomas Groß, Oliver Kutz, Rebecca Prause, Doreen William, Kai Horny, Wolfgang Goering, Sugirthan Sivalingam, Arndt Borkhardt, Cornelia Blank, Stefanie Junk, Layal Yasin, Evgeny A. Moskalev, Maria Giulia Carta, Fulvia Ferrazzi, Lars Tögel, Steffen Wolter, Eugen Adam, Uta Matysiak, Tessa Rosenthal, Jürgen Dönitz, Ulrich Lehmann, Gunnar Schmidt, Stephan Bartels, Winfried Hofmann, Steffen Hirsch, Nicola Dikow, Kirsten Göbel, Rouzbeh Banan, Stefan Hamelmann, Annette Fink, Markus Ball, Olaf Neumann, Jan Rehker, Michael Kloth, Justin Murtagh, Nils Hartmann, Phillip Jurmeister, Andreas Mock, Jörg Kumbrink, Andreas Jung, Eva-Maria Mayr, Anne Jacob, Marcel Trautmann, Santina Kirmse, Kim Falkenberg, Christian Ruckert, Daniela Hirsch, Alexander Immel, Wolfgang Dietmaier, Tobias Haack, Ralf Marienfeld, Axel Fürstberger, Jakob Niewöhner, Uwe Gerstenmaier, Timo Eberhardt, Phillip Greif, Silke Appenzeller, Katja Maurus, Julia Doll, Yvonne Jelting, Danny Jonigk, Bruno Märkl, Dieter Beule, David Horst, Anna-Lena Wulf, Daniela Aust, Martin Werner, Kirsten Reuter-Jessen, Philipp Ströbel, Bernd Auber, Felix Sahm, Sabine Merkelbach-Bruse, Udo Siebolts, Wilfried Roth, Silke Lassmann, Frederick Klauschen, Nadine T. Gaisa, Wilko Weichert, Matthias Evert, Sorin Armeanu-Ebinger, Stephan Ossowski, Christopher Schroeder, Christian P. Schaaf, Nisar Malek, Peter Schirmacher, Daniel Kazdal, Nicole Pfarr, Jan Budczies and Albrecht Stenzinger. in press. Benchmarking whole exome sequencing in the German Network for Personalized Medicine. DOI: 10.1016/j.ejca.2024.114306 |
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2023 |
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Peter Simmonds, Evelien M. Adriaenssens, F. Murilo Zerbini, Nicola G. A. Abrescia, Pakorn Aiewsakun, Poliane Alfenas-Zerbini, Yiming Bao, Jakub Barylski, Christian Drosten, Siobain Duffy, W. Paul Duprex, Bas E. Dutilh, Santiago F. Elena, Maria Laura García, Sandra Junglen, Aris Katzourakis, Eugene V. Koonin, Mart Krupovic, Jens H. Kuhn, Amy J. Lambert, Elliot J. Lefkowitz, Małgorzata Łobocka, Cédric Lood, Jennifer Mahony, Jan P. Meier-Kolthoff, Arcady R. Mushegian, Hanna M. Oksanen, Minna M. Poranen, Alejandro Reyes-Muñoz, David L. Robertson, Simon Roux, Luisa Rubino, Sead Sabanadzovic, Stuart Siddell, Tim Skern, Donald B. Smith, Matthew B. Sullivan, Nobuhiro Suzuki, Dann Turner, Koenraad Van Doorslaer, Anne-Mieke Vandamme, Arvind Varsani and Nikos Vasilakis. 2023. Four principles to establish a universal virus taxonomy. DOI: 10.1371/journal.pbio.3001922 |
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Isabel Schober, Boyke Bunk, Gabriela Carril, Heike M. Freese, Nicolás Ojeda, Thomas Riedel, Jan P. Meier-Kolthoff, Markus Göker, Cathrin Spröer, Patricio A. Flores-Herrera, Guillermo Nourdin-Galindo, Fernando Gómez, Constanza Cárdenas, Felipe Vásquez-Ponce, Alvaro Labra, Jaime Figueroa, Jorge Olivares-Pacheco, Ulrich Nübel, Johannes Sikorski, Sergio H. Marshall and Jörg Overmann. 2023. Ongoing diversification of the global fish pathogen Piscirickettsia salmonis through genetic isolation and transposition bursts. DOI: 10.1038/s41396-023-01531-9 |
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2022 |
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Maria del Carmen Montero-Calasanz, Adnan Yaramis, Manfred Rohde, Peter Schumann, Hans-Peter Klenk and Jan P. Meier-Kolthoff. 2022. Genotype–phenotype correlations within the Geodermatophilaceae. DOI: 10.3389/fmicb.2022.975365 |
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Hao Li, Jan P. Meier-Kolthoff, Canxin Hu, Zhongjie Wang, Jun Zhu, Wei Zheng, Yun Tian and Feng Guo. 2022. Panoramic insights into microevolution and macroevolution of a Prevotella copri-containing lineage in primate guts. DOI: 10.1016/j.gpb.2021.10.006 |
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Jan P. Meier-Kolthoff, Joaquim Sardà Carbasse, Rosa L. Peinado-Olarte and Markus Göker. 2022. TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes. DOI: 10.1093/nar/gkab902 |
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Alberto J. Martín-Rodríguez and Jan P. Meier-Kolthoff. 2022. Whole genome-based taxonomy of Shewanella and Parashewanella. DOI: 10.1099/ijsem.0.005438 |
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2021 |
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Doina Ciobanu, Alicia Clum, Steven Ahrendt, William B. Andreopoulos, Asaf Salamov, Sandy Chan, C. Alisha Quandt, Brian Foster, Jan P. Meier-Kolthoff, Yung Tsu Tang, Patrick Schwientek, Gerald L. Benny, Matthew E. Smith, Diane Bauer, Shweta Deshpande, Kerrie Barry, Alex Copeland, Steven W. Singer, Tanja Woyke, Igor V. Grigoriev, Timothy Y. James and Jan-Fang Cheng. 2021. A single-cell genomics pipeline for environmental microbial eukaryotes. DOI: 10.1016/j.isci.2021.102290 |
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Michael E. J. Buhl, Jan P. Meier-Kolthoff and Matthias Marschal. 2021. Prevotella illustrans sp. nov., derived from human oropharyngeal abscess puncture fluid. DOI: 10.1099/ijsem.0.005146 |
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Peter Schumann, Franziska Kalensee, Jialan Cao, Alexis Criscuolo, Dominique Clermont, Johann Michael Köhler, Jan P. Meier-Kolthoff, Meina Neumann-Schaal, Brian J. Tindall and Rüdiger Pukall. 2021. Reclassification of Haloactinobacterium glacieicola as Occultella glacieicola gen. nov., comb. nov., of Haloactinobacterium album as Ruania alba comb. nov, with an emended description of the genus Ruania, recognition that the genus names Haloactinobacterium and Ruania are heterotypic synonyms and description of Occultella aeris sp. nov., a halotolerant isolate from surface soil sampled at an ancient copper smelter. DOI: 10.1099/ijsem.0.004769 |
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David Heidler von Heilborn, Jessica Reinmüller, Georg Hölzl, Jan P. Meier-Kolthoff, Christian Woehle, Magdalena Marek, Bruno Hüttel and André Lipski. 2021. Sphingomonas aliaeris sp. nov., a new species isolated from pork steak packed under modified atmosphere. DOI: 10.1099/ijsem.0.004973 |
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2020 |
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Svetlana N. Dedysh, Petra Henke, Anastasia A. Ivanova, Irina S. Kulichevskaya, Dmitriy A. Philippov, Jan P. Meier-Kolthoff, Markus Göker, Sixing Huang and Jörg Overmann. 2020. 100‐year‐old enigma solved: identification, genomic characterization and biogeography of the yet uncultured Planctomyces bekefii. DOI: 10.1111/1462-2920.14838 |
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Martinique Frentrup, Zhemin Zhou, Matthias Steglich, Jan P. Meier-Kolthoff, Markus Göker, Thomas Riedel, Boyke Bunk, Cathrin Spröer, Jörg Overmann, Marion Blaschitz, Alexander Indra, Lutz von Müller, Thomas A. Kohl, Stefan Niemann, Christian Seyboldt, Frank Klawonn, Nitin Kumar, Trevor D. Lawley, Sergio García-Fernández, Rafael Cantón, Rosa del Campo, Ortrud Zimmermann, Uwe Groß, Mark Achtman and Ulrich Nübel. 2020. A publicly accessible database for Clostridioides difficile genome sequences supports tracing of transmission chains and epidemics. DOI: 10.1099/mgen.0.000410 |
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Anton Hördt, Marina García López, Jan P. Meier-Kolthoff, Marcel Schleuning, Lisa-Maria Weinhold, Brian J. Tindall, Sabine Gronow, Nikos C. Kyrpides, Tanja Woyke and Markus Göker. 2020. Analysis of 1,000+ type-strain genomes substantially improves taxonomic classification of Alphaproteobacteria. DOI: 10.3389/fmicb.2020.00468 |
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Başak Öztürk, Johannes Werner, Jan P. Meier-Kolthoff, Boyke Bunk, Cathrin Spröer and Dirk Springael. 2020. Comparative genomics suggests mechanisms of genetic adaptation toward the catabolism of the phenylurea herbicide linuron in Variovorax. DOI: 10.1093/gbe/evaa085 |
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Nikolaos Strepis, Henry D. Naranjo, Jan P. Meier-Kolthoff, Markus Göker, Nicole Shapiro, Nikos Kyrpides, Hans-Peter Klenk, Peter J. Schaap, Alfons J. M. Stams and Diana Z. Sousa. 2020. Genome-guided analysis allows the identification of novel physiological traits in Trichococcus species. DOI: 10.1186/s12864-019-6410-x |
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Aidan C. Parte, Joaquim Sardà Carbasse, Jan P. Meier-Kolthoff, Lorenz C. Reimer and Markus Göker. 2020. List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. DOI: 10.1099/ijsem.0.004332 |
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2019 |
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Marina García-López, Jan P. Meier-Kolthoff, Brian J. Tindall, Sabine Gronow, Tanja Woyke, Nikos C. Kyrpides, Richard L. Hahnke and Markus Göker. 2019. Analysis of 1,000 type-strain genomes improves taxonomic classification of bacteroidetes. DOI: 10.3389/fmicb.2019.02083 |
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Vera Bischoff, Boyke Bunk, Jan P. Meier-Kolthoff, Cathrin Spröer, Anja Poehlein, Marco Dogs, Mary Nguyen, Jörn Petersen, Rolf Daniel, Jörg Overmann, Markus Göker, Meinhard Simon, Thorsten Brinkhoff and Cristina Moraru. 2019. Cobaviruses – a new globally distributed phage group infecting Rhodobacteraceae in marine ecosystems. DOI: 10.1038/s41396-019-0362-7 |
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Jan P. Meier-Kolthoff. 2019. Moderne genombasierte Klassifikation von Bakterien und Archaeen. DOI: 10.1007/s12268-019-0211-2 |
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Imke H. E. Korf, Jan P. Meier-Kolthoff, Evelien M. Adriaenssens, Andrew M. Kropinski, Manfred Nimtz, Manfred Rohde, Mark J. van Raaij and Johannes Wittmann. 2019. Still something to discover: novel insights into Escherichia coli phage diversity and taxonomy. DOI: 10.3390/v11050454 |
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Jan P. Meier-Kolthoff and Markus Göker. 2019. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. DOI: 10.1038/s41467-019-10210-3 |
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Kaisa Thorell, Jan P. Meier-Kolthoff, Åsa Sjöling and Alberto J. Martín-Rodríguez. 2019. Whole-genome sequencing redefines Shewanella taxonomy. DOI: 10.3389/fmicb.2019.01861 |
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2018 |
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Lorena Carro, Imen Nouioui, Vartul Sangal, Jan P. Meier-Kolthoff, Martha E. Trujillo, Maria del Carmen Montero-Calasanz, Nevzat Sahin, Darren Lee Smith, Kristi E. Kim, Paul Peluso, Shweta Deshpande, Tanja Woyke, Nicole Shapiro, Nikos C. Kyrpides, Hans-Peter Klenk, Markus Göker and Michael Goodfellow. 2018. Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential. DOI: 10.1038/s41598-017-17392-0 |
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Imen Nouioui, Lorena Carro, Marina García-López, Jan P. Meier-Kolthoff, Tanja Woyke, Nikos C. Kyrpides, Rüdiger Pukall, Hans-Peter Klenk, Michael Goodfellow and Markus Göker. 2018. Genome-based taxonomic classification of the phylum Actinobacteria. DOI: 10.3389/fmicb.2018.02007 |
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Jan P. Meier-Kolthoff, Jumpei Uchiyama, Hiroko Yahara, David Paez-Espino and Koji Yahara. 2018. Investigation of recombination-intense viral groups and their genes in the Earth's virome. DOI: 10.1038/s41598-018-29272-2 |
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Fabini D. Orata, Jan P. Meier-Kolthoff, Dominic Sauvageau and Lisa Y. Stein. 2018. Phylogenomic analysis of the Gammaproteobacterial Methanotrophs (order methylococcales) calls for the reclassification of members at the genus and species levels. DOI: 10.3389/fmicb.2018.03162 |
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2017 |
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Supratim Mukherjee, Rekha Seshadri, Neha J. Varghese, Emiley A. Eloe-Fadrosh, Jan P. Meier-Kolthoff, Markus Göker, R. Cameron Coates, Michalis Hadjithomas, Georgios A. Pavlopoulos, David Paez-Espino, Yasuo Yoshikuni, Axel Visel, William B. Whitman, George M. Garrity, Jonathan A. Eisen, Philip Hugenholtz, Amrita Pati, Natalia N. Ivanova, Tanja Woyke, Hans-Peter Klenk and Nikos C. Kyrpides. 2017. 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. DOI: 10.1038/nbt.3886 |
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Maria del Carmen Montero-Calasanz, Jan P. Meier-Kolthoff, Dao-Feng Zhang, Adnan Yaramis, Manfred Rohde, Tanja Woyke, Nikos C. Kyrpides, Peter Schumann, Wen-Jun Li and Markus Göker. 2017. Genome-scale data call for a taxonomic rearrangement of Geodermatophilaceae. DOI: 10.3389/fmicb.2017.02501 |
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Anne-Catherine Ahn, Jan P. Meier-Kolthoff, Lex Overmars, Michael Richter, Tanja Woyke, Dimitry Y. Sorokin and Gerard Muyzer. 2017. Genomic diversity within the haloalkaliphilic genus Thioalkalivibrio. DOI: 10.1371/journal.pone.0173517 |
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Meinhard Simon, Carmen Scheuner, Jan P. Meier-Kolthoff, Thorsten Brinkhoff, Irene Wagner-Döbler, Marcus Ulbrich, Hans-Peter Klenk, Dietmar Schomburg, Jörn Petersen and Markus Göker. 2017. Phylogenomics of Rhodobacteraceae reveals evolutionary adaptation to marine and non-marine habitats. DOI: 10.1038/ismej.2016.198 |
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Annika Röttig, Ewelina Atasayar, Jan P. Meier-Kolthoff, Cathrin Spröer, Peter Schumann, Jennifer Schauer and Alexander Steinbüchel. 2017. Streptomyces jeddahensis sp. nov., an oleaginous bacterium isolated from desert soil. DOI: 10.1099/ijsem.0.001839 |
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Jannik Donner, Michael Reck, Boyke Bunk, Michael Jarek, Constantin Benjamin App, Jan P. Meier-Kolthoff, Jörg Overmann, Rolf Müller, Andreas Kirschning and Irene Wagner-Döbler. 2017. The biofilm inhibitor carolacton enters gram-negative cells: studies using a TolC-deficient strain of Escherichia coli. DOI: 10.1128/mspheredirect.00375-17 |
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Heike M. Freese, Johannes Sikorski, Boyke Bunk, Carmen Scheuner, Jan P. Meier-Kolthoff, Cathrin Spröer, Lone Gram and Jörg Overmann. 2017. Trajectories and drivers of genome evolution in surface-associated marine Phaeobacter. DOI: 10.1093/gbe/evx249 |
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Jan P. Meier-Kolthoff and Markus Göker. 2017. VICTOR: genome-based phylogeny and classification of prokaryotic viruses. DOI: 10.1093/bioinformatics/btx440 |
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2016 |
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Robert Riley, Sajeet Haridas, Kenneth H. Wolfe, Mariana R. Lopes, Chris Todd Hittinger, Markus Göker, Asaf A. Salamov, Jennifer H. Wisecaver, Tanya M. Long, Christopher H. Calvey, Andrea L. Aerts, Kerrie W. Barry, Cindy Choi, Alicia Clum, Aisling Y. Coughlan, Shweta Deshpande, Alexander P. Douglass, Sara J. Hanson, Hans-Peter Klenk, Kurt M. LaButti, Alla Lapidus, Erika A. Lindquist, Anna M. Lipzen, Jan P. Meier-Kolthoff, Robin A. Ohm, Robert P. Otillar, Jasmyn L. Pangilinan, Yi Peng, Antonis Rokas, Carlos A. Rosa, Carmen Scheuner, Andriy A. Sibirny, Jason C. Slot, J. Benjamin Stielow, Hui Sun, Cletus P. Kurtzman, Meredith Blackwell, Igor V. Grigoriev and Thomas W. Jeffries. 2016. Comparative genomics of biotechnologically important yeasts. DOI: 10.1073/pnas.1603941113 |
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Irina Panschin, Sixing Huang, Jan P. Meier-Kolthoff, Brian J. Tindall, Manfred Rohde, Susanne Verbarg, Alla Lapidus, James Han, Stephan Trong, Matthew Haynes, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia N. Ivanova, Konstantinos Mavromatis, Victor Markowitz, Tanja Woyke, Markus Göker, Hans-Peter Klenk, Nikos C. Kyrpides and Richard L. Hahnke. 2016. Comparing polysaccharide decomposition between the type strains Gramella echinicola KMM 6050T (DSM 19838T) and Gramella portivictoriae UST040801-001T (DSM 23547T), and emended description of Gramella echinicola Nedashkovskaya et al. 2005 emend. Shahina et al. 2014 and Gramella portivictoriae Lau et al. 2005. DOI: 10.1186/s40793-016-0163-9 |
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Richard L. Hahnke, Jan P. Meier-Kolthoff, Marina García-López, Supratim Mukherjee, Marcel Huntemann, Natalia N. Ivanova, Tanja Woyke, Nikos C. Kyrpides, Hans-Peter Klenk and Markus Göker. 2016. Genome-based taxonomic classification of Bacteroidetes. DOI: 10.3389/fmicb.2016.02003 |
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Daniel Garrido-Sanz, Jan P. Meier-Kolthoff, Markus Göker, Marta Martín, Rafael Rivilla and Miguel Redondo-Nieto. 2016. Genomic and genetic diversity within the Pseudomonas fluorescens complex. DOI: 10.1371/journal.pone.0150183 |
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Nisreen Tashkandy, Sari Sabban, Mohammad Fakieh, Jan P. Meier-Kolthoff, Sixing Huang, Brian J. Tindall, Manfred Rohde, Mohammed N. Baeshen, Nabih A. Baeshen, Alla Lapidus, Alex Copeland, Manoj Pillay, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia Ivanova, Victor Markowitz, Tanja Woyke, Markus Göker, Hans-Peter Klenk, Nikos C. Kyrpides and Richard L. Hahnke. 2016. High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T. DOI: 10.1186/s40793-016-0159-5 |
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Aitor Blanco-Míguez, Jan P. Meier-Kolthoff, Alberto Gutiérrez-Jácome, Markus Göker, Florentino Fdez-Riverola, Borja Sánchez and Anália Lourenço. 2016. Improving phylogeny reconstruction at the strain level using peptidome datasets. DOI: 10.1371/journal.pcbi.1005271 |
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Charlotte Peeters, Jan P. Meier-Kolthoff, Bart Verheyde, Evie De Brandt, Vaughn S. Cooper and Peter Vandamme. 2016. Phylogenomic study of Burkholderia glathei-like organisms, proposal of 13 novel Burkholderia species and emended descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae. DOI: 10.3389/fmicb.2016.00877 |
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Imen Nouioui, Faten Ghodhbane-Gtari, Maria del Carmen Montero-Calasanz, Markus Göker, Jan P. Meier-Kolthoff, Peter Schumann, Manfred Rohde, Michael Goodfellow, Maria P. Fernandez, Philippe Normand, Louis S. Tisa, Hans-Peter Klenk and Maher Gtari. 2016. Proposal of a type strain for Frankia alni (Woronin 1866) Von Tubeuf 1895, emended description of Frankia alni, and recognition of Frankia casuarinae sp. nov. and Frankia elaeagni sp. nov.. DOI: 10.1099/ijsem.0.001496 |
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Alex J. La Reau, Jan P. Meier-Kolthoff and Garret Suen. 2016. Sequence-based analysis of the genus Ruminococcus resolves its phylogeny and reveals strong host association. DOI: 10.1099/mgen.0.000099 |
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Essaid Ait Barka, Parul Vatsa, Lisa Sanchez, Nathalie Gaveau-Vaillant, Cedric Jacquard, Jan P. Meier-Kolthoff, Hans-Peter Klenk, Christophe Clément, Yder Ouhdouch and Gilles P. van Wezel. 2016. Taxonomy, physiology, and natural products of Actinobacteria. DOI: 10.1128/mmbr.00019-15 |
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Ilias Lagkouvardos, Rüdiger Pukall, Birte Abt, Bärbel U. Foesel, Jan P. Meier-Kolthoff, Neeraj Kumar, Anne Bresciani, Inés Martínez, Sarah Just, Caroline Ziegler, Sandrine Brugiroux, Debora Garzetti, Mareike Wenning, Thi P. N. Bui, Jun Wang, Floor Hugenholtz, Caroline M. Plugge, Daniel A. Peterson, Mathias W. Hornef, John F. Baines, Hauke Smidt, Jens Walter, Karsten Kristiansen, Henrik B. Nielsen, Dirk Haller, Jörg Overmann, Bärbel Stecher and Thomas Clavel. 2016. The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota. DOI: 10.1038/nmicrobiol.2016.131 |
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2015 |
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Yang Liu, Qiliang Lai, Markus Göker, Jan P. Meier-Kolthoff, Meng Wang, Yamin Sun, Lei Wang and Zongze Shao. 2015. Genomic insights into the taxonomic status of the Bacillus cereus group. DOI: 10.1038/srep14082 |
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Richard L. Hahnke, Erko Stackebrandt, Jan P. Meier-Kolthoff, Brian J. Tindall, Sixing Huang, Manfred Rohde, Alla Lapidus, James Han, Stephan Trong, Matthew Haynes, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia N. Ivanova, Konstantinos Mavromatis, Victor Markowitz, Tanja Woyke, Markus Göker, Nikos C. Kyrpides and Hans-Peter Klenk. 2015. High quality draft genome sequence of Flavobacterium rivuli type strain WB 3.3-2T (DSM 21788T), a valuable source of polysaccharide decomposing enzymes. DOI: 10.1186/s40793-015-0032-y |
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Jan P. Meier-Kolthoff. 2015. Welcher Coli ist ein Coli? Sequenzierung des Typstamms von Escherichia coli. DOI: 10.1007/s12268-015-0600-0 |
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2014 |
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Jan P. Meier-Kolthoff. 2014. Comparison of nucleotide and protein sequences for genome-based classification and identification. |
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Jan P. Meier-Kolthoff, Richard L. Hahnke, Jörn Petersen, Carmen Scheuner, Victoria Michael, Anne Fiebig, Christine Rohde, Manfred Rohde, Berthold Fartmann, Lynne A. Goodwin, Olga Chertkov, T. B. K. Reddy, Amrita Pati, Natalia N. Ivanova, Victor Markowitz, Nikos C. Kyrpides, Tanja Woyke, Markus Göker and Hans-Peter Klenk. 2014. Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy. DOI: 10.1186/1944-3277-9-2 |
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Johannes Wittmann, Brigitte Dreiseikelmann, Manfred Rohde, Jan P. Meier-Kolthoff, Boyke Bunk and Christine Rohde. 2014. First genome sequences of Achromobacter phages reveal new members of the N4 family. DOI: 10.1186/1743-422x-11-14 |
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Jan P. Meier-Kolthoff, Alexander F. Auch, Hans-Peter Klenk and Markus Göker. 2014. GBDP on the grid: a genome-based approach for species delimitation adjusted for an automated and highly parallel processing of large data sets. DOI: 10.5445/KSP/1000039516 |
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Jan P. Meier-Kolthoff, Alexander F. Auch, Hans-Peter Klenk and Markus Göker. 2014. Highly parallelized inference of large genome-based phylogenies. DOI: 10.1002/cpe.3112 |
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Katharina Drüppel, Michael Hensler, Kathleen Trautwein, Sebastian Koßmehl, Lars Wöhlbrand, Kerstin Schmidt‐Hohagen, Marcus Ulbrich, Nils Bergen, Jan P. Meier-Kolthoff, Markus Göker, Hans‐Peter Klenk, Dietmar Schomburg and Ralf Rabus. 2014. Pathways and substrate‐specific regulation of amino acid degradation in Phaeobacter inhibens DSM 17395 (archetype of the marine Roseobacter clade). DOI: 10.1111/1462-2920.12276 |
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Jan P. Meier-Kolthoff, Hans-Peter Klenk and Markus Göker. 2014. Taxonomic use of DNA G+C content and DNA–DNA hybridization in the genomic age. DOI: 10.1099/ijs.0.056994-0 |
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2013 |
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Jan P. Meier-Kolthoff, Megan Lu, Marcel Huntemann, Susan Lucas, Alla Lapidus, Alex Copeland, Sam Pitluck, Lynne A. Goodwin, Cliff Han, Roxanne Tapia, Gabriele Pötter, Miriam Land, Natalia Ivanova, Manfred Rohde, Markus Göker, John C. Detter, Tanja Woyke, Nikos C. Kyrpides and Hans-Peter Klenk. 2013. Genome sequence of the chemoheterotrophic soil bacterium Saccharomonospora cyanea type strain (NA-134T). DOI: 10.4056/sigs.4207886 |
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Krishna Palaniappan, Jan P. Meier-Kolthoff, Hazuki Teshima, Matt Nolan, Alla Lapidus, Hope Tice, Tijana Glavina Del Rio, Jan-Fang Cheng, Cliff Han, Roxanne Tapia, Lynne A. Goodwin, Sam Pitluck, Konstantinos Liolios, Konstantinos Mavromatis, Ioanna Pagani, Natalia Ivanova, Natalia Mikhailova, Amrita Pati, Amy Chen, Manfred Rohde, Shanmugam Mayilraj, Stefan Spring, John C. Detter, Markus Göker, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and Tanja Woyke. 2013. Genome sequence of the moderately thermophilic sulfur-reducing bacterium Thermanaerovibrio velox type strain (Z-9701T) and emended description of the genus Thermanaerovibrio. DOI: 10.4056/sigs.4237901 |
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Jan P. Meier-Kolthoff, Alexander F. Auch, Hans-Peter Klenk and Markus Göker. 2013. Genome sequence-based species delimitation with confidence intervals and improved distance functions. DOI: 10.1186/1471-2105-14-60 |
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Jan P. Meier-Kolthoff, Markus Göker, Cathrin Spröer and Hans-Peter Klenk. 2013. When should a DDH experiment be mandatory in microbial taxonomy?. DOI: 10.1007/s00203-013-0888-4 |
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2011 |
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Heinz Stockinger, Alexander F. Auch, Markus Göker, Jan P. Meier-Kolthoff and Alexandros Stamatakis. 2011. Large-scale co-phylogenetic analysis on the grid. DOI: 10.4018/978-1-60960-603-9.ch014 |
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2007 |
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Alexandros Stamatakis, Alexander F. Auch, Jan P. Meier-Kolthoff and Markus Göker. 2007. AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa. DOI: 10.1186/1471-2105-8-405 |
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Jan P. Meier-Kolthoff, Alexander F. Auch, Daniel H. Huson and Markus Göker. 2007. CopyCat: cophylogenetic analysis tool. DOI: 10.1093/bioinformatics/btm027 |