Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study
Roetzer, Andreas, Diel, Roland, Kohl, Thomas A, Rückert, Christian, Nübel, Ulrich, Blom, Jochen, Wirth, Thierry, Jaenicke, Sebastian, Schuback, Sieglinde, Rüsch-Gerdes, Sabine, Supply, Philip, Kalinowski, Jörn, Niemann, Stefan
Published in PLoS medicine (01.02.2013)
Published in PLoS medicine (01.02.2013)
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PhyResSE: a Web Tool Delineating Mycobacterium tuberculosis Antibiotic Resistance and Lineage from Whole-Genome Sequencing Data
Feuerriegel, Silke, Schleusener, Viola, Beckert, Patrick, Kohl, Thomas A, Miotto, Paolo, Cirillo, Daniela M, Cabibbe, Andrea M, Niemann, Stefan, Fellenberg, Kurt
Published in Journal of clinical microbiology (01.06.2015)
Published in Journal of clinical microbiology (01.06.2015)
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Delamanid and Bedaquiline Resistance in Mycobacterium tuberculosis Ancestral Beijing Genotype Causing Extensively Drug-Resistant Tuberculosis in a Tibetan Refugee
Hoffmann, Harald, Kohl, Thomas A, Hofmann-Thiel, Sabine, Merker, Matthias, Beckert, Patrick, Jaton, Katia, Nedialkova, Lubov, Sahalchyk, Evgeni, Rothe, Thomas, Keller, Peter M, Niemann, Stefan
Published in American journal of respiratory and critical care medicine (01.02.2016)
Published in American journal of respiratory and critical care medicine (01.02.2016)
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Journal Article
Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis
Bradley, Phelim, Gordon, N. Claire, Walker, Timothy M., Dunn, Laura, Heys, Simon, Huang, Bill, Earle, Sarah, Pankhurst, Louise J., Anson, Luke, de Cesare, Mariateresa, Piazza, Paolo, Votintseva, Antonina A., Golubchik, Tanya, Wilson, Daniel J., Wyllie, David H., Diel, Roland, Niemann, Stefan, Feuerriegel, Silke, Kohl, Thomas A., Ismail, Nazir, Omar, Shaheed V., Smith, E. Grace, Buck, David, McVean, Gil, Walker, A. Sarah, Peto, Tim E. A., Crook, Derrick W., Iqbal, Zamin
Published in Nature communications (21.12.2015)
Published in Nature communications (21.12.2015)
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Journal Article
Whole-genome-based Mycobacterium tuberculosis surveillance: a standardized, portable, and expandable approach
Kohl, Thomas A, Diel, Roland, Harmsen, Dag, Rothgänger, Jörg, Walter, Karen Meywald, Merker, Matthias, Weniger, Thomas, Niemann, Stefan
Published in Journal of clinical microbiology (01.07.2014)
Published in Journal of clinical microbiology (01.07.2014)
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Journal Article
Rapid genomic first- and second-line drug resistance prediction from clinical Mycobacterium tuberculosis specimens using Deeplex-MycTB
Feuerriegel, Silke, Kohl, Thomas A, Utpatel, Christian, Andres, Sönke, Maurer, Florian P, Heyckendorf, Jan, Jouet, Agathe, Badalato, Nelly, Foray, Lynda, Fouad Kamara, Rashidatu, Conteh, Osman S, Supply, Philip, Niemann, Stefan
Published in The European respiratory journal (01.01.2021)
Published in The European respiratory journal (01.01.2021)
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Journal Article
Delineating Mycobacterium abscessus population structure and transmission employing high-resolution core genome multilocus sequence typing
Diricks, Margo, Merker, Matthias, Wetzstein, Nils, Kohl, Thomas A., Niemann, Stefan, Maurer, Florian P.
Published in Nature communications (23.08.2022)
Published in Nature communications (23.08.2022)
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Journal Article
Transcontinental spread and evolution of Mycobacterium tuberculosis W148 European/Russian clade toward extensively drug resistant tuberculosis
Merker, Matthias, Rasigade, Jean-Philippe, Barbier, Maxime, Cox, Helen, Feuerriegel, Silke, Kohl, Thomas A., Shitikov, Egor, Klaos, Kadri, Gaudin, Cyril, Antoine, Rudy, Diel, Roland, Borrell, Sonia, Gagneux, Sebastien, Nikolayevskyy, Vladyslav, Andres, Sönke, Crudu, Valeriu, Supply, Philip, Niemann, Stefan, Wirth, Thierry
Published in Nature communications (30.08.2022)
Published in Nature communications (30.08.2022)
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Journal Article
Whole genome sequencing reveals complex evolution patterns of multidrug-resistant Mycobacterium tuberculosis Beijing strains in patients
Merker, Matthias, Kohl, Thomas A, Roetzer, Andreas, Truebe, Leona, Richter, Elvira, Rüsch-Gerdes, Sabine, Fattorini, Lanfranco, Oggioni, Marco R, Cox, Helen, Varaine, Francis, Niemann, Stefan
Published in PloS one (06.12.2013)
Published in PloS one (06.12.2013)
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Journal Article
Insertion and deletion evolution reflects antibiotics selection pressure in a Mycobacterium tuberculosis outbreak
Godfroid, Maxime, Dagan, Tal, Merker, Matthias, Kohl, Thomas A, Diel, Roland, Maurer, Florian P, Niemann, Stefan, Kupczok, Anne
Published in PLoS pathogens (01.09.2020)
Published in PLoS pathogens (01.09.2020)
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Journal Article
Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study
Pankhurst, Louise J, Del Ojo Elias, Carlos, Votintseva, Antonina A, Walker, Timothy M, Cole, Kevin, Davies, Jim, Fermont, Jilles M, Gascoyne-Binzi, Deborah M, Kohl, Thomas A, Kong, Clare, Lemaitre, Nadine, Niemann, Stefan, Paul, John, Rogers, Thomas R, Roycroft, Emma, Smith, E Grace, Supply, Philip, Tang, Patrick, Wilcox, Mark H, Wordsworth, Sarah, Wyllie, David, Xu, Li, Crook, Derrick W
Published in The lancet respiratory medicine (01.01.2016)
Published in The lancet respiratory medicine (01.01.2016)
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Journal Article
rplC T460C Identified as a Dominant Mutation in Linezolid-Resistant Mycobacterium tuberculosis Strains
Beckert, Patrick, Hillemann, Doris, Kohl, Thomas A, Kalinowski, Jörn, Richter, Elvira, Niemann, Stefan, Feuerriegel, Silke
Published in Antimicrobial Agents and Chemotherapy (01.05.2012)
Published in Antimicrobial Agents and Chemotherapy (01.05.2012)
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Journal Article
Multidrug- and Extensively Drug-Resistant Mycobacterium tuberculosis Beijing Clades, Ukraine, 2015
Merker, Matthias, Nikolaevskaya, Elena, Kohl, Thomas A, Molina-Moya, Barbara, Pavlovska, Olha, Brännberg, Patrik, Dudnyk, Andrii, Stokich, Valentyna, Barilar, Ivan, Marynova, Iryna, Filipova, Tetiana, Prat, Cristina, Sjöstedt, Anders, Dominguez, Jose, Rzhepishevska, Olena, Niemann, Stefan
Published in Emerging infectious diseases (01.03.2020)
Published in Emerging infectious diseases (01.03.2020)
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Journal Article
Phylogenetically informative mutations in genes implicated in antibiotic resistance in Mycobacterium tuberculosis complex
Merker, Matthias, Kohl, Thomas A, Barilar, Ivan, Andres, Sönke, Fowler, Philip W, Chryssanthou, Erja, Ängeby, Kristian, Jureen, Pontus, Moradigaravand, Danesh, Parkhill, Julian, Peacock, Sharon J, Schön, Thomas, Maurer, Florian P, Walker, Timothy, Köser, Claudio, Niemann, Stefan
Published in Genome medicine (06.03.2020)
Published in Genome medicine (06.03.2020)
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Journal Article
Implementation of whole genome sequencing for tuberculosis diagnostics in a low-middle income, high MDR-TB burden country
Vogel, Monica, Utpatel, Christian, Corbett, Caroline, Kohl, Thomas A., Iskakova, Altyn, Ahmedov, Sevim, Antonenka, Uladzimir, Dreyer, Viola, Ibrahimova, Ainura, Kamarli, Chynara, Kosimova, Dilorom, Mohr, Vanessa, Sahalchyk, Evgeni, Sydykova, Meerim, Umetalieva, Nagira, Kadyrov, Abdylat, Kalmambetova, Gulmira, Niemann, Stefan, Hoffmann, Harald
Published in Scientific reports (28.07.2021)
Published in Scientific reports (28.07.2021)
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Journal Article
Survival of hypoxia-induced dormancy is not a common feature of all strains of the Mycobacterium tuberculosis complex
Tizzano, Barbara, Dallenga, Tobias K., Utpatel, Christian, Behrends, Jochen, Homolka, Susanne, Kohl, Thomas A., Niemann, Stefan
Published in Scientific reports (29.01.2021)
Published in Scientific reports (29.01.2021)
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Journal Article
Analysis of Phylogenetic Variation of Stenotrophomonas maltophilia Reveals Human-Specific Branches
Steinmann, Joerg, Mamat, Uwe, Abda, Ebrahim M, Kirchhoff, Lisa, Streit, Wolfgang R, Schaible, Ulrich E, Niemann, Stefan, Kohl, Thomas A
Published in Frontiers in microbiology (26.04.2018)
Published in Frontiers in microbiology (26.04.2018)
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Transmission patterns of rifampicin resistant Mycobacterium tuberculosis complex strains in Cameroon: a genomic epidemiological study
Merker, Matthias, Egbe, Nkongho F, Ngangue, Yannick R, Vuchas, Comfort, Kohl, Thomas A, Dreyer, Viola, Kuaban, Christopher, Noeske, Jürgen, Niemann, Stefan, Sander, Melissa S
Published in BMC infectious diseases (31.08.2021)
Published in BMC infectious diseases (31.08.2021)
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Longitudinal Outbreak of Multidrug-Resistant Tuberculosis in a Hospital Setting, Serbia
Arandjelović, Irena, Merker, Matthias, Richter, Elvira, Kohl, Thomas A, Savić, Branislava, Soldatović, Ivan, Wirth, Thierry, Vuković, Dragana, Niemann, Stefan
Published in Emerging infectious diseases (01.03.2019)
Published in Emerging infectious diseases (01.03.2019)
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Journal Article
Secretome characterization of clinical isolates from the Mycobacterium abscessus complex provides insight into antigenic differences
Cornejo-Granados, Fernanda, Kohl, Thomas A, Sotomayor, Flor Vásquez, Andres, Sönke, Hernández-Pando, Rogelio, Hurtado-Ramirez, Juan Manuel, Utpatel, Christian, Niemann, Stefan, Maurer, Florian P, Ochoa-Leyva, Adrian
Published in BMC genomics (25.05.2021)
Published in BMC genomics (25.05.2021)
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