Programmbereich Infektionen

Molekulare und Experimentelle Mykobakteriologie

Mission    Projekte    Drittmittel    Methoden    Publikationen    Mitarbeiter/innen



Walker, TM, Merker, M, Knoblauch, AM, Helbling, P, Schoch, OD, van der Werf, MJ, Kranzer, K, Fiebig, L, Kröger, S, Haas, W, Hoffmann, H, Indra, A, Egli, A, Cirillo, DM, Robert, J, Rogers, TR, Groenheit, R, Mengshoel, AT, Mathys, V, Haanperä, M, Soolingen, DV, Niemann, S, Böttger, EC, Keller, PM & MDR-TB Cluster Consortium 2018, 'A cluster of multidrug-resistant Mycobacterium tuberculosis among patients arriving in Europe from the Horn of Africa: a molecular epidemiological study' Lancet Infectious Diseases, Bd 18, Nr. 4, S. 431-440. DOI: 10.1016/S1473-3099(18)30004-5

EUSeqMyTB Consortium & Niemann, S 2018, 'EUSeqMyTB to set standards and build capacity for whole genome sequencing for tuberculosis in the EU' Lancet Infectious Diseases, Bd 18, Nr. 4, S. 377. DOI: 10.1016/S1473-3099(18)30132-4

Malm, S, Maaß, S, Schaible, UE, Ehlers, S & Niemann, S 2018, 'In vivo virulence of Mycobacterium tuberculosis depends on a single homologue of the LytR-CpsA-Psr proteins' Scientific Reports, Bd 8, Nr. 1, S. 3936. DOI: 10.1038/s41598-018-22012-6

Heyckendorf, J, Andres, S, Köser, CU, Olaru, ID, Schön, T, Sturegård, E, Beckert, P, Schleusener, V, Kohl, TA, Hillemann, D, Moradigaravand, D, Parkhill, J, Peacock, SJ, Niemann, S, Lange, C & Merker, M 2018, 'What is resistance? Impact of phenotypic versus molecular drug resistance testing on multi- and extensively drug-resistant tuberculosis therapy' ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, Bd 62, Nr. 2, S. e01550-17. DOI: 10.1128/AAC.01550-17

Havlicek, J, Dachsel, B, Slickers, P, Andres, S, Beckert, P, Feuerriegel, S, Niemann, S, Merker, M & Labugger, I 2018, 'Rapid Microarray-based Detection of Rifampicin-, Isoniazid- and Fluoroquinolone Resistance in Mycobacterium tuberculosis using a Single Cartridge' JOURNAL OF CLINICAL MICROBIOLOGY, Bd 56, Nr. 2. DOI: 10.1128/JCM.01249-17

Tortoli, E, Kohl, TA, Brown-Elliott, BA, Trovato, A, Cardoso-Leão, S, Garcia, MJ, Vasireddy, S, Turenne, CY, Griffith, DE, Philley, JV, Niemann, S, Wallace, RJ & Cirillo, DM 2018, 'Mycobacterium abscessus, a taxonomic puzzle' INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Bd 68, Nr. 1, S. 467-469. DOI: 10.1099/ijsem.0.002457

Caño-Muñiz, S, Anthony, R, Niemann, S & Alffenaar, J-WC 2018, 'New Approaches and Therapeutic Options for Mycobacterium tuberculosis in a Dormant State' Clinical microbiology reviews, Bd 31, Nr. 1. DOI: 10.1128/CMR.00060-17

Steinmann, J, Mamat, U, Abda, EM, Kirchhoff, L, Streit, WR, Schaible, UE, Niemann, S & Kohl, TA 2018, 'Analysis of Phylogenetic Variation of Reveals Human-Specific Branches' Frontiers in Microbiology, Bd 9, S. 806. DOI: 10.3389/fmicb.2018.00806

Zignol, M, Cabibbe, AM, Dean, AS, Glaziou, P, Alikhanova, N, Ama, C, Andres, S, Barbova, A, Borbe-Reyes, A, Chin, DP, Cirillo, DM, Colvin, C, Dadu, A, Dreyer, A, Driesen, M, Gilpin, C, Hasan, R, Hasan, Z, Hoffner, S, Hussain, A, Ismail, N, Kamal, SMM, Khanzada, FM, Kimerling, M, Kohl, TA, Mansjö, M, Miotto, P, Mukadi, YD, Mvusi, L, Niemann, S, Omar, SV, Rigouts, L, Schito, M, Sela, I, Seyfaddinova, M, Skenders, G, Skrahina, A, Tahseen, S, Wells, WA, Zhurilo, A, Weyer, K, Floyd, K & Raviglione, MC 2018, 'Genetic sequencing for surveillance of drug resistance in tuberculosis in highly endemic countries: a multi-country population-based surveillance study' Lancet Infectious Diseases. DOI: 10.1016/S1473-3099(18)30073-2


Marais, BJ, Walker, TM, Cirillo, DM, Raviglione, M, Abubakar, I, van der Werf, MJ, Boehme, C, Niemann, S, Castro, KG, Zumla, A, Sintchenko, V & Crook, DW 2017, 'Aiming for zero tuberculosis transmission in low-burden countries' Lancet Respiratory Medicine, Bd 5, Nr. 11, S. 846-848. DOI: 10.1016/S2213-2600(17)30382-X

Fiebig, L, Kohl, TA, Popovici, O, Mühlenfeld, M, Indra, A, Homorodean, D, Chiotan, D, Richter, E, Rüsch-Gerdes, S, Schmidgruber, B, Beckert, P, Hauer, B, Niemann, S, Allerberger, F & Haas, W 2017, 'A joint cross-border investigation of a cluster of multidrug-resistant tuberculosis in Austria, Romania and Germany in 2014 using classic, genotyping and whole genome sequencing methods: lessons learned' Euro Surveillance, Bd 22, Nr. 2. DOI: 10.2807/1560-7917.ES.2017.22.2.30439

Havlicek, J, Rivera-Milla, E, Slickers, P, Andres, S, Feuerriegel, S, Niemann, S, Merker, M & Labugger, I 2017, 'An application of competitive reporter monitored amplification (CMA) for rapid detection of single nucleotide polymorphisms (SNPs)' PLOS ONE, Bd 12, Nr. 8, S. e0183561. DOI: 10.1371/journal.pone.0183561

Miotto, P, Tessema, B, Tagliani, E, Chindelevitch, L, Starks, AM, Emerson, C, Hanna, D, Kim, PS, Liwski, R, Zignol, M, Gilpin, C, Niemann, S, Denkinger, CM, Fleming, J, Warren, RM, Crook, D, Posey, J, Gagneux, S, Hoffner, S, Rodrigues, C, Comas, I, Engelthaler, DM, Murray, M, Alland, D, Rigouts, L, Lange, C, Dheda, K, Hasan, R, Ranganathan, UDK, McNerney, R, Ezewudo, M, Cirillo, DM, Schito, M, Köser, CU & Rodwell, TC 2017, 'A standardised method for interpreting the association between mutations and phenotypic drug resistance in Mycobacterium tuberculosis' The European respiratory journal, Bd 50, Nr. 6. DOI: 10.1183/13993003.01354-2017

Kolbe, K, Möckl, L, Sohst, V, Brandenburg, J, Engel, R, Malm, S, Bräuchle, C, Holst, O, Lindhorst, TK & Reiling, N 2017, 'Azido pentoses: A New Tool to Efficiently Label Mycobacterium tuberculosis Clinical Isolates' Chembiochem : a European journal of chemical biology, Bd 18, Nr. 13, S. 1172-1176. DOI: 10.1002/cbic.201600706

Andre, E, Goeminne, L, Cabibbe, A, Beckert, P, Kabamba Mukadi, B, Mathys, V, Gagneux, S, Niemann, S, Van Ingen, J & Cambau, E 2017, 'Consensus numbering system for the rifampicin resistance-associated rpoB gene mutations in pathogenic mycobacteria' CLINICAL MICROBIOLOGY AND INFECTION , Bd 23, Nr. 3, S. 167-172. DOI: 10.1016/j.cmi.2016.09.006

Labugger, I, Heyckendorf, J, Dees, S, Häussinger, E, Herzmann, C, Kohl, TA, Richter, E, Rivera-Milla, E & Lange, C 2017, 'Detection of transrenal DNA for the diagnosis of pulmonary tuberculosis and treatment monitoring' INFECTION, Bd 45, Nr. 3, S. 269-276. DOI: 10.1007/s15010-016-0955-2

Bjorn-Mortensen, K, Lillebaek, T, Koch, A, Soborg, B, Ladefoged, K, Sørensen, HCF, Kohl, TA, Niemann, S & Andersen, AB 2017, 'Extent of transmission captured by contact tracing in a tuberculosis high endemic setting' The European respiratory journal, Bd 49, Nr. 3. DOI: 10.1183/13993003.01851-2016

van Ingen, J, Kohl, TA, Kranzer, K, Hasse, B, Keller, PM, Katarzyna Szafrańska, A, Hillemann, D, Chand, M, Schreiber, PW, Sommerstein, R, Berger, C, Genoni, M, Rüegg, C, Troillet, N, Widmer, AF, Becker, SL, Herrmann, M, Eckmanns, T, Haller, S, Höller, C, Debast, SB, Wolfhagen, MJ, Hopman, J, Kluytmans, J, Langelaar, M, Notermans, DW, Ten Oever, J, van den Barselaar, P, Vonk, ABA, Vos, MC, Ahmed, N, Brown, T, Crook, DW, Lamagni, T, Phin, N, Smith, EG, Zambon, M, Serr, A, Götting, T, Ebner, W, Thürmer, A, Utpatel, C, Spröer, C, Bunk, B, Nübel, U, Bloemberg, GV, Böttger, EC, Niemann, S, Wagner, D & Sax, H 2017, 'Global outbreak of severe Mycobacterium chimaera disease after cardiac surgery: a molecular epidemiological study' Lancet Infectious Diseases, Bd 17, Nr. 10, S. 1033-1041. DOI: 10.1016/S1473-3099(17)30324-9

Mellmann, A, Andersen, PS, Bletz, S, Friedrich, AW, Kohl, TA, Lilje, B, Niemann, S, Prior, K, Rossen, JW & Harmsen, D 2017, 'High Interlaboratory Reproducibility and Accuracy of Next-Generation-Sequencing-Based Bacterial Genotyping in a Ring Trial' JOURNAL OF CLINICAL MICROBIOLOGY, Bd 55, Nr. 3, S. 908-913. DOI: 10.1128/JCM.02242-16

Bengtson, HN, Homolka, S, Niemann, S, Reis, AJ, da Silva, PE, Gerasimova, YV, Kolpashchikov, DM & Rohde, KH 2017, 'Multiplex detection of extensively drug resistant tuberculosis using binary deoxyribozyme sensors' Biosensors & Bioelectronics, Bd 94, S. 176-183. DOI: 10.1016/j.bios.2017.02.051

Tortoli, E, Kohl, TA, Trovato, A, Baldan, R, Campana, S, Cariani, L, Colombo, C, Costa, D, Cristadoro, S, Di Serio, MC, Manca, A, Pizzamiglio, G, Rancoita, PMV, Rossolini, GM, Taccetti, G, Teri, A, Niemann, S & Cirillo, DM 2017, 'Mycobacterium abscessus in patients with cystic fibrosis: low impact of inter-human transmission in Italy' The European respiratory journal, Bd 50, Nr. 1. DOI: 10.1183/13993003.02525-2016

Birmes, FS, Wolf, T, Kohl, TA, Rüger, K, Bange, F-C, Kalinowski, J & Fetzner, S 2017, 'Mycobacterium abscessus subsp. abscessus Is Capable of Degrading Pseudomonas aeruginosa Quinolone Signals' Frontiers in Microbiology, Bd 8, S. 339. DOI: 10.3389/fmicb.2017.00339

Schleusener, V, Köser, CU, Beckert, P, Niemann, S & Feuerriegel, S 2017, 'Mycobacterium tuberculosis resistance prediction and lineage classification from genome sequencing: comparison of automated analysis tools' Scientific Reports, Bd 7, S. 46327. DOI: 10.1038/srep46327

Malm, S, Linguissi, LSG, Tekwu, EM, Vouvoungui, JC, Kohl, TA, Beckert, P, Sidibe, A, Rüsch-Gerdes, S, Madzou-Laboum, IK, Kwedi, S, Penlap Beng, V, Frank, M, Ntoumi, F & Niemann, S 2017, 'New Mycobacterium tuberculosis Complex Sublineage, Brazzaville, Congo' EMERGING INFECTIOUS DISEASES, Bd 23, Nr. 3, S. 423-429. DOI: 10.3201/eid2303.160679

André, E, Goeminne, L, Colmant, A, Beckert, P, Niemann, S & Delmee, M 2017, 'Novel rapid PCR for the detection of Ile491Phe rpoB mutation of Mycobacterium tuberculosis, a rifampicin-resistance-conferring mutation undetected by commercial assays' CLINICAL MICROBIOLOGY AND INFECTION , Bd 23, Nr. 4, S. 267.e5-267.e7. DOI: 10.1016/j.cmi.2016.12.009

Wagner, NM, Van Aken, C, Butschkau, A, Bierhansl, L, Kellner, P, Schleusener, V, Seggewiss, J, Vollmar, B, Nöldge-Schomburg, G & Roesner, JP 2017, 'Procalcitonin impairs endothelial cell function and viability' ANESTHESIA AND ANALGESIA , Bd 124, Nr. 3, S. 836-845.

Stöckel, S, Meisel, S, Lorenz, B, Kloß, S, Henk, S, Dees, S, Richter, E, Andres, S, Merker, M, Labugger, I, Rösch, P & Popp, J 2017, 'Raman spectroscopic identification of Mycobacterium tuberculosis' Journal of Biophotonics, Bd 10, Nr. 5, S. 727-734. DOI: 10.1002/jbio.201600174

Nakatani, Y, Opel-Reading, HK, Merker, M, Machado, D, Andres, S, Kumar, SS, Moradigaravand, D, Coll, F, Perdigão, J, Portugal, I, Schön, T, Nair, D, Devi, KRU, Kohl, TA, Beckert, P, Clark, TG, Maphalala, G, Khumalo, D, Diel, R, Klaos, K, Aung, HL, Cook, GM, Parkhill, J, Peacock, SJ, Swaminathan, S, Viveiros, M, Niemann, S, Krause, KL & Köser, CU 2017, 'Role of alanine racemase mutations in Mycobacterium tuberculosis D-cycloserine resistance' ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, Bd 61, Nr. 12, e01575-14. DOI: 10.1128/AAC.01575-17

Ajileye, A, Alvarez, N, Merker, M, Walker, TM, Akter, S, Brown, K, Moradigaravand, D, Schön, T, Andres, S, Schleusener, V, Omar, SV, Coll, F, Huang, H, Diel, R, Ismail, NA, Parkhill, J, de Jong, BC, Peto, TEA, Crook, DW, Niemann, S, Robledo, J, Smith, EG, Peacock, SJ & Köser, CU 2017, 'Some Synonymous and Nonsynonymous gyrA Mutations in Mycobacterium tuberculosis Lead to Systematic False-Positive Fluoroquinolone Resistance Results with the Hain GenoType MTBDRsl Assays' ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, Bd 61, Nr. 4, S. e02169-16. DOI: 10.1128/AAC.02169-16

Dheda, K, Gumbo, T, Maartens, G, Dooley, KE, McNerney, R, Murray, M, Furin, J, Nardell, EA, London, L, Lessem, E, Theron, G, van Helden, PD, Niemann, S, Merker, M, Dowdy, D, Van Rie, A, Siu, GKH, Pasipanodya, JG, Rodrigues, C, Clark, TG, Sirgel, FA, Esmail, A, Lin, H-H, Atre, SR, Schaaf, HS, Chang, K-C, Lange, C, Nahid, P, Udwadia, ZF, Horsburgh, CR, Churchyard, GJ, Menzies, D, Hesseling, AC, Nuermberger, E, McIlleron, H, Fennelly, KP, Goemaere, E, Jaramillo, E, Low, M, Jara, CM, Padayatchi, N & Warren, RM 2017, 'The epidemiology, pathogenesis, transmission, diagnosis, and management of multidrug-resistant, extensively drug-resistant, and incurable tuberculosis' Lancet Respiratory Medicine. DOI: 10.1016/S2213-2600(17)30079-6

Merker, M, Kohl, TA, Niemann, S & Supply, P 2017, 'The Evolution of Strain Typing in the Mycobacterium tuberculosis Complex'  Advances in Experimental Medicine and Biology , Bd 1019, S. 43-78. DOI: 10.1007/978-3-319-64371-7_3

Heyckendorf, J, Andres, S, Köser, CU, Olaru, ID, Schön, T, Sturegård, E, Beckert, P, Schleusener, V, Kohl, TA, Hillemann, D, Moradigaravand, D, Parkhill, J, Peacock, SJ, Niemann, S, Lange, C & Merker, M 2017, 'What is resistance?: Impact of phenotypic versus molecular drug resistance testing on multi- and extensively drug-resistant tuberculosis therapy' ANTIMICROBIAL AGENTS AND CHEMOTHERAPY. DOI: 10.1128/AAC.01550-17



Ali, S, Beckert, P, Haileamlak, A, Wieser, A, Pritsch, M, Heinrich, N, Löscher, T, Hoelscher, M, Niemann, S & Rachow, A 2016, 'Drug resistance and population structure of M.tuberculosis isolates from prisons and communities in Ethiopia' BMC INFECTIOUS DISEASES , Bd 16, Nr. 1, S. 687. DOI: 10.1186/s12879-016-2041-x

Niemann, S, Merker, M, Kohl, T & Supply, P 2016, 'Impact of Genetic Diversity on the Biology of Mycobacterium tuberculosis Complex Strains' Microbiology spectrum, Bd 4, Nr. 6. DOI: 10.1128/microbiolspec.TBTB2-0022-2016

Zignol, M, Dean, AS, Alikhanova, N, Andres, S, Cabibbe, AM, Cirillo, DM, Dadu, A, Dreyer, A, Driesen, M, Gilpin, C, Hasan, R, Hasan, Z, Hoffner, S, Husain, A, Hussain, A, Ismail, N, Kamal, M, Mansjö, M, Mvusi, L, Niemann, S, Omar, SV, Qadeer, E, Rigouts, L, Rüsch-Gerdes, S, Schito, M, Seyfaddinova, M, Skrahina, A, Tahseen, S, Wells, WA, Mukadi, YD, Kimerling, M, Floyd, K, Weyer, K & Raviglione, MC 2016, 'Population-based resistance of Mycobacterium tuberculosis isolates to pyrazinamide and fluoroquinolones results from a multicountry surveillance project' Lancet Infectious Diseases, Bd 16, Nr. 10, S. 1185-92. DOI: 10.1016/S1473-3099(16)30190-6

Varma-Basil, M, Narang, A, Chakravorty, S, Garima, K, Gupta, S, Kumar Sharma, N, Giri, A, Zozio, T, Couvin, D, Hanif, M, Bhatnagar, A, Menon, B, Niemann, S, Rastogi, N, Alland, D & Bose, M 2016, 'A snapshot of the predominant single nucleotide polymorphism cluster groups of Mycobacterium tuberculosis clinical isolates in Delhi, India' Tuberculosis, Bd 100, S. 72-81. DOI: 10.1016/

Mühlig, A, Bocklitz, T, Labugger, I, Dees, S, Henk, S, Richter, E, Andres, S, Merker, M, Stöckel, S, Weber, K, Cialla-May, D & Popp, J 2016, 'LOC-SERS: A Promising Closed System for the Identification of Mycobacteria' ANALYTICAL CHEMISTRY , Bd 88, Nr. 16, S. 7998-8004. DOI: 10.1021/acs.analchem.6b01152

Tortoli, E, Kohl, TA, Brown-Elliott, BA, Trovato, A, Cardoso Leao, S, Garcia, MJ, Vasireddy, S, Turenne, CY, Griffith, DE, Philley, JV, Baldan, R, Campana, S, Cariani, L, Colombo, C, Taccetti, G, Teri, A, Niemann, S, Wallace, RJ & Cirillo, DM 2016, 'Emended description of Mycobacterium abscessus, Mycobacterium abscessus subs. abscessus, Mycobacterium abscessus subsp. bolletii and designation of Mycobacterium abscessus subsp. massiliense comb. nov' INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY. DOI: 10.1099/ijsem.0.001376

Schena, E, Nedialkova, L, Borroni, E, Battaglia, S, Cabibbe, AM, Niemann, S, Utpatel, C, Merker, M, Trovato, A, Hofmann-Thiel, S, Hoffmann, H & Cirillo, DM 2016, 'Delamanid susceptibility testing of Mycobacterium tuberculosis using the resazurin microtitre assay and the BACTEC™ MGIT™ 960 system' JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, Bd 71, Nr. 6, S. 1532-9. DOI: 10.1093/jac/dkw044

Nikolayevskyy, V, Kranzer, K, Niemann, S & Drobniewski, F 2016, 'Whole genome sequencing of Mycobacterium tuberculosis for detection of recent transmission and tracing outbreaks: A systematic review' Tuberculosis, Bd 98, S. 77-85. DOI: 10.1016/

Kaufmann, E, Spohr, C, Battenfeld, S, De Paepe, D, Holzhauser, T, Balks, E, Homolka, S, Reiling, N, Gilleron, M & Bastian, M 2016, 'BCG Vaccination Induces Robust CD4+ T Cell Responses to Mycobacterium tuberculosis Complex-Specific Lipopeptides in Guinea Pigs' JOURNAL OF IMMUNOLOGY, Bd 196, Nr. 6, S. 2723-2732. DOI: 10.4049/jimmunol.1502307

Merker, M, Crudu, V, Noroc, E, Romancenco, E, Chesov, D, Günther, G, Niemann, S & Lange, C 2016, 'In reply: The impact of mixed infections on the interpretation of molecular epidemiology studies of tuberculosis' INTERNATIONAL JOURNAL OF TUBERCULOSIS AND LUNG DISEASE, Bd 20, Nr. 3, S. 424. DOI: 10.5588/ijtld.15.1024-2

Hoffmann, H, Kohl, TA, Hofmann-Thiel, S, Merker, M, Beckert, P, Jaton, K, Nedialkova, L, Sahalchyk, E, Rothe, T, Keller, PM & Niemann, S 2016, 'Delamanid and Bedaquiline Resistance in Mycobacterium tuberculosis Ancestral Beijing Genotype Causing Extensively Drug-Resistant Tuberculosis in a Tibetan Refugee' American journal of respiratory and critical care medicine, Bd 193, Nr. 3, S. 337-340. DOI: 10.1164/rccm.201502-0372LE

Domínguez, J, Boettger, EC, Cirillo, D, Cobelens, F, Eisenach, KD, Gagneux, S, Hillemann, D, Horsburgh, R, Molina-Moya, B, Niemann, S, Tortoli, E, Whitelaw, A, Lange, C & TBNET and RESIST-TB networks 2016, 'Clinical implications of molecular drug resistance testing for Mycobacterium tuberculosis: a TBNET/RESIST-TB consensus statement' INTERNATIONAL JOURNAL OF TUBERCULOSIS AND LUNG DISEASE, Bd 20, Nr. 1, S. 24-42. DOI: 10.5588/ijtld.15.0221

Pankhurst, LJ, Del Ojo Elias, C, Votintseva, AA, Walker, TM, Cole, K, Davies, J, Fermont, JM, Gascoyne-Binzi, DM, Kohl, TA, Kong, C, Lemaitre, N, Niemann, S, Paul, J, Rogers, TR, Roycroft, E, Smith, EG, Supply, P, Tang, P, Wilcox, MH, Wordsworth, S, Wyllie, D, Xu, L, Crook, DW & COMPASS-TB Study Group 2016, 'Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study' Lancet Respiratory Medicine, Bd 4, Nr. 1, S. 49-58. DOI: 10.1016/S2213-2600(15)00466-X

Bradley, P, Gordon, NC, Walker, TM, Dunn, L, Heys, S, Huang, B, Earle, S, Pankhurst, LJ, Anson, L, de Cesare, M, Piazza, P, Votintseva, AA, Golubchik, T, Wilson, DJ, Wyllie, DH, Diel, R, Niemann, S, Feuerriegel, S, Kohl, TA, Ismail, N, Omar, SV, Smith, EG, Buck, D, McVean, G, Walker, AS, Peto, TEA, Crook, DW & Iqbal, Z 2016, 'Corrigendum: Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis' Nature communications, Bd 7, S. 11465. DOI: 10.1038/ncomms11465

Kerubo, G, Amukoye, E, Niemann, S & Kariuki, S 2016, 'Drug susceptibility profiles of pulmonary Mycobacterium tuberculosis isolates from patients in informal urban settlements in Nairobi, Kenya' BMC INFECTIOUS DISEASES , Bd 16, Nr. 1, S. 583. DOI: 10.1186/s12879-016-1920-5

Homolka, S, Ubben, T & Niemann, S 2016, 'High Sequence Variability of the ppE18 Gene of Clinical Mycobacterium tuberculosis Complex Strains Potentially Impacts Effectivity of Vaccine Candidate M72/AS01E' PLOS ONE, Bd 11, Nr. 3, S. e0152200. DOI: 10.1371/journal.pone.0152200

Stucki, D, Brites, D, Jeljeli, L, Coscolla, M, Liu, Q, Trauner, A, Fenner, L, Rutaihwa, L, Borrell, S, Luo, T, Gao, Q, Kato-Maeda, M, Ballif, M, Egger, M, Macedo, R, Mardassi, H, Moreno, M, Vilanova, GT, Fyfe, J, Globan, M, Thomas, J, Jamieson, F, Guthrie, JL, Asante-Poku, A, Yeboah-Manu, D, Wampande, E, Ssengooba, W, Joloba, M, Boom, WH, Basu, I, Bower, J, Saraiva, M, Vasconcellos, SEG, Suffys, P, Koch, A, Wilkinson, R, Gail-Bekker, L, Malla, B, Ley, SD, Beck, H-P, de Jong, BC, Toit, K, Sanchez-Padilla, E, Bonnet, M, Gil-Brusola, A, Frank, M, Penlap Beng, VN, Eisenach, K, Alani, I, Ndung'u, PW, Revathi, G, Gehre, F, Akter, S, Ntoumi, F, Stewart-Isherwood, L, Ntinginya, NE, Rachow, A, Hoelscher, M, Cirillo, DM, Skenders, G, Hoffner, S, Bakonyte, D, Stakenas, P, Diel, R, Crudu, V, Moldovan, O, Al-Hajoj, S, Otero, L, Barletta, F, Carter, EJ, Diero, L, Supply, P, Comas, I, Niemann, S & Gagneux, S 2016, 'Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages' NATURE GENETICS, Bd 48, Nr. 12, S. 1535-1543. DOI: 10.1038/ng.3704



Crudu V, Merker M, Lange C, Noroc E, Romancenco E, Chesov D, Günther G, Niemann S. Nosocomial transmission of multidrug-resistant tuberculosis. Int J Tuberc Lung Dis. 2015 Dec;19(12):1520-3. doi: 10.5588/ijtld.15.0327.

Steglich M, Nitsche A, von Müller L, Herrmann M, Kohl TA, Niemann S, Nübel U. Tracing the Spread of Clostridium difficile Ribotype 027 in Germany Based on Bacterial Genome Sequences. PLoS One. 2015 Oct 7;10(10):e0139811. doi:10.1371/journal.pone.0139811. eCollection 2015.

Biadglegne F, Merker M, Sack U, Rodloff AC, Niemann S. Tuberculous Lymphadenitis in Ethiopia Predominantly Caused by Strains Belonging to the Delhi/CAS Lineage and Newly Identified Ethiopian Clades of the Mycobacterium tuberculosis Complex. PLoS One. 2015 Sep 16;10(9):e0137865. doi: 10.1371/journal.pone.0137865. eCollection 2015.

Cabibbe AM, Miotto P, Moure R, Alcaide F, Feuerriegel S, Pozzi G, Nikolayevskyy V, Drobniewski F, Niemann S, Reither K, Cirillo DM. Lab-on-Chip-Based Platform for Fast Molecular Diagnosis of Multidrug-Resistant Tuberculosis. J Clin Microbiol. 2015 Dec;53(12):3876-80. doi:

Walker TM, Kohl TA, Omar SV, Hedge J, Del Ojo Elias C, Bradley P, Iqbal Z, Feuerriegel S, Niehaus KE, Wilson DJ, Clifton DA, Kapatai G, Ip CL, Bowden R, Drobniewski FA, Allix-Béguec C, Gaudin C, Parkhill J, Diel R, Supply P, Crook DW, Smith EG, Walker AS, Ismail N, Niemann S, Peto TE; Modernizing Medical Microbiology (MMM) Informatics Group. Whole-genome sequencing for prediction of Mycobacterium tuberculosis drug susceptibility and resistance: a retrospective cohort study. Lancet Infect Dis. 2015 Oct;15(10):1193-202. doi: 10.1016/S1473-3099(15)00062-6. Epub 2015 Jun 23.

Bjorn-Mortensen K, Zallet J, Lillebaek T, Andersen AB, Niemann S, Rasmussen EM, Kohl TA. Direct DNA Extraction from Mycobacterium tuberculosis Frozen Stocks  as a Reculture-Independent Approach to Whole-Genome Sequencing. J Clin Microbiol. 2015 Aug;53(8):2716-9. doi: 10.1128/JCM.00662-15.

Feuerriegel S, Schleusener V, Beckert P, Kohl TA, Miotto P, Cirillo DM, Cabibbe AM, Niemann S, Fellenberg K. PhyResSE: a Web Tool Delineating
Mycobacterium tuberculosis Antibiotic Resistance and Lineage from Whole-Genome Sequencing Data. J Clin Microbiol. 2015 Jun;53(6):1908-14. doi:10.1128/JCM.00025-15. Epub 2015 Apr 8.

Barletta F, Otero L, de Jong BC, Iwamoto T, Arikawa K, Van der Stuyft P, Niemann S, Merker M, Uwizeye C, Seas C, Rigouts L. Predominant Mycobacterium tuberculosis Families and High Rates of Recent Transmission among New Cases Are Not Associated with Primary Multidrug Resistance in Lima, Peru. J Clin Microbiol. 2015 Jun;53(6):1854-63. doi: 10.1128/JCM.03585-14. Epub 2015 Mar 25.

Sanchez-Padilla E, Merker M, Beckert P, Jochims F, Dlamini T, Kahn P, Bonnet M, Niemann S. Detection of drug-resistant tuberculosis by Xpert MTB/RIF in Swaziland. N Engl J Med. 2015 Mar 19;372(12):1181-2. doi: 10.1056/NEJMc1413930.

Salamon H, Yamaguchi KD, Cirillo DM, Miotto P, Schito M, Posey J, Starks AM,  Niemann S, Alland D, Hanna D, Aviles E, Perkins MD, Dolinger DL. Integration of published information into a resistance-associated mutation database for Mycobacterium tuberculosis. J Infect Dis. 2015 Apr 1;211 Suppl 2:S50-7. doi: 10.1093/infdis/jiu816. Review.

Köser CU, Javid B, Liddell K, Ellington MJ, Feuerriegel S, Niemann S, Brown NM, Burman WJ, Abubakar I, Ismail NA, Moore D, Peacock SJ, Török ME. Drug-resistance mechanisms and tuberculosis drugs. Lancet. 2015 Jan 24;385(9965):305-7. doi: 10.1016/S0140-6736(14)62450-8.

Merker M, Blin C, Mona S, Duforet-Frebourg N, Lecher S, Willery E, Blum MG, Rüsch-Gerdes S, Mokrousov I, Aleksic E, Allix-Béguec C, Antierens A, Augustynowicz-Kopeć E, Ballif M, Barletta F, Beck HP, Barry CE 3rd, Bonnet M, Borroni E, Campos-Herrero I, Cirillo D, Cox H, Crowe S, Crudu V, Diel R, Drobniewski F, Fauville-Dufaux M, Gagneux S, Ghebremichael S, Hanekom M, Hoffner  S, Jiao WW, Kalon S, Kohl TA, Kontsevaya I, Lillebæk T, Maeda S, Nikolayevskyy V, Rasmussen M, Rastogi N, Samper S, Sanchez-Padilla E, Savic B, Shamputa IC, Shen A, Sng LH, Stakenas P, Toit K, Varaine F, Vukovic D, Wahl C, Warren R, Supply P,  Niemann S, Wirth T. Evolutionary history and global spread of the Mycobacterium
tuberculosis Beijing lineage. Nat Genet. 2015 Mar;47(3):242-9. doi: 10.1038/ng.3195.

Olaru ID, Rachow A, Lange C, Ntinginya NE, Reither K, Hoelscher M, Vollrath O, Niemann S. Ascertaining in vivo virulence of Mycobacterium tuberculosis lineages in patients in Mbeya, Tanzania. Int J Tuberc Lung Dis. 2015 Jan;19(1):70-3. doi: 10.5588/ijtld.14.0403.



Knobloch, JK-M, Niemann, S, Kohl, TA, Lindner, U, Nitschke, M, Sayk, F & Solbach, W 2014, 'Whole-genome sequencing for risk assessment of long-term Shiga toxin-producing Escherichia coli' EMERGING INFECTIOUS DISEASES, Bd 20, Nr. 4, S. 732-3., 10.3201/eid2004.131782

Kohl, TA, Diel, R, Harmsen, D, Rothgänger, J, Walter, KM, Merker, M, Weniger, T & Niemann, S 2014, 'Whole-Genome-Based Mycobacterium tuberculosis Surveillance: a Standardized, Portable, and Expandable Approach' JOURNAL OF CLINICAL MICROBIOLOGY, Bd 52, Nr. 7, S. 2479-86.

de Beer, JL, Ködmön, C, van Ingen, J, Supply, P, van Soolingen, D, Global Network for Molecular Surveillance of Tuberculosis 2010 & Niemann, S 2014, 'Second worldwide proficiency study on variable number of tandem repeats typing of Mycobacterium tuberculosis complex' THE INTERNATIONAL JOURNAL OF TUBERCULOSIS AND LUNG DISEASE, Bd 18, Nr. 5, S. 594-600.

Allix-Béguec, C, Wahl, C, Hanekom, M, Nikolayevskyy, V, Drobniewski, F, Maeda, S, Campos-Herrero, I, Mokrousov, I, Niemann, S, Kontsevaya, I, Rastogi, N, Samper, S, Sng, L-H, Warren, RM & Supply, P, 'Proposal of a Consensus Set of Hypervariable Mycobacterial Interspersed Repetitive-Unit-Variable-Number Tandem-Repeat loci for Subtyping of Mycobacterium tuberculosis Beijing Isolates' JOURNAL OF CLINICAL MICROBIOLOGY. 2014 Jan;52(1):164-72

Bos, KI, Harkins, KM, Herbig, A, Coscolla, M, Weber, N, Comas, I, Forrest, SA, Bryant, JM, Harris, SR, Schuenemann, VJ, Campbell, TJ, Majander, K, Wilbur, AK, Guichon, RA, Wolfe Steadman, DL, Cook, DC, Niemann, S, Behr, MA, Zumarraga, M, Bastida, R, Huson, D, Nieselt, K, Young, D, Parkhill, J, Buikstra, JE, Gagneux, S, Stone, AC & Krause, J 2014, 'Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis' Nature, Bd 514, Nr. 7523, S. 494-507.

Feuerriegel, S, Köser, CU & Niemann, S 2014, 'Phylogenetic polymorphisms in antibiotic resistance genes of the Mycobacterium tuberculosis complex' JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, Bd 69, Nr. 5, S. 1205-10.

Miotto, P, Cabibbe, AM, Feuerriegel, S, Casali, N, Drobniewski, F, Rodionova, Y, Bakonyte, D, Stakenas, P, Pimkina, E, Augustynowicz-Kopeć, E, Degano, M, Ambrosi, A, Hoffner, S, Mansjö, M, Werngren, J, Rüsch-Gerdes, S, Niemann, S & Cirillo, DM 2014, 'Mycobacterium tuberculosis Pyrazinamide Resistance Determinants: a Multicenter Study' mBio, Bd 5, Nr. 5., 10.1128/mBio.01819-14

De Beer, JL, Kodmon, C, van der Werf, MJ, van Ingen, J, van Soolingen, D, ECDC MDR-TB Molecular Surveillance Project Participants & Niemann, S 2014, 'Molecular surveillance of multi- and extensively drug-resistant tuberculosis transmission in the European Union from 2003 to 2011' Euro surveillance : bulletin Européen sur les maladies transmissibles = European communicable disease bulletin, Bd 19, Nr. 11.

Köser, CU, Comas, I, Feuerriegel, S, Niemann, S, Gagneux, S & Peacock, SJ 2014, 'Genetic diversity within Mycobacterium tuberculosis complex impacts on the accuracy of genotypic pyrazinamide drug-susceptibility assay' Tuberculosis (Edinburgh, Scotland), Bd 94, Nr. 4, S. 451-3.

Niemann, S & Supply, P, 'Diversity and Evolution of Mycobacterium tuberculosis: Moving to Whole-Genome-Based Approaches' Cold Spring Harbor perspectives in medicine. 2014 Sep 4;4(12)

Köser, CU, Bryant, JM, Comas, I, Feuerriegel, S, Niemann, S, Gagneux, S, Parkhill, J & Peacock, SJ 2014, 'Comment on: Characterization of the embB gene in Mycobacterium tuberculosis isolates from Barcelona and rapid detection of main mutations related to ethambutol resistance using a low-density DNA array' JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, Bd 69, Nr. 8, S. 2298-9.



Merker M, Kohl TA, Roetzer A, Truebe L, Richter E, Rüsch-Gerdes S, Fattorini L, Oggioni MR, Cox H, Varaine F, Niemann S. Whole Genome Sequencing Reveals Complex Evolution Patterns of Multidrug-Resistant Mycobacterium tuberculosis Beijing Strains in Patients. PLoS One. 2013 Dec 6;8(12):e82551.

Comas I, Coscolla M, Luo T, Borrell S, Holt KE, Kato-Maeda M, Parkhill J, Malla B, Berg S, Thwaites G, Yeboah-Manu D, Bothamley G, Mei J, Wei L, Bentley S, Harris SR, Niemann S, Diel R, Aseffa A, Gao Q, Young D, Gagneux S. Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans. Nat Genet. 2013 Sep 1;45:1176–1182.

Reiling N, Homolka S, Walter K, Brandenburg J, Niwinski L, Ernst M, Herzmann C, Lange C, Diel R, Ehlers S, Niemann S. Clade-specific virulence patterns of Mycobacterium tuberculosis complex strains in human primary macrophages and aerogenically infected mice. MBio. 2013 Jul 30;4(4).

Coscolla M, Lewin A, Metzger S, Maetz-Rennsing K, Calvignac-Spencer S, Nitsche A, Dabrowski PW, Radonic A, Niemann S, Parkhill J, Couacy-Hymann E, Feldman J, Comas I, Boesch C, Gagneux S, Leendertz FH. Novel Mycobacterium tuberculosis complex isolate from a wild chimpanzee. Emerg Infect Dis. 2013 Jun;19(6):969-76.

Roetzer A, Diel R, Kohl TA, Rückert C, Nübel U, Blom J, Wirth T, Jaenicke S, Schuback S, Rüsch-Gerdes S, Supply P, Kalinowski J, Niemann S. Whole Genome Sequencing versus Traditional Genotyping for Investigation of a Mycobacterium tuberculosis Outbreak: A Longitudinal Molecular Epidemiological Study. PLoS MEDICINE 2013 10(2): e1001387. Open Access

Tessema B, Beer J, Merker M, Emmrich F, Sack U, Rodloff AC, et al. Molecular epidemiology and transmission dynamics of Mycobacterium tuberculosis in Northwest Ethiopia: new phylogenetic lineages found in Northwest Ethiopia. BMC Infectious Diseases. 2013;13(1):131. Open Access

Aleksic E, Merker M, Cox H, Reiher B, Sekawi Z, Hearps AC, et al. First Molecular Epidemiology Study of Mycobacterium tuberculosis in Kiribati. Mokrousov I, editor. PLoS ONE. 2013 Jan;8(1):e55423. Open Access

Feuerriegel S, Köser CU, Richter E, Niemann S. Mycobacterium canettii is intrinsically resistant to both pyrazinamide and pyrazinoic acid. JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY. 2013 Jun 1;68(6):1439-40

Khan SN, Niemann S, Gulfraz M, Qayyum M, Siddiqi S, Mirza ZS, et al. Molecular Characterization of Multidrug-Resistant Isolates of Mycobacterium tuberculosis from Patients in Punjab, Pakistan. PAKISTAN JOURNAL OF ZOOLOGY. 2013 Feb;45(1):93–100.



Köser CU, Feuerriegel S, Summers DK, Archer JAC, Niemann S. Importance of the Genetic Diversity within the Mycobacterium tuberculosis Complex for the Development of Novel Antibiotics and Diagnostic Tests of Drug Resistance. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2012 Dec;56(12):6080–6087.

Ballif M, Harino P, Ley S, Coscolla M, Niemann S, Carter R, Coulter C, Borrell S, Siba P, Phuanukoonnon S, Gagneux S, Beck H-P. Drug resistance-conferring mutations in Mycobacterium tuberculosis from Madang, Papua New Guinea. BMC Microbiology 2012;12:191. Open Access
Agarwal V, Hammerschmidt S, Malm S, Bergmann S, Riesbeck K, Blom AM. Enolase of Streptococcus pneumoniae binds human complement inhibitor C4b-binding protein and contributes to complement evasion. JOURNAL OF IMMUNOLOGY 2012 Oct;189(7):3575–3584.

Ballif M, Harino P, Ley S, Carter R, Coulter C, Niemann S, Borrell S, Fenner L, Siba P, Phuanukoonnon S, Gagneux S, Beck H-P. Genetic diversity of Mycobacterium tuberculosis in Madang, Papua New Guinea. INTERNATIONAL JOURNAL OF TUBERCULOSIS AND LUNG DISEASE 2012 Aug;16(8):1100–1107.

Homolka S, Projahn M, Feuerriegel S, Ubben T, Diel R, Nübel U, Niemann S. High Resolution Discrimination of Clinical Mycobacterium tuberculosis Complex Strains Based on Single Nucleotide Polymorphisms. PLoS ONE 2012;7(7):e39855. Open Access

Reddington K, Zumla A, Bates M, Van Soolingen D, Niemann S, Barry T, O’Grady J. SeekTB, a Two-Stage Multiplex Real-Time-PCR-Based Method for Differentiation of the Mycobacterium tuberculosis Complex. JOURNAL OF CLINICAL MICROBIOLOGY 2012 Jul;50(7):2203–2206.

Weniger T, Krawczyk J, Supply P, Harmsen D, Niemann S. Online tools for polyphasic analysis of Mycobacterium tuberculosis complex genotyping data: Now and next. INFECTION GENETICS AND EVOLUTION 2012 Jun;12(4):748–754.

Köser CU, Niemann S, Summers DK, Archer JAC. Overview of errors in the reference sequence and annotation of Mycobacterium tuberculosis H37Rv, and variation amongst its isolates. INFECTION GENETICS AND EVOLUTION 2012 Jun;12(4):807–810.

Feuerriegel S, Oberhauser B, George AG, Dafae F, Richter E, Rüsch-Gerdes S, Niemann S. Sequence analysis for detection of first-line drug resistance in Mycobacterium tuberculosis strains from a high-incidence setting. BMC Microbiology 2012 May;12(1):90. Open Access

Maertzdorf J, Weiner J 3rd, Mollenkopf H-J, TBornotTB Network, Bauer T, Prasse A, Müller-Quernheim J, Kaufmann SHE. Common patterns and disease-related signatures in tuberculosis and sarcoidosis. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES 2012 May;109(20):7853-8.

Malm S, Jusko M, Eick S, Potempa J, Riesbeck K, Blom AM. Acquisition of Complement Inhibitor Serine Protease Factor I and Its Cofactors C4b-Binding Protein and Factor H by Prevotella intermedia. PLoS ONE 2012 Apr;7(4):e34852. Open Access

De Beer JL, Kremer K, Ködmön C, Supply P, Van Soolingen D, Global Network for the Molecular Surveillance of Tuberculosis 2009. First worldwide proficiency study on variable-number tandem-repeat typing of Mycobacterium tuberculosis complex strains. JOURNAL OF CLINICAL MICROBIOLOGY 2012 Mar;50(3):662–669.

Beckert P, Hillemann D, Kohl TA, Kalinowski J, Richter E, Niemann S, Feuerriegel S. rplC T460C Identified as a Dominant Mutation in Linezolid-Resistant Mycobacterium tuberculosis Strains. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2012 Feb;56(5):2743–2745.

Comas I, Borrell S, Roetzer A, Rose G, Malla B, Kato-Maeda M, Galagan J, Niemann S, Gagneux S. Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes. NATURE GENETICS 2012 Jan;44(1):106-10.



Feuerriegel S, Köser CU, Baù D, Rüsch-Gerdes S, Summers DK, Archer JAC, Marti-Renom MA, Niemann S. Impact of fgd1 and ddn diversity in Mycobacterium tuberculosis complex on in vitro susceptibility to PA-824. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2011 Dec;55(12):5718-22.

Roetzer A, Schuback S, Diel R, Gasau F, Ubben T, di Nauta A, Richter E, Rüsch-Gerdes S, Niemann S. Evaluation of Mycobacterium tuberculosis typing methods in a four-year study in Schleswig-Holstein, Northern Germany. JOURNAL OF CLINICAL MICROBIOLOGY 2011 Dec;49(12):4173-8.

Bonnet M, Pardini M, Meacci F, Orrù G, Yesilkaya H, Jarosz T, Andrew PW, Barer M, Checchi F, Rinder H, Orefici G, Rüsch-Gerdes S, Fattorini L, Oggioni MR, Melzer J, Niemann S, Varaine F. Treatment of Tuberculosis in a Region with High Drug Resistance: Outcomes, Drug Resistance Amplification and Re-Infection. PLoS ONE 2011 Aug;6:e23081. Open Access

Reddington K, O’Grady J, Dorai-Raj S, Niemann S, van Soolingen D, Barry T. A novel multiplex real-time PCR for the identification of mycobacteria associated with zoonotic tuberculosis. PloS One 2011;6(8):e23481. Open Access

Smith NH, Berg S, Dale J, Allen A, Rodriguez S, Romero B, Matos F, Ghebremichael S, Karoui C, Donati C, Machado A da C, Mucavele C, Kazwala RR, Hilty M, Cadmus S, Ngandolo BNR, Habtamu M, Oloya J, Muller A, Milian-Suazo F, Andrievskaia O, Projahn M, Barandiarán S, Macías A, Müller B, Zanini MS, Ikuta CY, Rodriguez CAR, Pinheiro SR, Figueroa A, Cho S-N, Mosavari N, Chuang P-C, Jou R, Zinsstag J, van Soolingen D, Costello E, Aseffa A, Proaño-Perez F, Portaels F, Rigouts L, Cataldi AA, Collins DM, Boschiroli ML, Hewinson RG, Neto JSF, Surujballi O, Tadyon K, Botelho A, Zárraga AM, Buller N, Skuce R, Michel A, Aranaz A, Gordon SV, Jeon B-Y, Källenius G, Niemann S, Boniotti MB, van Helden PD, Harris B, Zumárraga MJ, Kremer K. European 1: A globally important clonal complex of Mycobacterium bovis. INFECTION, GENETICS AND EVOLUTION 2011 Aug;11(6):1340-1351.

Supply P, Niemann S, Wirth T. On the mutation rates of spoligotypes and variable numbers of tandem repeat loci of Mycobacterium tuberculosis. Infect. Genet. Evol. 2011 Mar;11(2):251-252. [Comment on Reyes JF, Tanaka MM. Mutation rates of spoligotypes and variable numbers of tandem repeat loci in Mycobacterium tuberculosis. INFECTION, GENETICS AND EVOLUTION 2010 Oct;10(7):1046-1051.]

Thye T, Niemann S, Walter K, Homolka S, Intemann CD, Chinbuah MA, Enimil A, Gyapong J, Osei I, Owusu-Dabo E, Rüsch-Gerdes S, Horstmann RD, Ehlers S, Meyer CG. Variant G57E of mannose binding lectin associated with protection against tuberculosis caused by Mycobacterium africanum but not by M. tuberculosis. PLoS ONE 2011 Jun;6(6):e20908. Open Access

Plinke C, Walter K, Aly S, Ehlers S, Niemann S. Mycobacterium tuberculosis embB306 mutations confer moderately increased resistance to Ethambutol in vitro and in vivo. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2011 Jun;55(6):2891-6.

Projahn M, Köser CU, Homolka S, Summers DK, Archer JAC, Niemann S. Polymorphisms in isoniazid and prothionamide resistance genes of the Mycobacterium tuberculosis complex. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2011 Jun;55(9):4408-11.

Diel R, Loddenkemper R, Niemann S, Meywald-Walter K, Nienhaus A. Negative and Positive Predictive Value of a Whole-Blood Interferon-{gamma} Release Assay for Developing Active Tuberculosis: An Update. AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE 2011 Jan;183(1):88-95.



Homolka S, Meyer CG, Hillemann D, Owusu-Dabo E, Adjei O, Horstmann RD, Browne ENL, Chinbuah A, Osei I, Gyapong J, Kubica T, Ruesch-Gerdes S, Niemann S. Unequal distribution of resistance-conferring mutations among Mycobacterium tuberculosis and Mycobacterium africanum strains from Ghana. INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY 2010 Nov;300(7):489-95.

Feuerriegel S, Köser C, Trübe L, Archer J, Gerdes SR, Richter E, Niemann S. Thr202Ala in thyA is a marker for the Latin American Mediterranean lineage of the Mycobacterium tuberculosis complex rather than para-aminosalicylic acid resistance. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2010 Nov;54(11):4794-8.

Niemann S, Diel R, Khechinashvili G, Gegia M, Mdivani N, Tang Y. Mycobacterium tuberculosis Beijing Lineage favours the spread of multidrug resistant tuberculosis in the Republic of Georgia. JOURNAL OF CLINICAL MICROBIOLOGY 2010 Oct;48(10):3544-50.

Russell DG, VanderVen BC, Lee W, Abramovitch RB, Kim M, Homolka S, Niemann S, Rohde KH. Mycobacterium tuberculosis Wears What It Eats. CELL HOST & MICROBE 2010 Jul;8(1):68-76.

Homolka S, Niemann S, Russell DG, Rohde KH. Functional genetic diversity among Mycobacterium tuberculosis complex clinical isolates: delineation of conserved core and lineage-specific transcriptomes during intracellular survival. PLOS PATHOGENS 2010 Jul;6(7):e1000988 Open Access

Plinke C, Cox HS, Zarkua N, Karimovich HA, Braker K, Diel R, Rüsch-Gerdes S, Feuerriegel S, Niemann S. embCAB sequence variation among ethambutol-resistant Mycobacterium tuberculosis isolates without embB306 mutation. JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY 2010 Jul;65(7):1359-67.

Weniger T, Krawczyk J, Supply P, Niemann S, Harmsen D. MIRU-VNTRplus: a web tool for polyphasic genotyping of Mycobacterium tuberculosis complex bacteria. NUCLEIC ACIDS RESEARCH 2010 May;38(Suppl. 2):W326-W331.

Honisch C, Mosko M, Arnold C, Gharbia S, Diel R, Niemann S. Replacing Reverse Line Blot Hybridization Spoligotyping of the Mycobacterium tuberculosis Complex. JOURNAL OF CLINICAL MICROBIOLOGY 2010 May;48(5):1520-1526.

Comas I, Chakravartti J, Small PM, Galagan J, Niemann S, Kremer K, Ernst JD, Gagneux S. Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved. NATURE GENETICS 2010 May;42(6):498-503.

Devaux I, Manissero D, Fernandez de la Hoz K, Kremer K, van Soolingen D. Surveillance of extensively drug-resistant tuberculosis in Europe, 2003-2007. EUROSURVEILLANCE 2010 März;15(11): pii: 19518.

Vasconcellos S, Huard R, Niemann S, Kremer K, Santos A, Suffys P, Ho J. Distinct genotypic profiles of the two major clades of Mycobacterium africanum. BMC INFECTIOUS DISEASES 2010 Mar;10(80). Open Access



Barniol J, Niemann S, Louis V, Brodhun B, Dreweck C, Richter E, Becher H, Haas W, Junghanss T. Transmission dynamics of pulmonary tuberculosis between autochthonous and immigrant sub-populations. BMC INFECTIOUS DISEASES 2009 Dec;9(197). Open Access

Comas I, Homolka S, Niemann S, Gagneux S. Genotyping of Genetically Monomorphic Bacteria: DNA Sequencing in Mycobacterium tuberculosis Highlights the Limitations of Current Methodologies. PLOS ONE 2009 Nov;4(11):e7815. Open Access

Plinke C, Cox H, Kalon S, Doshetov D, Rusch-Gerdes S, Niemann S. Tuberculosis ethambutol resistance: Concordance between phenotypic and genotypic test results. TUBERCULOSIS 2009 Nov;89(6):448-452.

Niemann S, Koser C, Gagneux S, Plinke C, Homolka S, Bignell H, Carter R, Cheetham R, Cox A, Gormley N, Kokko-Gonzales P, Murray L, Rigatti R, Smith V, Arends F, Cox H, Smith G, Archer J. Genomic Diversity among Drug Sensitive and Multidrug Resistant Isolates of Mycobacterium tuberculosis with Identical DNA Fingerprints. PLOS ONE 2009 Oct;4(10):e7407. Open Access

Intemann C, Thye T, Niemann S, Browne E, Chinbuah M, Enimil A, Gyapong J, Osei I, Owusu-Dabo E, Helm S, Rusch-Gerdes S, Horstmann R, Meyer C. Autophagy Gene Variant IRGM-261T Contributes to Protection from Tuberculosis Caused by Mycobacterium tuberculosis but Not by M. africanum Strains. PLOS PATHOGENS 2009 Sep;5(9):e1000577. Open Access

Feuerriegel S, Cox H, Zarkua N, Karimovich H, Braker K, Rusch-Gerdes S, Niemann S. Sequence Analyses of Just Four Genes To Detect Extensively Drug-Resistant Mycobacterium tuberculosis Strains in Multidrug-Resistant Tuberculosis Patients Undergoing Treatment. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2009 Aug;53(8):3353-3356.

Thye T, Scarisbrick G, Browne E, Chinbuah M, Gyapong J, Osei I, Owusu-Dabo E, Niemann S, Rusch-Gerdes S, Meyer C, Horstmann R. CTLA4 Autoimmunity-Associated Genotype Contributes to Severe Pulmonary Tuberculosis in an African Population. PLOS ONE 2009 Jul;4(7):e6307. Open Access

Pardini M, Niemann S, Varaine F, Iona E, Meacci F, Orru G, Yesilkaya H, Jarosz T, Andrew P, Barer M, Checchi F, Rinder H, Orefici G, Rusch-Gerdes S, Fattorini L, Oggioni M, Bonnet M. Characteristics of drug-resistant tuberculosis in Abkhazia (Georgia), a high-prevalence area in Eastern Europe. TUBERCULOSIS 2009 Jul;89(4):317-324.

Thye T, Browne E, Chinbuah M, Gyapong J, Osei I, Owusu-Dabo E, Brattig N, Niemann S, Rusch-Gerdes S, Horstmann R, Meyer C. IL 10 Haplotype Associated with Tuberculin Skin Test Response but Not with Pulmonary TB. PLOS ONE 2009 May;4(5):e5420. Open Access

Homolka S, Koser C, Archer J, Rusch-Gerdes S, Niemann S. Single-Nucleotide Polymorphisms in Rv2629 Are Specific for Mycobacterium tuberculosis Genotypes Beijing and Ghana but Not Associated with Rifampin Resistance. JOURNAL OF CLINICAL MICROBIOLOGY 2009 Jan;47(1):223-226.



Hershberg R, Lipatov M, Small P, Sheffer H, Niemann S, Homolka S, Roach J, Kremer K, Petrov D, Feldman M, Gagneux S. High Functional Diversity in Mycobacterium tuberculosis Driven by Genetic Drift and Human Demography. PLOS BIOLOGY 2008 Dec;6(12):2658-2671. Open Access

Cox H, Sibilia K, Feuerriegel S, Kalon S, Polonsky J, Khamraev A, Rusch-Gerdes S, Mills C, Niemann S. Emergence of Extensive Drug Resistance during Treatment for Multidrug-Resistant Tuberculosis. NEW ENGLAND JOURNAL OF MEDICINE 2008 Nov;359(22):2398-2400.

Wirth T, Hildebrand F, Allix-Beguec C, Wolbeling F, Kubica T, Kremer K, van Soolingen D, Rusch-Gerdes S, Locht C, Brisse S, Meyer A, Supply P, Niemann S. Origin, spread and demography of the Mycobacterium tuberculosis complex. PLOS PATHOGENS 2008 Sep;4(9). Open Access

Meyer C, Scarisbrick G, Niemann S, Browne E, Chinbuah M, Gyapong J, Osei I, Owusu-Dabo E, Kubica T, Rusch-Gerdes S, Thye T, Horstmann R. Pulmonary tuberculosis: Virulence of Mycobacterium africanum and relevance in HIV co-infection. TUBERCULOSIS 2008 Sep;88(5):482-489.

Allix-Beguec C, Harmsen D, Weniger T, Supply P, Niemann S. Evaluation and strategy for use of MIRU-VNTRplus, a multifunctional database for online analysis of genotyping data and phylogenetic identification of Mycobacterium tuberculosis complex isolates. JOURNAL OF CLINICAL MICROBIOLOGY 2008 Aug;46(8):2692-2699.

Homolka S, Post E, Oberhauser B, George A, Westman L, Dafae F, Rusch-Gerdes S, Niemann S. High genetic diversity among Mycobacterium tuberculosis complex strains from Sierra Leone. BMC MICROBIOLOGY 2008 Jun:8(103). Open Access

Diel R, Loddenkemper R, Meywald-Walter K, Niemann S, Nienhaus A. Predictive value of a whole blood IFN-gamma assay for the development of active tuberculosis disease after recent infection with Mycobacterium tuberculosis. AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE 2008 May;177(10):1164-1170.

Herb F, Thye T, Niemann S, Browne E, Chinbuah M, Gyapong J, Osei I, Owusu-Dabo E, Werz O, Rusch-Gerdes S, Horstmann R, Meyer C. ALOX5 variants associated with susceptibility to human pulmonary tuberculosis. HUMAN MOLECULAR GENETICS 2008 Apr;17(7):1052-1060.



Kodmon C, Niemann S, Gutierrez M, Sola C, Rastogi N, Lukacs J, Somoskovi A. Molecular clues of a microepidemy among homeless tuberculosis patients in Budapest due to a new and local Mycobacterium tuberculosis clade. INFECTION GENETICS AND EVOLUTION 2007 Sep;7(5):632-635.

Cox H, Niemann S, Ismailov G, Doshetov D, Orozco J, Blok L, Rusch-Gerdes S, Kebede Y. Risk of acquired drug resistance during short-course directly observed treatment of tuberculosis in an area with high levels of drug resistance. CLINICAL INFECTIOUS DISEASES 2007 Jun;44(11):1421-1427.

Oelemann M, Diel R, Vatin V, Haas W, Rusch-Gerdes S, Locht C, Niemann S, Supply P. Assessment of an optimized mycobacterial interspersed repetitive-unit-variable-number tandem-repeat typing system combined with spoligotyping for population-based molecular epidemiology studies of tuberculosis. JOURNAL OF CLINICAL MICROBIOLOGY 2007 Marz;45(3):691-697.


2005 -2006 (Selection)

Supply P, Allix C, Lesjean S, Cardoso-Oelemann M, Rusch-Gerdes S, Willery E, Savine E, de Haas P, van Deutekom H, Roring S, Bifani P, Kurepina N, Kreiswirth B, Sola C, Rastogi N, Vatin V, Gutierrez M, Fauville M, Niemann S, Skuce R, Kremer K, Locht C, van Soolingen D. Proposal for standardization of optimized mycobacterial interspersed repetitive unit-variable-number tandem repeat typing of Mycobacterium tuberculosis. JOURNAL OF CLINICAL MICROBIOLOGY 2006 Dec;44(12):4498-4510.

Kodmon C, Niemann S, Lukacs J, Sor E, David S, Somoskovi A. Molecular epidemiology of drug-resistant tuberculosis in Hungary. JOURNAL OF CLINICAL MICROBIOLOGY 2006 Nov;44(11):4258-4261.

Yesilkaya H, Meacci F, Niemann S, Hillemann D, Rusch-Gerdes S, Barer M, Andrew P, Oggioni M. Evaluation of molecular-beacon, TaqMan, and fluorescence resonance energy transfer probes for detection of antibiotic resistance-conferring single nucleotide Polymorphisms in mixed Mycobacterium tuberculosis DNA extracts. JOURNAL OF CLINICAL MICROBIOLOGY 2006 Oct;44(10):3826-3829.

Cox H, Kebede Y, Allamuratova S, Ismailov G, Davletmuratova Z, Byrnes G, Stone C, Niemann S, Rusch-Gerdes S, Blok L, Doshetov D. Tuberculosis recurrence and mortality after successful treatment: Impact of drug resistance. PLOS MEDICINE 2006 Oct;3(10):1836-1843. Open Access

Thye T, Browne E, Chinbuah M, Gyapong J, Osei I, Owusu-Dabo E, Niemann S, Rusch-Gerdes S, Horstmann R, Meyer C. No associations of human pulmonary tuberculosis with Sp110 variants. JOURNAL OF MEDICAL GENETICS 2006 Jul;43(7).
Owusu-Dabo E, Adjei O, Meyer C, Horstmann R, Enimil A, Kruppa T, Bonsu F, Browne E, Chinbuah M, Osei I, Gyapong J, Berberich C, Kubica T, Niemann S, Ruesch-Gerdes S. Mycobacterium tuberculosis drug resistance, Ghana. EMERGING INFECTIOUS DISEASES 2006 Jul;12(7):1170-1172.

Diel R, Ernst M, Doscher G, Visuri-Karbe L, Greinert U, Niemann S, Nienhaus A, Lange C. Avoiding the effect of BCG vaccination in detecting Mycobacterium tuberculosis infection with a blood test. EUROPEAN RESPIRATORY JOURNAL 2006 Jul;28(1):16-23.

Plinke C, Rusch-Gerdes S, Niemann S. Significance of mutations in embB codon 306 for prediction of ethambutol resistance in clinical Mycobactetium tuberculosis isolates. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2006 May;50(5):1900-1902.

Kubica T, Agzamova R, Wright A, Rakishev G, Rusch-Gerdes S, Niemann S. Mycobacterium bovis isolates with M. tuberculosis specific characteristics. EMERGING INFECTIOUS DISEASES 2006 May;12(5):763-765.

Brudey K, Driscoll J, Rigouts L, Prodinger W, Gori A, Al-Hajoj S, Allix C, Aristimuno L, Arora J, Baumanis V, Binder L, Cafrune P, Cataldi A, Cheong S, Diel R, Ellermeier C, Evans J, Fauville-Dufaux M, Ferdinand S, Garcia de Viedma D, Garzelli C, Gazzola L, Gomes H, Guttierez M, Hawkey P, van Helden P, Kadival G, Kreiswirth B, Kremer K, Kubin M, Kulkarni S, Liens B, Lillebaek T, Ly H, Martin C, Martin C, Mokrousov I, Narvskaia O, Ngeow Y, Naumann L, Niemann S, Parwati I, Rahim Z, Rasolofo-Razanamparany V, Rasolonavalona T, Rossetti M, Rusch-Gerdes S, Sajduda A, Samper S, Shemyakin I, Singh U, Somoskovi A, Skuce R, van Soolingen D, Streicher E, Suffys P, Tortoli E, Tracevska T, Vincent V, Victor T, Warren R, Yap S, Zaman K, Portaels F, Rastogi N, Sola C. Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpoIDB4) for classification, population genetics and epidemiology. BMC MICROBIOLOGY 2006 Marz;6(23). Open Access

Gagneux S, DeRiemer K, Van T, Kato-Maeda M, de Jong B, Narayanan S, Nicol M, Niemann S, Kremer K, Gutierrez M, Hilty M, Hopewell P, Small P. Variable host-pathogen compatibility in Mycobacterium tuberculosis. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF 2006 Feb;103(8):2869-2873.

Cox H, Kubica T, Doshetov D, Kebede Y, Rusch-Gerdess S, Niemann S. The Beijing genotype and drug resistant tuberculosis in the Aral Sea region of Central Asia. RESPIRATORY RESEARCH 2005 Nov;6(134). Open Access

Kubica T, Agzamova R, Wright A, Aziz M, Rakishev G, Bismilda V, Richter E, Rusch-Gerdes S, Niemann S. The Beijing genotype is a major cause of drug-resistant tuberculosis in Kazakhstan. INTERNATIONAL JOURNAL OF TUBERCULOSIS AND LUNG DISEASE 2005 Jun;9(6):646-653.