Publications


2020

Matthias I. Gröschel, Conor J. Meehan, Ivan Barilar, Margo Diricks, Aitor Gonzaga, Matthias Steglich, Oscar Conchillo-Solé, Isabell-Christin Scherer, Uwe Mamat, Christian F. Luz, Katrien De Bruyne, Christian Utpatel, Daniel Yero, Isidre Gibert, Xavier Daura, Stefanie Kampmeier, Nurdyana Abdul Rahman, Michael Kresken, Tjip S. van der Werf, Ifey Alio, Wolfgang R. Streit, Kai Zhou, Thomas Schwartz, John W. A. Rossen, Maha R. Farhat, Ulrich E. Schaible, Ulrich Nübel, Jan Rupp, Joerg Steinmann, Stefan Niemann & Thomas A. Kohl 2020. The phylogenetic landscape and nosocomial spread of the multidrug-resistant opportunist Stenotrophomonas maltophilia. doi.org/10.1038/s41467-020-15123-0

(Article).

Matthias Merker, Thomas A. Kohl, Ivan Barilar, Sönke Andres, Philip W. Fowler, Erja Chryssanthou, Kristian Ängeby, Pontus Jureen, Danesh Moradigaravand, Julian Parkhill, Sharon J. Peacock, Thomas Schön, Florian P. Maurer, Timothy Walker, Claudio Köser , Stefan Niemann 2020. Phylogenetically informative mutations in genes implicated in antibiotic resistance in Mycobacterium tuberculosis complex. doi.org/10.1186/s13073-020-00726-5

(Article).

Matthias Merker, Elena Nikolaevskaya, Thomas A. Kohl, Barbara Molina-Moya, Olha Pavlovska, Patrik Brännberg, Andrii Dudnyk, Valentyna Stokich, Ivan Barilar, Iryna Marynova, Tetiana Filipova, Cristina Prat, Anders Sjöstedt, Jose Dominguez, Olena Rzhepishevska, and Stefan Niemann. 2020 M ultidrug- and Extensively Drug-Resistant Mycobacterium tuberculosis Beijing Clades, Ukraine, 2015 doi.org/10.3201/eid2603.190525.

(Article).

Maxime Godfroid, Tal Dagan, Matthias Merker, Thomas A. Kohl, Roland Diel, P. Maurer, Stefan Niemann, Anne Kupczok 2020. Insertion and deletion evolution reflects antibiotics selection pressure in a Mycobacterium tuberculosis outbreak. bioRxiv doi.org/10.1101/2020.01.28.922765

(Article).

2019

von Frieling J, Fink C, Hamm J, Klischies K, Forster M, Bosch TC, Roeder T, Rosenstiel P, Sommer F. 2018.Grow with the challenge - microbial effects on epithelial proliferation, carcinogenesis and cancer therapy. Frontiers in Microbiology, doi: 10.3389/fmicb.2018.02020.

(Article).

Lüersen K, Roeder T, Rimbach G,. 2019. Drosophila melanogaster in nutrition research - the importance of standardizing experimental diets. Genes and Nutrition, 14(3) doi.org/10.1186/s12263-019-0627-9.

(Article).

Silke Polsfuss, Sabine Hofmann-Thiel, Matthias Merker, David Krieger, Stefan Niemann, Holger Rüssmann, Nicolas Schönfeld, Harald Hoffmann, Katharina Kranzer. 2019. Emergence of Low-level Delamanid and Bedaquiline Resistance During Extremely Drug-resistant Tuberculosis Treatment. Clinical Infectious Diseases, Volume 69, Issue 7, 1 October 2019, Pages 1229–1231.doi.org/10.1093

(Article).

Roland Diel, Thomas A. Kohl, Florian P. Maurer, Matthias Merker, Karen Meywald Walter , Jörg Hannemann, Albert Nienhaus, Philip Supply and Stefan Niemann. 2019 Accuracy of whole-genome sequencing to determine recent tuberculosis transmission: an 11-year population-based study in Hamburg, Germany. Eur Respir J. 2019 Nov; 54(5): 1901154. doi: 10.1183/13993003.01154-2019

(Article).

Camilo Barbosa, Roderich Römhild, Philip Rosenstiel, Hinrich Schulenburg. Evolutionary stability of collateral sensitivity to antibiotics in the model pathogen Pseudomonas aeruginosa. eLife 2019;8:e51481 doi: 10.7554/eLife.51481

(Article).

Tueffers L, Barbosa C, Bobis I, Schubert S, Höppner M, Rühlemann M, Franke A, Rosenstel P, Friedrichs A, Krenz-Weinreich A, Fickenscher H, Bewig B, Schreiber S, Schulenburg H. Pseudomonas aeruginosa populations in the cystic fibrosis lung lose susceptibility to newly applied β-lactams within 3 days. J Antimicrob Chemother. 2019 Oct 1;74(10):2916-2925. doi: 10.1093/jac/dkz297

(Article).

Romero Picazo D, Dagan T, Ansorge R, Petersen JM, Dubilier N, Kupczok A. Horizontally transmitted symbiont populations in deep-sea mussels are genetically isolated. ISME J. 2019 Aug 8. doi: 10.1038/s41396-019-0475-z. [Epub ahead of print]

(Article).

Kupczok A, Dagan T. Rates of Molecular Evolution in a Marine Synechococcus Phage Lineage. Viruses. 2019 Aug 6;11(8). pii: E720. doi: 10.3390/v11080720.

(Article).

Bartel S, La Grutta S, Cilluffo G, Perconti G, Bongiovanni A, Giallongo A, Behrends J, Kruppa J, Hermann S, Chiang D, Pfaffl MW, Krauss-Etschmann S. Human airway epithelial extracellular vesicle miRNA signature is altered upon asthma development. Allergy. 2019 Aug 6. doi: 10.1111/all.14008. [Epub ahead of print]PMID:31386204

(Article).

Bossen J, Uliczka K, Steen L, Pfefferkorn R, Mai MM, Burkhardt L, Spohn M, Bruchhaus I, Fink C, Heine H, Roeder T. An EGFR-induced Drosophila lung tumor model identifies alternative combination treatments. Mol Cancer Ther. 2019 Jun 19.

(Article).

Arandjelović I*, Merker M*, Richter E, Kohl TA, Savić B, Soldatović I, Wirth T, Vuković D, Niemann S. Longitudinal Outbreak of Multidrug-Resistant Tuberculosis in a Hospital Setting, Serbia. Emerg Infect Dis. 2019 Mar;25(3):555-558. *equal contribution.

(Article).

Ilhan J, Kupczok A, Woehle C, Wein T, Hülter NF, Rosenstiel P, Landan G, Mizrahi I, Dagan T. Segregational Drift and the Interplay between Plasmid Copy Number and Evolvability. Mol Biol Evol. 2019 Mar 1;36(3):472-486. doi: 10.1093/molbev/msy225.

(Article).

Roemhild R, Schulenburg H (2019) Evolutionary Ecology meets the Antibiotic Crisis: Can we control Pathogen Adaptation through Sequential Therapy? Evol Med Public Health 2019:37-45

(Article).

Polsfuss S*, Hofmann-Thiel S*, Merker M*, Krieger D, Niemann S, Rüssmann H, Schönfeld N, Hoffmann H, Kranzer K. Emergence of Low-level Delamanid and Bedaquiline Resistance During Extremely Drug-resistant Tuberculosis Treatment. Clin Infect Dis. 2019. *equal contribution.

(Article).

2018

Merker M, Barbier M, Cox H, Rasigade JP, Feuerriegel S, Kohl TA, Diel R, Borrell S, Gagneux S, Nikolayevskyy V, Andres S, Nübel U, Supply P, Wirth T, Niemann S. Compensatory evolution drives multidrug-resistant tuberculosis in Central Asia. Elife. 2018 Oct 30;7. pii: e38200.

(Article).

Roemhild R, Gokhale CS, Dirksen P, Blake C, Rosenstiel P, Traulsen A, Andersson, DI, Schulenburg H (2018) Cellular hysteresis as a principle to maximize the efficacy of antibiotic therapy. PNAS September 25, 2018 115 (39) 9767-9772

(Article).

Godfroid M, Dagan T, Kupczok A. Recombination Signal in Mycobacterium tuberculosis Stems from Reference-guided Assemblies and Alignment Artefacts. Genome Biol Evol. 2018 Aug 1;10(8):1920-1926.

(Article).

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 (equal contribution), Böttger EC, Keller PM; MDR-TB Cluster Consortium. A cluster of multidrug-resistant Mycobacterium tuberculosis among patients arriving in Europe from the Horn of Africa: a molecular epidemiological study. Lancet Infect Dis 2018 18(4):431-440. doi: 10.1016/S1473-3099(18)30004-5.

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 (equal contribution), Lange C, Merker M. What is resistance? Impact of phenotypic versus molecular drug resistance testing on multi- and extensively drug-resistant tuberculosis therapy. Antimicrob Agents Chemother 2017 pii: AAC.01550-17

Barbosa C, Trebosc V, Kemmer C, Rosenstiel P, Beardmore R, Schulenburg H*, Jansen G* Alternative evolutionary paths to bacterial antibiotic resistance cause distinct collateral effects. Mol. Biol. Evol. 2017; 34:2229-2244. * Shared senior authorship.

Barbosa C, Beardmore R, Schulenburg H*, Jansen G* (2018) Antibiotic combination efficacy (ACE) networks for a Pseudomonas aeruginosa model. PLoS Biol. 16: e2004356. * Shared senior authorship.

Prange R*, Thiedmann M*, Bhandari A, Mishra N, Sinha A, Häsler R, Rosenstiel P, Uliczka K, Wagner C, Yldirim AÖ, Fink C, Roeder T A Drosophila model of cigarette smoke induced COPD identifies Nrf2 signaling as an expendient target for intervention Aging 2018; 10: 2122-2135. doi: 10.18632/aging.101536.

Romey-Glüsing R*, Li Y*, Hoffmann J, von Frieling J, Knop M, Pfefferkorn R, Bruchhaus I, Fink C, Roeder T Nutritional regimens with periodically recurring phases of dietary restriction extend lifespan in Drosophila. FASEB, 2018; J 32: 1993-2003. doi: 10.1096/fj.201700934R

Reiling N, Homolka S, Kohl TA, Steinhäuser C, Kolbe K, Schütze S, Brandenburg J. Shaping the niche in macrophages: Genetic diversity of the M. tuberculosis complex and its consequences for the infected host. Int J Med Microbiol. 2017 Sep 14. pii: S1438-4221(17)30294-1

Fehrenbach H, Wagner C, Wegmann M. Airway remodeling in asthma: what really matters. Cell Tissue Res. 2017 Mar;367(3):551-569.

Stucki D, Brites D, Jeljeli L (equal contribution), 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 SE, Suffys P, Koch A, Wilkinson R, Gail-Bekker L, Malla B, Ley SD, Beck HP, 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. Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages. Nat Genet 2016 48(12):1535-1543

S. Bartel, G. Carraro, F. Alessandrini, S. Krauss-Etschmann, FLM. Ricciardolo, S. Bellusci . miR-142-3p is associated with aberrant WNT signaling during airway remodeling in asthma. Am J Physiol Lung Cell Mol Physiol. 2018 Aug 1;315(2):L328-L333. doi: 10.1152/ajplung.00113.2018

M. Kostric, K. Milger, S. Krauss-Etschmann, M. Engel, G.Vestergaarda, M. Schloter, A. Schöler. Development of a stable lung microbiome in healthy neonatal mice.
Microb Ecol. 2018 75(2):529-542;doi: 10.1007/s00248-017-1068

Dallenga T, Repnik U, Corleis B, Eich J, Reimer R, Griffiths GW, Schaible UE. M. tuberculosis-Induced Necrosis of Infected Neutrophils Promotes Bacterial Growth Following Phagocytosis by Macrophages. Cell Host Microbe. 2017 Oct 11;22(4):519-530.e3. doi: 10.1016/j.chom.2017.09.003.

Belheouane, M., Gupta, Y., Künzel, S., Ibrahim, S. & Baines, J.F. Improved detection of gene-microbe interactions in the mouse skin microbiota using high-resolution QTL mapping of 16S rRNA transcripts. Microbiome 2017; 5, 59

Wang, J., Thingholm, L.B., Skiecevičienė, J., Rausch, P., Kummen, M., Hov, J.R., Degenhardt, F., Heinsen, F.-A., Rühlemann, M.C., Szymczak, S., Holm, K., Esko, T., Sun, J., Pricop-Jeckstadt, M., Al-Dury, S., Bohov, P., Bethune, J., Sommer, F., Ellinghaus, D., Berge, R.K., Hübenthal, M., Koch, M., Schwarz, K., Rimbach, G., Hübbe, P., Pan, W.-H., Sheibani-Tezerji, R., Häsler, R., Rosenstiel, P., D'Amato, M., Cloppenborg-Schmidt, K., Künzel, S., Laudes, M., Marschall, H.-U., Lieb, W., Nöthlings, U., Karlsen, T.H.*, Baines, J.F.* & Franke, A.* Genome-wide association analysis identifies variation in vitamin D receptor and other host factors influencing the gut microbiota. Nature Genetics 2016; 48, 1396-1406

Peuker, K., Muff, S., Wang, J., Künzel, S., Bosse, E., Zeissig, Y., Luzzi, G., Basic, M., Strigli, A., Ulbricht, A., Kasser, A., Arlt, A., Chavakis, T., van den Brink, G.R., Schafmayer, C., Egberts, J.H., Becker, T., Bianchi, M.E., Bleich, A., Röcken, C., Hampe, J., Schreiber, S., Baines, J. F., Blumberg, R.S. & Zeissig, S. Epithelial calcineurin controls microbiota-dependent intestinal tumor development. Nature Medicine 2016; 22, 506-515

2017

Alternative evolutionary paths to bacterial antibiotic resistance cause distinct collateral effects. Barbosa C, Trebosc V, Kemmer C, Rosenstiel P, Beardmore R, Schulenburg H*, Jansen G* (2017) Mol. Biol. Evol. 34:2229-2244 (Article). *Shared senior authorship

(Article).

Airway remodeling in asthma: what reall matters Fehrenbach H, Wagner C, Wegmann M [2017] Cell Tissue Res 2017: 551-569

(Article).

Influences of environmental bacteria and their metabolites on allergies, asthma, and host microbiota.
Jatzlauk G, Bartel S, Heine H, Schloter M, Krauss-Etschmann S.
Allergy. 2017 Dec;72(12):1859-1867. doi: 10.1111/all.13220. Epub 2017 Jun 28. Review.

(Article).

Development of a Stable Lung Microbiome in Healthy Neonatal Mice.
Kostric M, Milger K, Krauss-Etschmann S, Engel M, Vestergaard G, Schloter M, Schöler A.
Microb Ecol. 2017 Sep 13. doi: 10.1007/s00248-017-1068-x. [Epub ahead of print]

(Article).

Identification of a plasma miRNA biomarker-signature for allergic asthma: a translational approach.
K. Milger, J.Götschke, L. Krause, P. Nathan, F. Alessandrini, A. Tufman, R. Fischer, S. Bartel, F. J. Theis, J. Behr, S. Dehmel, N.S. Mueller, N. Kneidinger, S. Krauss-Etschmann.
Allergy 2017 Dec;72(12):1962-1971. doi: 10.1111/all.13205

(Article).

D-tryptophan from probiotic bacteria influences the gut microbiome and allergic airway disease.
Kepert I, Fonseca J, Müller C, Milger K, Hochwind K, Kostric M, Fedoseeva M, Ohnmacht C, Dehmel S, Nathan P, Bartel S, Eickelberg O, Schloter M, Hartmann A, Schmitt-Kopplin P, Krauss-Etschmann S.
J Allergy Clin Immunol. 2017 May;139(5):1525-1535. doi: 10.1016/j.jaci.2016.09.003. Epub 2016 Sep 23.

(Article).

Pulmonary microRNA profiles identify involvement of Creb1 and Sec14l3 in bronchial epithelial changes in allergic asthma.
Bartel S, Schulz N, Alessandrini F, Schamberger AC, Pagel P, Theis FJ, Milger K, Noessner E, Stick SM, Kicic A, Eickelberg O, Freishtat RJ, Krauss-Etschmann S.
Sci Rep. 2017 Apr 6;7:46026. doi: 10.1038/srep46026.

(Article).

The potential for targeted rewriting of epigenetic marks in COPD as a new therapeutic approach.
Wu DD, Song J, Bartel S, Krauss-Etschmann S, Rots MG, Hylkema MN.

(Article).

2016

Prenatal exposure to tobacco smoke sex dependently influences methylation and mRNA levels of the Igf axis in lungs of mouse offspring.
K. Meyer, S. Krauss-Etschmann, W. Kooistra, M. Reinders-Luinge, W. Timens, L. Kobzik, T. Plösch, M. Hylkema..
AJP Lung Apr 1;312(4):L542-L555. doi: 10.1152/ajplung.00271.2016

(Article).

Association between clinical antibiotic resistance and susceptibility of Pseudomonas in the cystic fibrosis lung.Jansen G, Mahrt N, Tueffers L, Barbosa C, Harjes M, Adolph G, Friedrichs A, Krenz-Weinreich A, Rosenstiel P, Schulenburg H (2016) Association between clinical antibiotic resistance and susceptibility of Pseudomonas in the cystic fibrosis lung. Evol Med Publ Health 2016:182-194

(Article).