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Institut für Medizinische Mikrobiologie

Publikationen/Publications (selected)

2024

  1. Type IV-A3 CRISPR-Cas systems drive inter-plasmid conflicts by acquiring spacers in trans.
    Benz F, Camara-Wilpert S, Russel J, Wandera KG, Čepaitė R, Ares-Arroyo M, Gomes-Filho JV, Englert F, Kuehn JA, Gloor S, Mestre MR, Cuénod A, Aguilà-Sans M, Maccario L, Egli A, Randau L, Pausch P, Rocha EPC, Beisel CL, Madsen JS, Bikard D, Hall AR, Sørensen SJ, Pinilla-Redondo R (2024)
    Cell Host Microbe: Online ahead of print
  2. Utilization of a Meningitis/Encephalitis PCR panel at the University Hospital Basel - a retrospective study to develop a diagnostic decision rule.
    Erba A, Franzeck FC, Hinic V, Egli A, Osthoff M (2024)
    Front Med (Lausanne) 11: 1351903
  3. Nitric oxide signaling through three receptors regulates virulence, biofilm formation, and phenotypic heterogeneity of Legionella pneumophila.
    Michaelis S, Chen T, Schmid C, Hilbi H (2024)
    mBio: Online ahead of print
  4. Rapid detection of plasmid-mediated AmpC-producers by eazyplex® SuperBug AmpC assay compared to wholegenome sequencing.
    Hinić V, Seth-Smith HMB, Stammler S, Egli A (2024)
    J Microbiol Methods: Online ahead of print
  5. An RNA-dependent and phase-separated active subnuclear compartment safeguards repressive chromatin domains.
    Lerra L, Panatta M, Bär D, Zanini I, Tan JY, Pisano A, Mungo C, Baroux C, Panse VG, Marques AC, Santoro R (2024)
    Mol Cell 84: 1667-1683>  
  6. Impact of the COVID-19 pandemic on the real-world diagnostic infrastructure for tuberculosis-An ESGMYC collaborative study.
    Paulowski L, Filip R, Jankovic Makek M, Guglielmetti L, Goletti D, van Ingen J, Kranzer K, Maurer FP; ESGMYC (2024)
    PLoS One  19: e0291404
  7. Tularemia on the rise in Switzerland? A one health approach is needed!
    Buettcher M, Egli A, Albini S, Altpeter E, Labutin A, Guidi V, Tonolla M, Lienhard R, Opota O, Schmid P, Wuethrich T, Schmidt KM; TULAR-CH working group (2024)
    Infection:  Online ahead of print
  8. How much should we sequence? An analysis of the Swiss SARS-CoV-2 surveillance effort.
    Wegner F, Cabrera-Gil B, Tanguy A, Beckmann C, Beerenwinkel N, Bertelli C, Carrara M, Cerutti L, Chen C, Cordey S, Dumoulin A, du Plessis L, Friedli M, Gerth Y, Greub G, Härri A, Hirsch H, Howald C, Huber M, Imhof A, Kaiser L, Kufner V, Leib SL, Leuzinger K, Lleshi E, Martinetti G, Mäusezahl M, Moraz M, Neher R, Nolte O, Ramette A, Redondo M, Risch L, Rohner L, Roloff T, Schläepfer P, Schneider K, Singer F, Spina V, Stadler T, Studer E, Topolsky I, Trkola A, Walther D, Wohlwend N, Zehnder C, Neves A, Egli A; SPSP consortium (2024)
    Spectr: Online ahead of print
  9. S-Gene Target Failure as an Effective Tool for Tracking the Emergence of Dominant SARS-CoV-2 Variants in Switzerland and Liechtenstein, Including Alpha, Delta, and Omicron BA.1, BA.2, and BA.4/BA.5.
    Hilti D, Wehrli F, Berchtold S, Bigler S, Bodmer T, Seth-Smith HMB, Roloff T, Kohler P, Kahlert CR, Kaiser L, Egli A, Risch L, Risch M, Wohlwend N (2024)
    Microorganisms 12: 321
  10. Pneumonia outbreaks due to re-emergence of Mycoplasma pneumoniae.
    Meyer Sauteur PM, Beeton ML; European Society of Clinical Microbiology and Infectious Diseases (ESCMID) Study Group for Mycoplasma and Chlamydia Infections (ESGMAC), and the ESGMAC Mycoplasma pneumoniae Surveillance (MAPS) study group (2024)
    Lancet Microbe: Online ahead of print
  11. Historic methicillin-resistant Staphylococcus aureus: expanding current knowledge using molecular epidemiological characterization of a Swiss legacy collection.
    Benvenga V, Cuénod A, Purushothaman S, Dasen G, Weisser M, Bassetti S, Roloff T, Siegemund M, Heininger U, Bielicki J, Wehrli M, Friderich P, Frei R, Widmer A, Herzog K, Fankhauser H, Nolte O, Bodmer T, Risch M, Dubuis O, Pranghofer S, Calligaris-Maibach R, Graf S, Perreten V, Seth-Smith HMB, Egli A (2024)
    Genome Med 16: 23
  12. Molecular analysis of metallo-beta-lactamase-producing Pseudomonas aeruginosa in Switzerland 2022-2023.
    Findlay J, Raro OHF, Poirel L, Nordmann P; NARA Network (2024)
    Eur J Clin Microbiol Infect Dis: Online ahead of print
  13. In vitro susceptibility of Neisseria gonorrhoeae to netilmicin and etimicin in comparison to gentamicin and other aminoglycosides.
    Gross S, Herren S, Gysin M, Rominski A, Roditscheff A, Risch M, Imkamp F, Crich D, Hobbie SN (2024)
    Eur J Clin Microbiol Infect Dis: Online ahead of print
  14. Phenotypic and genotypic characterization of Neisseria gonorrhoeae Isolates among individuals at high risk for sexually transmitted diseases in Zurich, Switzerland.
    Jünger C, Imkamp F, Balakrishna S, Gysin M, Haldimann K, Brugger SD, Scheier TC, Hampel B, Hobbie SN, Günthard HF, Braun DL (2024)
    Int J STD AIDS: Online ahead of print
  15. Enterobacterales carrying chromosomal AmpC β-lactamases in Europe (EuESCPM): epidemiology and antimicrobial resistance burden from a cohort of 27 hospitals, 2020-2022.
    Boattini M, Bianco G, Llorente LI, Acero LA, Nunes D, Seruca M, Mendes VS, Almeida A, Bastos P, Rodríguez-Villodres Á, Gascón AG, Halperin AV, Cantón R, Escartín MNL, González-López JJ, Floch P, Massip C, Chainier D, Barraud O, Dortet L, Cuzon G, Zancanaro C, Mizrahi A, Schade R, Rasmussen AN, Schønning K, Hamprecht A, Schaffarczyk L, Glöckner S, Rödel J, Kristóf K, Balonyi Á, Mancini S, Quiblier C, Fasciana T, Giammanco A, Paglietti B, Rubino S, Budimir A, Bedenić B, Rubic Z, Marinović J, Gartzonika K, Christaki E, Mavromanolaki VE, Maraki S, Yalçın TY, Azap ÖK, Licker M, Musuroi C, Talapan D, Ovidiu VC, Comini S, Zalas-Więcek P, Michalska A, Cavallo R, Cristino JM, Costa C (2024)
    Int J Antimicrob Agents: Online ahead of print
  16. Revitalizing antibiotic discovery and development through in vitro modelling of in-patient conditions.
    Sollier J, Basler M, Broz P, Dittrich PS, Drescher K, Egli A, Harms A, Hierlemann A, Hiller S, King CG, McKinney JD, Moran-Gilad J, Neher RA, Page MGP, Panke S, Persat A, Picotti P, Rentsch KM, Rivera-Fuentes P, Sauer U, Stolz D, Tschudin-Sutter S, van Delden C, van Nimwegen E, Veening JW, Zampieri M, Zinkernagel AS, Khanna N, Bumann D, Jenal U, Dehio C (2024)
    Nat Microbiol 9: 1-3
  17. Regional spread of an atypical ESBL-producing Escherichia coli ST131H89 clone among different human and environmental reservoirs in Western Switzerland.
    Martischang R, Seth-Smith H, Verschuuren TD, Héquet D, Gaïa N, François P, Fluit AC, Kluytmans JAJW, Seiffert SN, Tacconelli E, Cherkaoui A, Harbarth S, Egli A, Kohler P (2024)
    Antimicrob Agents Chemother: online ahead of print
  18. Phage Paride can kill dormant, antibiotic-tolerant cells of Pseudomonas aeruginosa by direct lytic replication.
    Maffei E, Woischnig AK, Burkolter MR, Heyer Y, Humolli D, Thürkauf N, Bock T, Schmidt A, Manfredi P, Egli A, Khanna N, Jenal U, Harms A (2024)
    Nat Commun 15: 175
  19. Doa10/MARCH6 architecture interconnects E3 ligase activity with lipid-binding transmembrane channel to regulate SQLE.
    Botsch JJ, Junker R, Sorgenfrei M, Ogger PP, Stier L, von Gronau S, Murray PJ, Seeger MA, Schulman BA, Bräuning B (2024)
    Nat Commun 15: 410
  20. Detection of Scedosporium spp.: Colonizer or pathogen? A retrospective analysis of clinical significance and management in a large tertiary centre.
    Reinhold I, Quiblier C, Blaser F, Bögeholz J, Imkamp F, Schuurmans MM, Soyka MB, Zbinden R, Mueller NJ (2024)
    Med Mycol: Online ahead of print
  21. Novel Organism Verification and Analysis (NOVA) study: identification of 35 clinical isolates representing potentially novel bacterial taxa using a pipeline based on whole genome sequencing.
    Muigg V, Seth-Smith HMB, Adam KM, Weisser M, Hinić V, Blaich A, Roloff T, Heininger U, Schmid H, Kohler M, Graf L, Winterflood DM, Schlaepfer P, Goldenberger D (2024)
    BMC Microbiol 24: 14
  22. Development of 2nd generation aminomethyl spectinomycins that overcome native efflux in Mycobacterium abscessus.
    Phelps GA, Cheramie MN, Fernando DM, Selchow P, Meyer CJ, Waidyarachchi SL, Dharuman S, Liu J, Meuli M, Molin MD, Killam BY, Murphy PA, Reeve SM, Wilt LA, Anderson SM, Yang L, Lee RB, Temrikar ZH, Lukka PB, Meibohm B, Polikanov YS, Hobbie SN, Böttger EC, Sander P, Lee RE (2024)
    Proc Natl Acad Sci 121: e2314101120

2023

  1. SARS-CoV-2 Nucleocapsid Protein Mutations Found in Switzerland Disrupt N-Gene Amplification in Commonly Used Multiplex RT-PCR Assay.
    Hilti D, Wehrli F, Roditscheff A, Risch M, Risch L, Egli A, Bodmer T, Wohlwend N (2023)
    Pathogens 12: 1383
  2. SARS-CoV-2 in an immunocompromised host: convalescent plasma therapy and viral evolution elucidated by whole genome sequencing.
    Seth-Smith H, Vesenbeckh S, Egli A, Ott S (2023)
    BMJ Case Rep 16: e255255
  3. Surgical site infections after kidney transplantation are independently associated with graft loss.
    Schreiber PW, Hoessly LD, Boggian K, Neofytos D, van Delden C, Egli A, Dickenmann M, Hirzel C, Manuel O, Koller M, Rossi S, Banz V, Schmied B, Guerke L, Matter M, de Rougemont O, Bonani M, Golshayan D, Schnyder A, Sidler D, Haidar F, Kuster SP, Stampf S, Mueller NJ; Swiss Transplant Cohort Study (STCS) (2023)
    Am J Transplant: Online ahead of print
  4. Broad Range Eubacterial Polymerase Chain Reaction of Cerebrospinal Fluid Reduces the Time to Exclusion of and Costs Associated with Ventriculostomy-Related Infection in Hemorrhagic Stroke.
    Pietrzko E, Bögli S, Frick K, Ebner-Dietler S, Capone C, Imkamp F, Koliwer-Brandl H, Müller N, Keller E, Brandi G (2023)
    Neurocrit Care: Online ahead of print
  5. Mycoplasma pneumoniae: delayed re-emergence after COVID-19 pandemic restrictions.
    Meyer Sauteur PM, Beeton ML; European Society of Clinical Microbiology and Infectious Diseases (ESCMID) Study Group for Mycoplasma and Chlamydia Infections (ESGMAC), and the ESGMAC Mycoplasma pneumoniae Surveillance (MAPS) study group (2023)
    Lancet Microbe: Online ahead of print
  6. Investigation of an international water polo tournament in Czechia as a potential source for early introduction of the SARS-CoV-2 Omicron variant into Belgium, Switzerland and Germany, November 2021.
    Rudin C, Bollen N, Hong SL, Wegner F, Politi L, Mellou K, Geenen C, Gorissen S, Verhasselt B, Durkin K, Henin C, Logist AS, Dellicour S, Resa T, Stadler T, Maes P, Cuypers L, André E, Egli A, Baele G (2023)
    Euro Surveill 28: 2300018
  7. Bacterial genome-wide association study substantiates papGII of Escherichia coli as a major risk factor for urosepsis.
    Cuénod A, Agnetti J, Seth-Smith HMB, Roloff T, Wälchli D, Shcherbakov D, Akbergenov R, Tschudin-Sutter S, Bassetti S, Siegemund M, Nickel CH, Moran-Gilad J, Keys TG, Pflüger V, Thomson NR, Egli A (2023)
    Genome Med 15: 89
  8. Identification of microorganisms by a rapid PCR panel from positive blood cultures leads to faster optimal antimicrobial therapy - a before-after study.
    Agnetti J, Büchler AC, Osthoff M, Helfenstein F, Weisser M, Siegemund M, Bassetti S, Bingisser R, Schaefer DJ, Clauss M, Hinic V, Tschudin-Sutter S, Bättig V, Khanna N, Egli A (2023)
    BMC Infect Dis 23: 730
  9. RNA recognition by Npl3p reveals U2 snRNA-binding compatible with a chaperone role during splicing.
    Moursy A, Cléry A, Gerhardy S, Betz KM, Rao S, Mazur J, Campagne S, Beusch I, Duszczyk MM, Robinson MD, Panse VG, Allain FH (2023)
    Nat Commun 14: 7166
  10. The Legionella autoinducer LAI-1 is delivered by outer membrane vesicles to promote inter-bacterial and inter-kingdom signaling.
    Fan M, Kiefer P, Charki P, Hedberg C, Seibel J, Vorholt JA, Hilbi H (2023)
    J Biol Chem 299:  105376
  11. Structural basis for triacylglyceride extraction from mycobacterial inner membrane by MFS transporter Rv1410.
    Remm S, De Vecchis D, Schöppe J, Hutter CAJ, Gonda I, Hohl M, Newstead S, Schäfer LV, Seeger MA (2023)
    Nat Commun 14: 6449
  12. IVDR: Analysis of the Social, Economic, and Practical Consequences of the Application of an Ordinance of the In Vitro Diagnostic Ordinance in Switzerland
    Coste AT, Egli A, Schrenzel J, Nickel B, Zbinden A, Lienhard R, Dumoulin A, Risch M, Greub G; Coordinated Clinical Commission of Microbiology (CCCM) (2023)
    Diagnostics 13: 2910
  13. Fourier-transform infrared spectroscopy for typing of vancomycin-resistant Enterococcus faecium: performance analysis and outbreak investigation.
    Scheier TC, Franz J, Boumasmoud M, Andreoni F, Chakrakodi B, Duvnjak B, Egli A, Zingg W, Ramette A, Wolfensberger A, Kouyos RD, Brugger SD (2023)
    Microbiol Spectr: Online ahead of print
  14. High-Fluence Accelerated PACK-CXL for Bacterial Keratitis Using Riboflavin/UV-A or Rose Bengal/Green in the Ex Vivo Porcine Cornea.
    Lu NJ, Koliwer-Brandl H, Hillen M, Egli A, Hafezi F (2023)
    Transl Vis Sci Technol 12: 14
  15. Phenolic Substitution in Fidaxomicin: A Semisynthetic Approach to Antibiotic Activity Across Species.
    Jung E, Kraimps A, Dittmann S, Griesser T, Costafrolaz J, Mattenberger Y, Jurt S, Viollier PH, Sander P, Sievers S, Gademann K (2023)
    Chembiochem: Online ahead of print
  16. Older Adult Woman in a Coma After Acute Laryngitis.
    Landerl A, Covaliova I, Ganter CC, Mancini S, David S, Andermatt R (2023)
    Chest 164: e65-e69
  17. Immunogenicity of High-Dose vs. MF59-adjuvanted vs. Standard Influenza Vaccine in Solid Organ Transplant Recipients: The STOP-FLU trial.
    Mombelli M, Neofytos D, Huynh-Do U, Sánchez-Céspedes J, Stampf S, Golshayan D, Dahdal S, Stirnimann G, Schnyder A, Garzoni C, Venzin RM, Magenta L, Schönenberger M, Walti L, Hirzel C, Munting A, Dickenmann M, Koller M, Aubert JD, Steiger J, Pascual M, Mueller TF, Schuurmans M, Berger C, Binet I, Villard J, Mueller NJ, Egli A, Cordero E, van Delden C, Manuel O; Swiss Transplant Cohort Study (2023)
    Clin Infect Dis: Online ahead of print
  18. Evaluation of the clinical relevance of the Biofire© FilmArray pneumonia panel among hospitalized patients.
    Søgaard KK, Hinic V, Goldenberger D, Gensch A, Schweitzer M, Bättig V, Siegemund M, Bassetti S, Bingisser R, Tamm M, Battegay M, Weisser M, Stolz D, Khanna N, Egli A (2023)
    Infection: Online ahead of print
  19. Evaluation of the RESIST ACINETO multiplex immunochromatographic assay for detection of OXA-23-like, OXA-40/58-like and NDM carbapenemase production in Acinetobacter baumannii.
    Mancini S, Seth-Smith HMB, Kolesnik-Goldmann N, Hinic V, Roloff T, Imkamp F, Egli A (2023)
    J Antimicrob Chemother 78: 2771-2774
  20. Factors associated with non-carbapenemase mediated carbapenem resistance of Gram-negative bacteria: a retrospective case-control study. Müller M, Wiencierz A, Gehringer C, Muigg V, Bassetti S, Siegemund M, Hinic V, Tschudin-Sutter S, Egli A (2023)
    Int Microbiol: Online ahead of print
  21. Comparison of Disk Diffusion, E-Test, and Broth Microdilution Methods for Testing In Vitro Activity of Cefiderocol in Acinetobacter baumannii.
    Kolesnik-Goldmann N, Seth-Smith HMB, Haldimann K, Imkamp F, Roloff T, Zbinden R, Hobbie SN, Egli A, Mancini S (2023)
    Antibiotics (Basel) 12: 1212
  22. Engineered reporter phages for detection of Escherichia coli, Enterococcus, and Klebsiella in urine.
    Meile S, Du J, Staubli S, Grossmann S, Koliwer-Brandl H, Piffaretti P, Leitner L, Matter CI, Baggenstos J, Hunold L, Milek S, Guebeli C, Kozomara-Hocke M, Neumeier V, Botteon A, Klumpp J, Marschall J, McCallin S, Zbinden R, Kessler TM, Loessner MJ, Dunne M, Kilcher S (2023)
    Nat Commun 14: 4336
  23. Synthesis of Gentamicins C1, C2, and C2a and Antiribosomal and Antibacterial Activity of Gentamicins B1, C1, C1a, C2, C2a, C2b, and X2.
    Jana S, Rajasekaran P, Haldimann K, Vasella A, Böttger EC, Hobbie SN, Crich D (2023)
    ACS Infect Dis: Online ahead of print
  24. Tapping lipid droplets: A rich fat diet of intracellular bacterial pathogens.
    Hüsler D, Stauffer P, Hilbi H (2023)
    Mol Microbiol: Online ahead of print
  25. ChatGPT, GPT-4, and other large language models - the next revolution for clinical microbiology?
    Egli A (2023)
    Clin Infect Dis:  Online ahead of print
  26. QUIRMIA—A Phenotype-Based Algorithm for the Inference of Quinolone Resistance Mechanisms in Escherichia coli.
    Imkamp F, Bodendoerfer E,  Mancini S (2023)
    Antibiotics 12: 1119
  27. Rapid antimicrobial susceptibility testing in patients with bacteraemia due to Enterobacterales: an implementation study.
    Reiber C, Bodendoerfer E, Brugger SD, Eberhard N, Hitz E, Hofmaenner DA, Herren S, Kolesnik-Goldmann N, Manicini S, Zbinden R, Zinkernagel AS, Hasse B (2023)
    Swiss Med Wkly 153: 40066
  28. Reliability of the Galactomannan Enzyme-Linked Immunoassay in Healthy Preterm Infants: A Prospective Cohort Study.
    Thomann J, Bryant MB, Gaertner VD, Marchesi M, Zbinden A, Zbinden R, Bassler D, Rüegger CM (2023)
    J Pediatric Infect Dis Soc 12: 306-307
  29. Spatiotemporal dissemination of ESBL-producing Enterobacterales in municipal sewer systems: a prospective, longitudinal study in the city of Basel, Switzerland.
    Gómez-Sanz E, Bagutti C, Roth JA, Alt Hug M, García-Martín AB, Maurer Pekerman L, Schindler R, Furger R, Eichenberger L, Steffen I, Egli A, Hübner P, Stadler T, Aguilar-Bultet L, Tschudin-Sutter S (2023)
    Front Microbiol 14: 1174336
  30. In vitro and ex vivo proteomics of Mycobacterium marinum biofilms and the development of biofilm-binding synthetic nanobodies.
    Hammarén MM, Luukinen H, Sillanpää A, Remans K, Lapouge K, Custódio T, Löw C, Myllymäki H, Montonen T, Seeger M, Robertson J, Nyman TA, Savijoki K, Parikka M (2023)
    mSystems 8: e0107322
  31. Pathogen vacuole membrane contact sites – close encounters of the fifth kind
    Vormittag S, Ende RJ, Derré I, Hilbi H (2023)
    MICROLIFE, Volume 4, 2023, uqad018
  32. The large GTPase Sey1/atlastin mediates lipid droplet- and FadL-dependent intracellular fatty acid metabolism of Legionella pneumophila.
    Hüsler D, Stauffer P, Keller B, Böck D, Steiner T, Ostrzinski A, Vormittag S, Striednig B, Swart AL, Letourneur F, Maaß S, Becher D, Eisenreich W, Pilhofer M, Hilbi H (2023)
    Elife 12: e85142
  33. Multifactorial resistance mechanisms associated with resistance to ceftazidime-avibactam in clinical Pseudomonas aeruginosa isolates from Switzerland.
    Babouee Flury B, Bösch A, Gisler V, Egli A, Seiffert SN, Nolte O, Findlay J (2023)
    Front Cell Infect Microbiol 13: 1098944
  34. The Swiss Pathogen Surveillance Platform - towards a nation-wide One Health data exchange platform for bacterial, viral and fungal genomics and associated metadata.
    Neves A, Walther D, Martin-Campos T, Barbie V, Bertelli C, Blanc D, Bouchet G, Erard F, Greub G, Hirsch HH, Huber M, Kaiser L, Leib SL, Leuzinger K, Lazarevic V, Mäusezahl M, Molina J, Neher RA, Perreten V, Ramette A, Roloff T, Schrenzel J, Seth-Smith HMB, Stephan R, Terumalai D, Wegner F, Egli A (2023)
    Microb Genom 9: mgen001001
  35. Synthesis of 4-O-(4-Amino-4-deoxy-β-D-xylopyranosyl)paromomycin and 4-S-(β-D-Xylopyranosyl)-4-deoxy-4'-thio-paromomycin and Evaluation of their Antiribosomal and Antibacterial Activity.
    Mohamad-Ramshan R, Ande C, Matsushita T, Haldimann K, Vasella A, Hobbie SN, Crich D (2023)
    Tetrahedron 135: 133330
  36. Imaging Flow Cytometry of Legionella-Containing Vacuoles in Intact and Homogenized Wild-Type and Mutant Dictyostelium.
    Welin A, Hüsler D, Hilbi H (2023)
    Methods Mol Biol 2635: 63-85
  37. Automatic Discrimination of Species within the Enterobacter cloacae Complex Using Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry and Supervised Algorithms.
    Candela A, Guerrero-López A, Mateos M, Gómez-Asenjo A, Arroyo MJ, Hernandez-García M, Del Campo R, Cercenado E, Cuénod A, Méndez G, Mancera L, Caballero JD, Martínez-García L, Gijón D, Morosini MI, Ruiz-Garbajosa P, Egli A, Cantón R, Muñoz P, Rodríguez-Temporal D, Rodríguez-Sánchez B (2023)
    J Clin Microbiol 61: e0104922
  38. A systematic outbreak investigation of SARS-CoV-2 transmission clusters in a tertiary academic care center.
    von Rotz M, Kuehl R, Durovic A, Zingg S, Apitz A, Wegner F, Seth-Smith HMB, Roloff T, Leuzinger K, Hirsch HH, Kuster S, Battegay M, Mariani L, Schaeren S, Bassetti S, Banderet-Uglioni F, Egli A, Tschudin-Sutter S (2023)
    Antimicrob Resist Infect Control 12: 38
  39. [Update on the zoonotic potential of Chlamydia].
    Albini S, Marti H, Imkamp F, Borel N (2023)
    Schweiz Arch Tierheilkd 165: 165-0
  40. Factors impacting the pre-analytical quality of blood cultures-Analysis at a tertiary medical center.
    Romann L, Werlen L, Rommers N, Hermann A, Gisler I, Bassetti S, Bingisser R, Siegemund M, Roloff T, Weisser M, Muigg V, Hinic V, Osthoff M, Franzeck FC, Egli A (2023)
    PLoS One 18: e0282918
  41. Legionnaires' disease in Switzerland: rationale and study protocol of a prospective national case-control and molecular source attribution study (SwissLEGIO).
    Fischer FB, Bigler M, Mäusezahl D, Hattendorf J, Egli A, Julian TR, Rölli F, Gaia V, Wymann M, Fridez F, Bertschi S; SwissLEGIO Hospital Network (2023)
    Infection: Online ahead of print
  42. A MALDI-TOF MS library for rapid identification of human commensal gut bacteria from the class Clostridia.
    Asare PT, Lee CH, Hürlimann V, Teo Y, Cuénod A, Akduman N, Gekeler C, Afrizal A, Corthesy M, Kohout C, Thomas V, de Wouters T, Greub G, Clavel T, Pamer EG, Egli A, Maier L, Vonaesch P (2023)
    Front Microbiol 14: 1104707
  43. Whole-genome-based characterization of Campylobacter jenuni from human patients with gastroenteritis collected over an 18 year period reveals increasing prevalence of antimicrobial resistance.
    Ghielmetti G, Seth-Smith HMB, Roloff T, Cernela N, Biggel M, Stephan R, Egli A (2023)
    Microb Genom 9: mgen000941
  44. Evaluation of two rapid commercial assays for detection of Streptococcus agalactiae from vaginal samples.
    Koliwer-Brandl H, Nil A, Birri J, Sachs M, Zimmermann R, Zbinden R, Balsyte D (2023)
    Acta Obstet Gynecol Scand 102: 450-456
  45. Importance of Co-operative Hydrogen Bonding in the Apramycin-Ribosomal Decoding A-Site Interaction.
    Pirrone MG, Ande C, Haldimann K, Hobbie SN, Vasella A, Böttger EC, Crich D (2023)
    ChemMedChem 18: e202200486
  46. The Antibacterial Efficacy of High-Fluence PACK Cross-Linking Can Be Accelerated.
    Lu NJ, Koliwer-Brandl H, Gilardoni F, Hafezi N, Knyazer B, Achiron A, Zbinden R, Egli A, Hafezi F (2023)
    Transl Vis Sci Technol 12: 12
  47. Aerococcus urinae - significance of detection in the paediatric urinary tract: a case series.
    Rast D, Evers KS, Egli A, Rudin C, Goischke A, Ritz N (2023)
    Eur J Pediatr 182: 749-756
  48. PorinPredict: In silico Identification of OprD Loss from WGS Data for Improved Genotype-Phenotype Predictions of P. aeruginosa Carbapenem Resistance.
    Biggel M, Johler S, Roloff T, Tschudin-Sutter S, Bassetti S, Siegemund M, Egli A, Stephan R, Seth-Smith HMB (2023)
    Microbiol Spectr 11: e0358822
  49. Legionella- and host-driven lipid flux at LCV-ER membrane contact sites promotes vacuole remodeling.
    Vormittag S, Hüsler D, Haneburger I, Kroniger T, Anand A, Prantl M, Barisch C, Maaß S, Becher D, Letourneur F, Hilbi H (2023)
    EMBO Rep 24: 56007
  50. Longitudinal increase in the detection rate of Mycobacterium chimaera in heater-cooler device-derived water samples.
    Schreiber PW, Zihlmann R, Schärer V, Hasse B, Imkamp F, Schulthess B, Sander P, Zingg W (2023)
    J Hosp Infect 131: 190-193

2022

  1. The 2021 WHO catalogue of Mycobacterium tuberculosis complex mutations associated with drug resistance: a genotypic analysis.
    Walker TM, Miotto P, Köser CU, Fowler PW, Knaggs J, Iqbal Z, Hunt M, Chindelevitch L, Farhat M, Cirillo DM, Comas I, Posey J, Omar SV, Peto TEA, Suresh A, Uplekar S, Laurent S, Colman RE, Nathanson CM, Zignol M, Walker AS, Crook DW, Ismail N, Rodwell TC, CRyPTIC Consortium, Seq&Treat Consortium (Böttger EC) (2022)
    Lancet Microbe 3: e265-e273
  2. Consensus management recommendations for non-tuberculous mycobacterial pulmonary diseases.
    Lange C, Böttger EC, Cambau E, Griffith DE, Guglielmetti L, van Ingen J, Knight SL, Marras TK, Oliver KN, Santin M, Stout JE, Tortoli E, Wagner D, Winthrop K, Daley CL, on behalf of the expert panel group for management recommendations in NTM-PD (2022)
    Lancet Infect Dis 22: e178-e190
  3. High-throughput functional characterization of protein phosphorylation sites in yeast.
    Viéitez C, Busby BP, Ochoa D, Mateus A, Memon D, Galardini M, Yildiz U, Trovato M, Jawed A, Geiger AG, Oborská-Oplová M, Potel CM, Vonesch SC, Szu Tu C, Shahraz M, Stein F, Steinmetz LM, Panse VG, Noh KM, Savitski MM, Typas A, Beltrao P (2021)
    Nat Biotechnol 40: 382-390
  4. The aminoglycoside modifying enzyme Eis2 represents a new potential in vivo target for reducing antimicrobial drug resistance in Mycobacterium abscessus complex.
    Lorè NI, Saliu F, Spitaleri A, Schäfle D, Nicola F, Cirillo DM, Sander P (2022)
    Eur Respir J 60: 2201541
  5. Updating the approaches to define susceptibility and resistance to anti-tuberculosis agents: implications for diagnosis and treatment.
    Antimycobacterial Susceptibility Testing Group (2022)
    Eur Respir J 59: 166-166
  6. Fatty acid transporter MFSD2A is a multifunctional gatekeeper in brain and placenta.
    Walter JD, Remm S, Seeger MA (2022)
    Nat Struct Mol Biol 29: 504-506
  7. Aquimarins, peptide antibiotics with amino-modified C-termini from a sponge-derived Aquimarina sp. bacterium.
    Dieterich CL, Probst SI, Ueoka R, Sandu I, Schäfle D, Dal Molin M, Minas HA, Costa R, Oxenius A, Sander P, Piel J (2022)
    Angew Chem Int Ed Engl 61: e202115802
  8. Short synthesis of (+)-actinobolin: simple entry to complex small-molecule inhibitors of protein synthesis.
    Tharra PR, Mikhaylov AA, Svejkar J, Gysin M, Hobbie SN, Svenda J (2022)
    Angew Chem Int Ed Engl 61: e202116520
  9. Apramycin susceptibility of multidrug-resistant Gram-negative blood culture isolates in five countries in South-East Asia.
    Gysin M, Hon PY, Tan P, Sengduangphachanh A, Simmalavong M, Hinfonthong P, Kaewphaderm N, Pham TD, Nguyen TH, Haldimann K, Becker K, van Doorn R, Hopkins J, Simpson AJH, Ashley, EA, Kesteman T, Tran HH, Vasoo S, Ling CL, Roberts T, Turner P, Hobbie SN (2022)
    Int J Antimicrob Agents: Online ahead of print
  10. Premature aging in mice with error-prone protein synthesis.
    Shcherbakov D, Nigri M, Akbergenov R, Brilkova M, Mantovani M, Petit Isnard P, Grimm A, Karol AA, Teo Y, Sanchón AC , Kumar Y, Eckert A, Thiam K, Seebeck P, Wolfer DP, Böttger EC (2022)
    Sci Adv 8: eabl9051
  11. Translational in vitro and in vivo PKPD modelling for apramycin against Gram-negative lung pathogens to facilitate prediction of human efficacious dose in pneumonia.
    Aranzana-Climent V, Hughes D, Cao S, Tomczak M, Urbas M, Zabicka D, Lundberg CV, Hansen J, Lindberg J, Hobbie SN, Friberg LE (2022)
    Clin Microbiol Infect 28: 1367-1374
  12. Error-prone protein synthesis recapitulates early symptoms of Alzheimer disease in aging mice.
    Brilkova M, Nigri M, Kumar HS, Moore J, Mantovani M, Keller C, Grimm A, Eckert A, Shcherbakov D, Akbergenov R, Seebeck P, Krämer SD, Wolfer DP, Gent TC, Böttger EC (2022)
    Cell Rep 40: 111433
  13. Photochemically-mediated inflammation and cross-presentation of Mycobacterium bovisBCG proteins stimulates strong CD4 and CD8 T-cell responses in mice.
    Waeckerle-Men Y, Kotkowska ZK, Bono G, Duda A, Kolm I, Varypataki EM, Amstutz B, Meuli M, Høgset A, Kündig TM, Halin C, Sander P, Johansen P (2022)
    Front Immunol 13: 815609
  14. Optimization of the antimicrobial peptide Bac7 by deep mutational scanning.
    Koch P, Schmitt S, Heynisch A, Gumpinger A, Wüthrich I, Gysin M, Shcherbakov D, Hobbie SN, Panke S, Held M (2022)
    BMC Biol 20: 114
  15. Phenotype of Mrps5-associated phylogenetic polymorphisms is intimately linked to mitoribosomal misreading.
    Juskeviciene R, Fritz A-K, Brilkova M, Akbergenov R, Schmitt K, Rehrauer H, Laczko E, Isnard Petit P, Thiam K, Eckert A, Schacht J, Wolfer DP, Böttger EC, Shcherbakov D (2022)
    Int J Mol Sci 23: 4384
  16. Assessing antibiotic tolerance of Staphylococcus aureus derived directly from patients by the Replica Plating Tolerance Isolation System (REPTIS).
    Herren SC, Huemer M, Acevedo CT, Gómez-Mejia A, Andreoni F, Mairpady Shambat S, Hasse B, Zbinden R, Brugger SD, Zinkernagel AS (2022)
    Antimicrob Agents Chemother 66: e0096721
  17. In vitro bedaquiline and clofazimine susceptibility testing in Mycobacterium abscessus.
    Schulthess B, Aktoğan Kittana FN, Hömke R, Sander P (2022)
    Antimicrob Agents Chemother 66: e023462
  18. Apramycin overcomes the inherent lack of antimicrobial bactericidal activity in Mycobacterium abscessus.
    Selchow P, Ordway DJ, Verma D, Whittel N, Petrig A, Hobbie SN, Böttger EC, Sander P (2022)
    Antimicrob Agents Chemother 66: e0151021
  19. Population pharmacokinetics of apramycin from first-in-human plasma and urine data to support prediction of efficacious dose.
    Zhao C, Chirkova A, Rosenborg S, Palma Vilar R, Lindberg J, Hobbie SN, Friberg LE (2022)
    J Antimicrob Chemother: Online ahead of print
  20. Migration of Acanthamoeba through Legionella biofilms is regulated by the bacterial Lqs-LvbR network, effector proteins and the flagellum.
    Hochstrasser R, Michaelis S, Brülisauer S, Sura T, Fan M, Maaß S, Becher D, Hilbi H (2022)
    Environ Microbiol 24: 3672-3692
  21. The Legionella Lqs-LvbR regulatory network controls temperature-dependent growth onset and bacterial cell density.
    Hochstrasser R, Hilbi H (2022)
    Appl Environ Microbiol 88: e0237021
  22. PE51 mediates uptake of trehalose across the mycomembrane of Mycobacterium tuberculosis.
    Babu Sait MR, Koliwer-Brandl H, Stewart JA, Swarts BM, Jacobsen M, Ioerger TR, Kalscheuer R (2022)
    Sci Rep 12: 2097
  23. PACK-CXL vs. antimicrobial therapy for bacterial, fungal, and mixed infectious keratitis: a prospective randomized phase 3 trial.
    Hafezi F, Hosny M, Shetty R, Knyazer B, Chen S, Wang Q, Hashemi H,Torres-Netto EA, and the PACK-CXL Working Group: Zhang H., Bora'l A, Tawfeek M, Nagaraja H, d'Souza S, Asgari S, Mirsalim A, Chorny A, Krakauer Y, Pajic B, Gilardoni F, Hafezi N, Hillen M, Liu N, Boldi MO, Tabibian D, Torgerson PR, Zbinden R, Koliwer-Brandl H, Randleman JB (2022)
    Eye Vis 9: 2
  24. Structure-activity relationships for 5'' modifications of 4,5-aminoglycoside
    antibiotics.
    Quirke JCK, Sati GC, Sounousi A, Gysin M, Haldimann K, Böttger EC, Vasella A, Hobbie SN, Crich D (2022)
    ChemMedChem 17: e202200120
  25. Impact of MALDI-TOF MS identification on anaerobic species and genus diversity in routine diagnostics.
    Bächli P, Baars S, Simmler A, Zbinden R, Schulthess B (2022)
    Anaerobe 75: 102554
  26. synthesis, Antibacterial and Antiribosomal Activity of the 3C-Aminoalkyl Modification in the Ribofuranosyl Ring of Apralogs (5-O-Ribofuranosyl Apramycins).
    Lubriks D, Haldimann K, Hobbie SN, Vasella A, Suna E, Crich D (2022)
    Antibiotics (Basel) 12: 25
  27. Nosocomial outbreak of vancomycin-resistant Enterococcus faecium (VRE) ST796, Switzerland, 2017 to 2020.
    Piezzi V, Wassilew N, Atkinson A, D'Incau S, Kaspar T, Seth-Smith HM, Casanova C, Bittel P, Jent P, Sommerstein R, Buetti N, Marschall J. (2022)
    Euro Surveill 27: 2200285
  28. Outbreak investigation including molecular characterization of community associated methicillin-resistant Staphylococcus aureus in a primary and secondary school in Eastern Switzerland.
    Waldeck F, Seiffert SN, Manser S, Zemp D, Walt A, Berger C, Albrich WC, Schlegel M, Roloff T, Egli A,  Nolte O, Kahlert CR (2022)
    Sci Rep 12: 19826
  29. Gut microbiota composition as a candidate risk factor for dimethyl fumarate-induced lymphopenia in multiple sclerosis.
    Diebold M, Meola M, Purushothaman S, Siewert LK, Pössnecker E, Roloff T, Lindberg RL, Kuhle J, Kappos L, Derfuss T, Egli A, Pröbstel AK (2022)
    Gut Microbes 14: 2147055
  30. Diagnostic challenges within the Bacillus cereus-group: finding the beast without teeth.
    Muigg V, Cuénod A, Purushothaman S, Siegemund M, Wittwer M, Pflüger V, Schmidt KM, Weisser M, Ritz N, Widmer A, Goldenberger D, Hinic V, Roloff T, Søgaard KK, Egli A, Seth-Smith HMB (2022)
    New Microbes New Infect 49-50: 101040
  31. Rapid Bacteria Detection from Patients' Blood Bypassing Classical Bacterial Culturing.
    Huber F, Lang HP, Heller S, Bielicki JA, Gerber C, Meyer E, Egli A (2022)
    Biosensors (Basel) 12: 994
  32. 5-ethyl-2'-deoxyuridine fragilizes Klebsiella pneumoniae outer wall and facilitates intracellular killing by phagocytic cells.
    Ifrid E, Ouertatani-Sakouhi H, Jauslin T, Kicka S, Chiriano G, Harrison CF, Hilbi H, Scapozza L, Soldati T, Cosson P (2022)
    PLoS One 17: e0269093
  33. Panzytopenie und akutes Nierenversagen.
    Greiner M, Treichler G, Morel C, Camenzind D, Neumayer A, Blum J, Beer JH (2022)
    Swiss Medical Forum 22: 487-490
  34. Detection of Extended-Spectrum β-Lactamases (ESBLs) and AmpC in Class A and Class B Carbapenemase-Producing Enterobacterales.
    Imkamp F, Kolesnik-Goldmann N, Bodendoerfer E, Zbinden R, Mancini S (2022)
    Microbiol Spectr 10: e0213722
  35. A retrospective analysis of blood culture-negative endocarditis at a tertiary care centre in Switzerland.
    Dähler R, Brugger SD, Frank M, Greutmann M, Sromicki J, Marques-Maggio E, Imkamp F, Bauernschmitt R, Carrel T, Zinkernagel AS, Hasse B (2022)
    Swiss Med Wkly 152: 40012
  36. Antimicrobial susceptibility testing is crucial when treating Finegoldia magna infections
    Walser F, Prinz J, Rahm S, Zingg PO, Mancini S, Imkamp F, Zbinden R, Achermann Y (2022)
    Eur J Clin Microbiol Infect: Online ahead of print
  37. The ABC transporter MsbA adopts the wide inward-open conformation in E. coli cells
    Galazzo L, Meier G, Januliene D, Parey K, De Vecchis D, Striednig B, Hilbi H, Schäfer LV, Kuprov I, Moeller A, Bordignon E, Seeger MA (2022)
    Sci Adv 8: eabn6845

    Reviews
  38. Bacterial quorum sensing and phenotypic heterogeneity: how the collective shapes the individual.
    Striednig B, Hilbi H (2022)
    Trends Microbiol 30: 379-389
  39. Biomolecules capturing live bacteria from clinical samples.
    Sorgenfrei M, Hürlimann LM, Remy MM, Keller PM, Seeger MA (2022)
    Trends Biochem Sci 47: 673-688
  40. Combination of whole genome sequencing and metagenomics for microbiological diagnostics.
    Purushothaman S, Meola M, Egli A (2022)
    Int J Mol Sci 23: 9834
  41. Orchestrating ribosomal RNA folding during ribosome assembly.
    Oborská-Oplová M, Gerhardy S, Panse VG (2022)
    Bioessays 44: e2200066
  42. Lyme-Borreliose
    Marchesi M, Zbinden A (2022)
    Therapeutische Umschau 79: 425-492

    Letters
  43. Genotypic and phenotypic analyses of aac(3) aminoglycoside-resistance gene diversity point to three distinct phenotypes of contemporary clinical relevance.
    Plattner M, Goyet C, Haldimann K, Gysin M, Juhas M, Becker K, Hobbie SN (2022)
    J Glob Antimicrob Resist 29: 534-536

    Book Chapter
  44. Eukaryotic ribosome assembly and nucleocytoplasmic transport.
    Oborská-Oplová M, Fischer U, Altvater M, Panse VG (2022)
    Methods Mol Biol 2533: 99-126

2021

  1. Mortality from drug-resistant tuberculosis in high-burden countries comparing routine drug susceptibility testing with whole-genome sequencing: a multicentre cohort study.
    Zürcher K, Reichmuth ML, Ballif M, Loiseau C, Borrell S, Reinhard M, Skrivankova V, Hömke R, Sander P, Avihingsanon A, Abimiku AG, Marcy O, Collantes J, Carter EJ, Wilkinson RJ, Cox H, Yotebieng M, Huebner R, Fenner L, Böttger EC, Gagneux S, Egger M, on behalf of IeDEA (2021)
    Lancet Microbe 2: e320-330
  2. Structural insights into the inhibition of glycine reuptake.
    Shahsavar A, Stohler P, Bourenkov G, Zimmermann I, Siegrist M, Guba W, Pinard E, Sinning S, Seeger MA, Schneider TR, Dawson RJP, Nissen P (2021)
    Nature 591: 677-681
  3. Puf6 primes 60S pre-ribosome nuclear export at low temperature.
    Gerhardy S, Oborská-Oplová M, Gillet L, Börner R, van Nues R, Leitner A, Michel E, Petkowski JJ, Granneman S, Sigel RKO, Aebersold R, Panse VG (2021)
    Nat Commun 12: 4696
  4. Allosteric modulation of LRRC8 channels by targeting their cytoplasmic domains.
    Deneka D, Rutz S, Hutter CAJ, Seeger MA, Sawicka M, Dutzler R (2021)
    Nat Commun 12: 5435
  5. A synthetic nanobody targeting RBD protects hamsters from SARS-CoV-2 infection
    Li T, Cai H, Yao H, Zhou B, Zhang N, van Vlissingen MF, Kuiken T, Han W, GeurtsvanKessel CH, Gong Y, Zhao Y, Shen Q, Qin W, Tian XX, Peng C, Lai Y, Wang Y, Hutter CAJ, Kuo SM, Bao J, Liu C, Wang Y, Richard AS, Raoul H, Lan J, Seeger MA, Cong Y, Rockx B, Wong G, Bi Y, Lavillette D, Li D (2021)
    Nat Commun 12: 4635
  6. Quorum sensing controls persistence, resuscitation, and virulence of Legionella subpopulations in biofilms.
    Personnic N , Striednig B, Hilbi H (2021)
    ISME J 15: 196-210
  7. Invasive aspergillosis due to Aspergillus section Usti: a multicenter retrospective study.
    Glampedakis E, Cassaing S, Fekkar A, Dannaoui E, Bougnoux ME, Bretagne S, Neofytos D, Schreiber PW, Hennequin C, Morio F, Shadrivova O, Bongomin F, Fernández-Ruiz M, Bellanger AP, Arikan-Akdagli S, Erard V, Aigner M, Paolucci M, Khanna N, Charpentier E, Bonnal C, Brun S, Gabriel F, Riat A, Zbinden R, Le Pape P, Klimko N, Lewis RE, Richardson M, İnkaya AC, Coste AT, Bochud PY, Lamoth F (2021)
    Clin Infect Dis 72: 1379-1385
  8. Quorum sensing governs a transmissive Legionella subpopulation at the pathogen vacuole periphery.
    Striednig B, Lanner U, Niggli S, Katic A, Vormittag S, Brülisauer S, Hochstrasser R, Kaech A, Welin A, Flieger A, Ziegler U, Schmidt A, Hilbi H, Personnic N (2021)
    EMBO Rep 22: e52972
  9. Antibacterial activity of apramycin at acidic pH warrants wide therapeutic window in the treatment of complicated urinary tract infections and acute pyelonephritis.
    Becker K, Cao S, Nilsson A, Erlandsson M, Hotop SK, Kuka J, Hansen J, Haldimann K, Grinberga S, Berruga-Fernandéz T, Huseby DL, Shariatgorji R, Lindmark E, Pltazack B, Böttger EC, Crich D, Friberg LE, Vingsbo Lundberg C, Hughes D, Brönstrup M, Andrén PE, Liepinsh E, Hobbie SN (2021)
    EBioMedicine 73: 103652
  10. Efficacy of EBL-1003 (apramycin) against Acinetobacter baumannii lung infections in mice.
    Becker K, Aranzana-Climent V, Cao S, Nilsson A, Shariatgorji R, Haldimann K, Platzack B, Hughes D, Andrén P, Böttger EC, Friberg L, Hobbie SN (2021)
    Clin Microbiol Infect 27: 1315-1321
  11. Systematic exploration of Escherichia coli phage-host interactions with the BASEL phage collection.
    Maffei E, Shaidullina A, Burkolter M, Druelle V, Willi L, Estermann F, Michaelis S, Hilbi H, Thaler DS, Harms A (2021)
    PLoS Biol. 19: e3001424
  12. Zn2+ intoxication of Mycobacterium marinum during Dictyostelium discoideum infection is counteracted by induction of the pathogen Zn2+ exporter CtpC.
    Hanna N, Koliwer-Brandl H, Lefrançois LH, Kalinina V, Cardenal-Muñoz E, Appiah J, Leuba F, Gueho A, Hilbi H, Soldati T, Barisch C (2021)
    mBio 12: e01313-20
  13. The polar Legionella Icm/Dot T4SS establishes distinct contact sites with the pathogen vacuole membrane.
    Böck D, Hüsler D, Steiner B, Medeiros JM, Welin A, Radomska KA, Hardt WD, Pilhofer M, Hilbi H (2021)
    mBio 12: e02180-21
  14. Model-informed drug development for antimicrobials: translational PK and PK/PD modeling to predict an efficacious human dose for apramycin.
    Sou T, Hansen J, Liepinsh E, Backlund M, Ercan O, Grinberga S, Cao S, Giachou P, Petersson A, Tomczak M, Urbas M, Zabicka D, Vingsbo-Lundberg C, Hughes D, Hobbie SN, Friberg LE (2021)
    Clin Pharmacol Ther 109:1063-1073
  15. Silencing of the ER and integrative stress responses in the liver of mice with error-prone translation.
    Moore J, Osinnii I, Grimm A, Oettinghaus B, Eckert A, Frank S, Böttger EC (2021)
    Cells 10: 2856
  16. Temporal and regional incidence of carbapenemase-producing Enterobacterales, Switzerland, 2013 to 2018
    Ramette A, Gasser M, Nordmann P, Zbinden R, Schrenzel J, Perisa D, Kronenberg A (2021)
    Euro Surveill 26: 1900760
  17. Random errors in protein synthesis activate an age-dependent program of muscle atrophy in mice.
    Moore J, Akbergenov R, Nigri M, Isnard-Petit P, Grimm A, Seebeck P, Restelli L, Frank S, Eckert A, Thiam K, Wolfer DP, Shcherbakov D, Böttger EC (2021)
    Commun Biol 4: 703
  18. Kinetic mechanism of Na+-coupled aspartate transport catalyzed by GltTk
    Trinco G, Arkhipova V, Garaeva AA, Hutter CAJ, Seeger MA, Guskov A, Slotboom DJ (2021)
    Commun Biol 4: 751
  19. ER-misfolded proteins become sequestered with mitochondria and impair mitochondrial function.
    Cortés Sanchón A, Santhosh Kumar H, Mantovani M, Osinnii I, Mateos JM, Kaech A, Shcherbakov D, Akbergenov R, Böttger EC (2021)
    Commun Biol 4: 1350
  20. Mitochondrial mistranslation in brain provokes a metabolic response which mitigates the age-associated decline in mitochondrial gene expression.
    Shcherbakov D, Juskeviciene R, Cortés Sanchón A, Brilkova M, Rehrauer H, Laczko E, Böttger EC (2021)
    Int J Mol Sci 22: 2746
  21. Novel fidaxomicin antibiotics through site-selective catalysis.
    Dailler D, Dorst A, Schäfle D, Sander P, Gademann K (2021)
    Commun Chem 4: 59
  22. Systemic Jak1 activation provokes hepatic inflammation and imbalanced FGF23 production and cleavage.
    Daryadel A, Ruiz PA, Gehring N, Stojanovic D, Ugrica M, Bettoni C, Sabrautzki S, Pastor-Arroyo EM, Frey-Wagner I, Lorenz-Depiereux B, Strom TM, de Angelis MH, Rogler G, Wagner CA, Rubio-Aliaga I (2021)
    FASEB J 35: e21302
  23. Rapid Detection of PBP2a in Staphylococci from Shortly Incubated Subcultures of Positive Blood Cultures by an Immunochromatographic Assay.
    Kolesnik-Goldmann N, Bodendoerfer E, Röthlin K, Herren S, Imkamp F, Marchesi M, Mancini S (2021)
    Microbiol Spectr 9: e0046221
  24. Phylogenomics of Mycobacterium africanum reveals a new lineage and a complex evolutionary history.
    Coscolla M, Brites D, Menardo F, Loiseau C, Borrell S, Otchere ID, Asante-Poku A, Asare P, Sanchez-Buso L, Gehre F, N'Dira Sanoussi C, Antonio M, Dissou A, Ruiz-Rodriguez P, Fyfe J, Becket P, Niemann S, Alabi AS, Grobusch MP, Kobbe R, Parkhill J, Beisel C, Fenner L, Böttger EC, Meehan CJ, Harris SR, De Jong BC, Yeboah-Manu D, Gagneux S (2021)
    Microb Genom 7: 000477
  25. Drug susceptibility distributions of Mycobacterium chimaera and other non-tuberculous mycobacteria.
    Schulthess B, Schäfle D, Kälin N, Widmer T, Sander P (2021)
    Antimicrob Agents Chemother 65: e02131-20
  26. Rifabutin is inactivated by Mycobacterium abscessus Arr.
    Schäfle D, Selchow P, Borer B, Meuli M, Rominski A, Schulthess B, Sander P (2021)
    Antimicrob Agents Chemother 65: e02215-20
  27. Synthesis and antibacterial activity of propylamycin derivatives functionalized at the 5"- and other positions with a view to overcoming resistance due to aminoglycoside modifying enzymes.
    Lubriks D, Zogota, R, Sarpe V, Matsushita T, Sati G, Haldimann K, Gysin M, Böttger EC, Vasella A, Suna E, Hobbie SN, Crich D (2021)
    ACS Infect Dis 7: 2413-2424
  28. Mitochondrial misreading in skeletal muscle accelerates metabolic aging and confers lipid accumulation and increased inflammation.
    Shcherbakov D, Duscha S, Juskeviciene R, Restelli LM, Frank S, Laczko E, Böttger EC (2021)
    RNA 27: 265-272
  29. Cutibacterium avidum resists surgical skin antisepsis in the groin-a potential risk factor for periprosthetic joint infection: a quality control study
    Maurer SM, Kursawe L, Rahm S, Prinz J, Zinkernagel AS, Moter A, Kuster SP, Zbinden R, Zingg OP, Achermann Y (2021)
    Antimicrob Resist Infect Control 10: 27
  30. Trends of the Epidemiology of Candidemia in Switzerland: A 15-Year FUNGINOS Survey
    Adam KM, Osthoff M, Lamoth F, Conen A, Erard V, Boggian K, Schreiber PW, Zimmerli S, Bochud PY, Neofytos D, Fleury M,Fankhauser H, Goldenberger D, Mühlethaler K, Riat A, Zbinden R, Kronenberg A, Quiblier C, Marchetti O, Khanna N, Fungal Infection Network of Switzerland (FUNGINOS) (2021)
    Open Forum Infect Dis 8: fab471
  31. Mycobacterium tuberculosis phosphoribosyltransferase promotes bacterial survival in macrophages by inducing histone hypermethylation in autophagy-regulated genes.
    Sengupta S, Nayak B, Meuli M, Sander P, Mishra S, Sonawane A (2021)
    Front Cell Infect Microbiol 11: 676456
  32. Dictyostelium lacking the single atlastin homolog Sey1 shows aberrant ER architecture, proteolytic processes, and expansion of the Legionella-containing vacuole.
    Hüsler D, Steiner B, Welin A, Striednig B, Swart AL, Molle V, Hilbi H, Letourneur F (2021)
    Cell Microbiol 23: e13318
  33. An advanced apralog with increased in-vitro and in-vivo activity toward Gram-negative pathogens and reduced ex-vivo cochleotoxicity.
    Sonousi A, Quirke J, Waduge P, Janusic T, Gysin M, Haldimann K, Hobbie SN, Sha S, Schacht J, Chow Ch, Vasella A, Böttger EC, Xu S, Crich D (2021)(highlighted as "VIP Very Important Paper" by the editor)
    ChemMedChem 16: 335-339
  34. Influence of ring size in conformationally restricted ring I analogs of paromomycin on antiribosomal and antibacterial activity
    Pirrone M, Hobbie SN, Vasella A, Böttger EC, Crich D (2021)
    RSC Med Chem 12: 1585-1591
  35. Genotype-phenotype associations of polymorphisms within the gene locus of NOD-like receptor pyrin domain containing 3 in Swiss inflammatory bowel disease patients.
    Yoganathan P, Rossel JB, Jordi SBU, Franc Y, Biedermann L, Misselwitz B, Hausmann M, Rogler G, Scharl M, Frey-Wagner I; Swiss IBD cohort study group (2021)
    BMC Gastroenterol 21: 310
  36. Mycobacterium helveticum sp. nov., a novel slowly growing mycobacterial species associated with granulomatous lesions in adult swine.
    Ghielmetti G, Rosato G, Trovato A, Friedel U, Kirchgaessner C, Perroulaz C, Pendl W, Figi R, Schulthess B, Bloemberg GV, Keller PM, Stephan R, Tortoli E (2021)
    Int J Syst Evol Microbiol 71: 004615
  37. Synthesis, antibacterial action and ribosome inhibition of deoxyspectinomycins.
    Dharuman S, Wilt LA, Liu J, Reeve SM, Thompson CW, Elmore JM, Shcherbakov D, Lee RB, Böttger EC, Lee RE (2021)
    J Antibiot 74: 381-396
  38. Antimicrobial susceptibility patterns of respiratory Gram-negative bacterial isolates from COVID-19 patients in Switzerland.
    Gysin M, Acevedo CT, Haldimann K, Bodendoerfer E, Imkamp F, Bulut K, Buehler PK, Brugger SD, Becker K, Hobbie SN (2021)
    Ann Clin Microbiol Antimicrob 20: 64
  39. Disseminated Mycobacterium simiae and Mycobacterium avium infection causing an immune reconstitution inflammatory syndrome in a female patient with HIV.
    Bachofner JA, Ikenberg K, Schulthess B, Nemeth J (2021)
    BMJ Case Rep 14: e241037
  40. A rare case of severe gastroenteritis caused by Aeromonas hydrophila after colectomy in a patient with anti-Hu syndrome: a case report
    Greiner M, Anagnostopoulos A, Pohl D, Zbinden R, Zbinden A (2021)
    Case Reports BMC Infect Dis 21: 1097
  41. Open wounds and rifampicin therapy are associated with rifampicin resistance among staphylococcal vascular graft/endograft infections.
    Leung YKS, Ledergerber B, Eberhard N, Mestres CA, Rancic Z, Zimmermann A, Zbinden R, Brugger SD, Zinkernagel AS, Hasse B; Vascular Graft Cohort Study (2021)
    JAC Antimicrob Resist 3: dlab041
  42. Hypoxia Reduces the Transcription of Fibrotic Markers in the Intestinal Mucosa.
    Simmen S, Maane M, Rogler S, Baebler K, Lang S, Cosin-Roger J, Atrott K, Frey-Wagner I, Spielmann P, Wenger RH, Weder B, Zeitz J, Vavricka SR, Rogler G, de Vallière C, Hausmann M, Ruiz PA (2021)
    Inflamm Intest Dis 6: 87-100
  43. Hepatitis E – eine unterschätzte Zoonose.
    Allerberger F, Wenzel J, Zbinden R, Zbinden A (2021)
    Internistische Praxis, Zeitschrift für die gesamte Innere Medizin 63: 731-740
  44. Ernährung und Immunität - Leckerbissen fürs Immunsystem.
    Melanie Lössner & Isabelle Frey-Wagner (2021)
    Tabula 1-2021 (Ernährungszeitschrift der Schweizerischen Gesellschaft für Ernährung)

    Reviews
  45. Dictyostelium dynamin superfamily GTPases implicated in vesicle trafficking and host-pathogen interactions.
    Katic A, Hüsler D, Letourneur F, Hilbi H (2021)
    Front Cell Dev Biol 9: 731964

    Letters
  46. Rapid identification of CTX-M-type extended-spectrum β-lactamase-producing Enterobacterales from blood cultures using a multiplex lateral flow immunoassay
    Walter A, Bodendoerfer E, Kolesnik-Goldmann N, Mancini S (2021)
    J Glob Antimicrob Resist 26: 130-132

2020

  1. The ABC exporter IrtAB imports and reduces mycobacterial siderophores.
    Arnold FM, Weber MS, Gonda I, Gallenito MJ, Adenau S, Egloff P, Zimmermann I, Hutter CAJ, Hürlimann LM, Peters EE, Piel J, Meloni G, Medalia O, Seeger MA (2020)
    Nature 580: 413-417
  2. Stereocontrolled synthesis of (-)-bactobolin A.
    Vojackova P, Michalska L, Necas M, Shcherbakov D, Böttger EC, Sponer J, Sponer J, Svenda J (2020)
    J Am Chem Soc 142: 7306-7311
  3. Apralogs: apramycin 5-O-glycosides and ethers with improved antibacterial activity and ribosomal selectivity and reduced susceptibility to the aminoacyltranserferase (3)-IV resistance determinant.
    Quirke JCK, Rajasekaran P, Sarpe VA, Sonousi A, Osinnii I, Gysin M, Haldimann K, Fang QJ, Shcherbakov D, Hobbie SN, Sha SH, Schacht J, Vasella A, Böttger EC, Crich D (2020)
    J Am Chem Soc 142: 530-544
  4. Treatment of nontuberculous mycobacterial pulmonary disease: an official ATS/ERS/ESCMID/IDSA Clinical Practice Guideline.
    Daley CL, Iccarino JM, Lange C, Cambau E, Wallace Jr. RJ, Andrejak C, Böttger EC, Brozek J, Griffith DE, Guglielmetti L, Huitt GA, Knight SL, Leitman P, Marras TK, Oliver KN, Santin M, Stout JE, Tortoli E, van Ingen J, Wagner D, Winthrop KL (2020)
    Eur Respir J 56: 2000535
  5. Selection, biophysical and structural analysis of synthetic nanobodies that effectively neutralize SARS-CoV-2.
    Custódio TF, Das H, Sheward DJ, Hanke L, Pazicky S, Pieprzyk J, Sorgenfrei M, Schroer MA, Gruzinov AY, Jeffries CM, Graewert MA, Svergun DI, Dobrev N, Remans K, Seeger MA, McInerney GM, Murrell B, Hällberg BM, Löw C (2020)
    Nat Commun 11: 5588
  6. The ribotoxin α-sarcin can cleave the sarcin/ricin loop on late 60S pre-ribosomes.
    Olombrada M, Peña C, Rodríguez-Galán O, Klingauf-Nerurkar P, Portugal-Calisto D, Oborská-Oplová M, Altvater M, Gavilanes JG, Martínez-Del-Pozo Á, de la Cruz J, García-Ortega L, Panse VG (2020)
    Nucleic Acids Res 48: 6210-6222
  7. Biotinylation of membrane proteins for binder selections.
    Kuhn BT, Zimmermann I, Hürlimann LM, HutterCAJ , Miscenic C, Dawson RJP, Seeger MA , Geertsma ER (2020)
    Methods Mol Biol 2127: 151-165
  8. Generation of synthetic nanobodies against delicate proteins.
    Zimmermann I, Egloff P, Hutter CAJ, Kuhn BT, Bräuer P, Newstead S, Dawson RJP, Geertsma ER, Seeger MA (2020)
    Nat Protoc 15: 1707-1741
  9. Spin-labeled nanobodies as protein conformational reporters for electron paramagnetic resonance in cellular membranes.
    Galazzo L, Meier G, Timachi MH, Hutter CAJ, Seeger MA, Bordignon E (2020)
    Proc Natl Acad Sci USA 117: 2441-2448
  10. The GTPase Nog1 co-ordinates assembly, maturation and quality control of distant ribosomal functional centers
    Klingauf-Nerurkar P, Gillet LC, Portugal-Calisto D, Oplova M, Jäger M, Schubert OT, Pisano A, Peña C, Rao S, Altvater M, Chang Y, Aebersold R, Panse VG (2020)
    Elife 9: e52474
  11. Improved diagnosis of cat-scratch disease with an IgM enzyme-linked immunosorbent assay for Bartonella henselae using N-lauroyl-sarcosine-insoluble protein antigen
    Wyler J, Meyer Sauteur PM, Zbinden R, Berger C (2020)
    Clin Microbiol Infect 26: 1271-1273
  12. Divergent evolution of Legionella RCC1 repeat effectors defines the range of ran GTPase cycle targets.
    Swart AL, Steiner B, Gomez-Valero L, Schütz S, Hannemann M, Janning P, Irminger M, Rothmeier E, Buchrieser C, Itzen A, Panse VG, Hilbi H (2020)
    mBio 11: e00405-20
  13. Tentative breakpoints and areas of technical uncertainty for early reading automated disc diffusion for Enterobacterales.
    Mancini S, Röthlin K, Bodendörfer E, Herren S, Kolesnik-Goldmann N, Courvalin P, Zbinden R, Böttger EC (2020)
    J Antimicrob Chemother 75: 1495-1505
  14. Evaluation of standardized automated rapid antimicrobial susceptibility testing (saRAST) of Enterobacterales-containing blood cultures: a proof-of-principle study.
    Mancini S, Bodendörfer E, Kolesnik-Goldmann N, Herren S, Röthlin K, Couvalin P, Böttger EC (2020)
    J Antimicrob Chemother 75: 3218-3229
  15. KatG as counterselection marker for nontuberculous mycobacteria
    Gagliardi A, Selchow P, Luthra S, Schäfle D, Schulthess B, Sander P (2020)
    Antimicrob Agents Chemother 64: e02508-19  
  16. Natural polymorphisms in conferring resistance to delamanid in drug-naïve patients.
    Reichmuth ML, Hömke R, Zürcher K, Sander P, Avihingsanon A, Collantes J, Loiseau C, Borrell S, Reinhard M, Wilkinson RJ, Yotebieng M, Fenner L, Böttger EC, Gagneux S, Egger M, Keller PM (2020)
    Antimicrob Agents Chemother 64: e00513-20
  17. HIV coinfection is associated with low fitness rpoB variants in rifampicin-resistant Mycobacterium tuberculosis.
    Loiseau C, Brites D, Reinhard M, Zürcher K, Borrell S, Ballif M, Fenner L, Cox H, Rutaihwa LK, Wilkinson RJ, Yotebieng M, Carter EJ, Abimiku A, Marcy, Gotuzzo OE, Avihingsanon A, Zetola N, Doulla B, Böttger EC, Egger M, Gagneux S (2020)
    Antimicrob Agents Chemother 64: e00782-20
  18. Co-occurence of aminoglycoside and β-lactam resistance mechanisms in aminoglycoside- non-susceptible Escherichia coli isolated in the Zurich area, Switzerland.
    Bodendörfer E, Marchesi M, Imkamp F, Courvalin P, Böttger EC, Mancini S (2020)
    Int J Antimicrob Agents 56: 106019
  19. Epidemiologic, phenotypic, and structural characterization of aminoglycoside-resistance gene aac(3)-IV
    Plattner M, Gysin M, Haldimann K, Becker K, Hobbie SN (2020)
    Int J Mol Sci 21: 6133
  20. Aminoglycosides - time for resurrection of a neglected class of antibacterials?
    Böttger EC, Crich D (2020)
    ACS Infect Dis 6: 168-172
  21. Mycobacterium marinum produces distinct mycobactin and carboxymycobactin siderophores to promote growth in broth and phagocytes
    Knobloch P, Koliwer-Brandl H, Arnold FM, Hanna N, Gonda I, Adenau S, Personnic N, Barisch C, Seeger MA, Soldati T, Hilbi H (2020)
    Cell Microbiol: 22: e13163
  22. Transcriptional responses of dictyostelium discoideum exposed to different classes of bacteria.
    Lamrabet O, Melotti A, Burdet F, Hanna N, Perrin J, Nitschke J, Pagni M, Hilbi H, Soldati T, Cosson P (2020)
    Front Microbiol 11: 410
  23. Identification of Anti- Mycobacterium and Anti- Legionella Compounds with potential distinctive structural scaffolds from an HD-PBL using phenotypic screens in amoebae host models.
    Hanna N, Kicka S, Chiriano G, Harrison C, Ouertatani Sakouhi H, Trofimov V, Kranjc A, Nitschke J, Pagni M, Cosson P, Hilbi H, Leonardo Scapozza L, Soldati T (2020)
    Front Microbiol 11: 266
  24. CRHP Finder, a webtool for the detection of clarithromycin resistance in Helicobacter pylori from whole‐genome sequencing data.
    Yusibova M, Hasman H, Conradsen Clausen PTL., Imkamp F, Wagner K, Andersen, L.P. (2020)
    Helicobacter 25: e12752
  25. Semisynthetic analogs of the antibiotic fidaxomicin-design, synthesis, and biological evaluation.
    Dorst A, Berg R, Gertzen CGW, Schäfle D, Zerbe K, Gwerder M, Schnell SD, Sander P, Gohlke H, Gademann K (2020)
    ACS Med Chem Let 11: 2414-2420
  26. The structure of the Legionella response regulator LqsR reveals amino acids critical for phosphorylation and dimerization.
    Hochstrasser R, Hutter CAJ, Arnold FM, Bärlocher K, Seeger MA, Hilbi H (2020)
    Mol Microbiol 113: 1070-1084
  27. Diversity of nontuberculous mycobacteria in Heater-Cooler Devices - results from prospective surveillance.
    Kaelin MB, Kuster SP, Hasse B, Schulthess B, Imkamp F, Halbe M, Sander P, Sax H, Schreiber PW (2020)
    J Hosp Infect 105: 480-485
  28. International Society of Cardiovascular Infectious Diseases Guidelines for the Diagnosis, Treatment and Prevention of Disseminated Mycobacterium chimaera Infection Following Cardiac Surgery with Cardiopulmonary Bypass.
    Hasse B, Hannan M, Keller PM, Maurer FP, Sommerstein R, Mertz D, Wagner D, Fernández-Hidalgo N, Nomura J, Manfrin V, Bettex D, Conte AH, Durante-Mangoni E, Hing-Cheung Tang T, Stuart RL, Lundgren J, Gordon S, Jarashow MC, Schreiber PW, Niemann S, Kohl TA, Daley C, Stewardson AJ, Whitener CJ, Perkins K, Plachouras D, Lamagni T, Chand M, Freiberger T, Zweifel S, Sander P, Schulthess B, Scriven J, Sax H, van Ingen J, Mestres CA, Diekema D, Brown-Elliott BA, Wallace RJ Jr, Baddour LM, Miro JM, Hoen B; M. chimaera ISCVID investigators; Infectious Diseases specialists; Hospital epidemiologists; Microbiologists and molecular typing specialists; Cardiac surgeons/ perfusionists/ cardiologists; Ophthalmology; Anaesthesiologists; Public Health (2020)
    J Hosp Infect 104: 214-235
  29. Photodynamic therapy improves skin antisepsis as a prevention strategy in arthroplasty procedures: A pilot study
    Waldmann I., Schmid T,Prinz J, Mühleisen B, Zbinden R, Imhof L, Achermann Y (2020)
    Photodiagnosis Photodyn Ther 31: 101941
  30. Alpha-defensin lateral flow test does not appear to be useful in predicting shoulder periprosthetic joint infections
    Weigelt L, Plate A, Stadler L, Sutter R, Frustaci D, Zbinden R, Zingg PO, Gerber C, Achermann Y (2020)
    Int Orthop 44: 1023-1029
  31. Synthesis and Biological Evaluation of Iodinated Fidaxomicin Antibiotics
    Dorst A, Shchelik IS, Schäfle D, Sander P, Gademann K (2020)
    Helv Chim Acta 103: e2000130
  32. High fluence increases the antibacterial efficacy of PACK Cross-Linking
    Kling S., Hufschmid FS, Torres-Netto EA.,Randleman JB.,Mark Willcox M., Zbinden R, Hafezi F (2020)
    Cornea 39: 1020-1026
  33. SPHN/PHRT: Forming a swiss-wide infrastructure for data-driven sepsis research
    Egli A, Battegay M, Büchler AC, Bühlmann P, Calandra T, Eckert P, Furrer H, Greub G, Jakob SM, Kaiser L, Leib SL, Marsch S, Meinshausen N, Pagani JL, Pugin J, Rätsch G, Schrenzel J, Schüpbach R, Siegemund M, Zamboni N, Zbinden R, Zinkernagel A, Borgwardt K (2020)
    Stud Health Technol Inform 270: 1163-1167
  34. Characterisation of clinical manifestations and treatment strategies for invasive beta-haemolytic streptococcal infections in a Swiss tertiary hospital
    Neff A, Chok L, von Both U, Matt U, Tarnutzer A, Andreoni F, van der Linden M, Plock JA, Bühler PK, Brugger SD, Schüpbach RA, Zbinden R, Zinkernagel AS (2020)
    Swiss Med Wkly 150: w20378

    Reviews
  35. Legionella quorum sensing meets cyclic-di-GMP signaling
    Hochstrasser R, Hilbi H (2020)
    Curr Opin Microbiol 55: 9-16
  36. Phosphoinositides and the fate of Legionella in phagocytes
    Swart AL, Hilbi H (2020)
    Front Immunol 11: 25
  37. Evolution and function of bacterial RCC1 repeat effectors
    Swart AL, Gomez-Valero L, Buchrieser C, Hilbi H (2020)
    Cell Microbiol 22: e13246
  38. Structures of ABC transporters: handle with care
    Lewinson O, Orelle C, Seeger MA (2020)
    FEBS Lett 594: 3799-3814
  39. From in vitro towards in situ: structure-based investigation of ABC exporters by electron paramagnetic resonance spectroscopy
    Bordignon E, Seeger MA, Galazzo L, Meier G (2020)
    FEBS Lett 594: 3839-3856

2019

  1. Drug susceptibility testing and mortality in patients treated for tuberculosis in high-burden countries: a multi-centre cohort study.
    Zürcher K, Ballif M, Fenner L, Borrell S, Keller PM, Gnokoro J, Marcy O, Yotebieng M, Diero L, Carter EJ, Rockwood N, Wilkinson RJ, Cox H, Ezati N, Abimiku AG, Collantes J, Avihingsanon A, Kawkitinarong K, Reinhard M, Hömke R, Huebner R, Gagneux S, Böttger EC, Egger M (2019)
    Lancet Infect Dis 19: 298-30
  2. Structural basis for pH-dependent retrieval of ER proteins from the Golgi by the KDEL receptor.
    Bräuer P, Parker JL, Gerondopoulos A, Zimmermann I, Seeger MA, Barr FA, Newstead S (2019)
    Science 363: 1103-1107
  3. Engineered peptide barcodes for in-depth analyses of binding protein libraries.
    Egloff P, Zimmermann I, Arnold FM, Hutter CAJ, Morger D, Opitz L, Poveda L, Keserue HA, Panse C, Roschitzki B, Seeger MA (2019)
    Nat Methods 16: 421-428
  4. Design, multigram synthesis, and in vitro and in vivo evaluation of propylamycin: a semisynthetic 4,5-deoxystreptamine class aminoglycoside for the treatment of drug-resistant Enterobacteriaceae and other Gram-negative pathogens.
    Matsushita T, Sati G, Kondasinghe N, Pirrone M, Kato T, Waduge P, Santhosh Kumar H, Cortes Sanchon A, Dobosz-Bartoszek M, Shcherbakov D, Juhas M, Hobbie S, Schrepfer T, Chow C, Polikanov Y, Schacht J, Vasella A, Böttger EC, Crich D (2019)
    J Am Chem Soc 141: 5051-5061
  5. Co-translational assembly of proteasome subunits in NOT1-containing assemblysomes.
    Panasenko OO, Somasekharan SP, Villanyi Z, Zagatti M, Bezrukov F, Rashpa R, Cornut J, Iqbal J, Longis M, Carl SH, Peña C, Panse VG, Collart MA (2019)
    Nat Struct Mol Biol 26: 110-120
  6. In-host evolution of Staphylococcus epidermidis in a pacemaker-associated endocarditis resulting in increased antibiotic tolerance.
    Dengler Haunreiter V, Boumasmoud M, Häffner N, Wipfli D, Leimer N, Rachmühl C, Kühnert D, Achermann Y, Zbinden R, Benussi S, Vulin C, Zinkernagel AS (2019)
    Nat Commun 10: 1149
  7. Conserved phosphorylation hotspots in eukaryotic protein domain families.
    Strumillo MJ, Oplová M, Viéitez C, Ochoa D, Shahraz M, Busby BP, Sopko R, Studer RA, Perrimon N, Panse VG, Beltrao P (2019)
    Nat Commun 10: 1977
  8. The extracellular gate shapes the energy profile of an ABC exporter.
    Hutter CAJ, Timachi MH, Hürlimann LM, Zimmermann I, Egloff P, Göddeke H, Kucher S, Štefanić S, Karttunen M, Schäfer LV, Bordignon E, Seeger MA (2019)
    Nat Commun 10: 2260
  9. Quorum sensing modulates the formation of virulent Legionella persisters within infected cells.
    Personnic N, Striednig B, Lezan E, Manske C, Welin A, Schmidt A, Hilbi H (2019)
    Nat Commun 10: 5216
  10. Population-based inference of aminoglycoside resistance mechanisms in Escherichia coli.
    Mancini S, Marchesi M, Imkamp F, Wagner K, Keller PM, Quiblier C, Bodendoerfer E, Courvalin P, Böttger EC (2019)
    EBioMedicine 46: 184-192
  11. Ribosomal mistranslation leads to silencing of the unfolded protein response and increased mitochondrial biogenesis.
    Shcherbakov D, Teo Y, Boukari H, Cortes-Sanchon A, Mantovani M, Osinnii I, Moore J, Juskeviciene R, Brilkova M, Duscha S, Kumar HS, Laczko E, Rehrauer H, Westhof E, Akbergenov R, Böttger EC (2019)
    Commun Biol 2: 381
  12. PIKfyve/Fab1 is required for efficient V-ATPase delivery to phagosomes, phagosomal killing, and restriction of Legionella infection.
    Buckley CM, Heath V, Guého A, Bosmani C, Knobloch P, Sikakana P, Personnic N, Dove  S, Michel RH, Meier R, Hilbi H, Soldati T, Insall RH, King JS (2019)
    PloS Pathog 15: e1007551
  13. BATF3-dependent dendritic cells drive both effector and regulatory T-cell responses in bacterially infected tissues.
    Arnold IC, Zhang X, Artola-Boran M, Fallegger A, Sander P, Johansen P, Müller A (2019)
    PLoS Pathog 15: e1007866
  14. Genetic determinants and prediction of antibiotic resistance phenotypes in Helicobacter pylori.
    Lauener FN, Imkamp F, Lehours P, Buissonnière A, Benejat L, Zbinden R, Keller PM, Wagner K (2019)
    J Clin Med 8: 53 (PDF, 731 KB)
  15. Rapid characterization of virulence determinants in Helicobacter pylori isolated from Non-Atrophic Gastritis Patients by Next-Generation Sequencing.
    Imkamp F, Lauener FN, Pohl D, Lehours P, Vale FF, Jehanne Q, Zbinden R, Keller PM, Wagner K (2019)
    J Clin Med  8: 1030
  16. In vitro activity of apramycin against multidrug-, carbapenem- and aminoglycoside-resistant Enterobacteriaceae and Acinetobacter baumannii.
    Juhas M, Widlake E, Teo J, Huseby DL, Tyrrell JM, Polikanov YS, Ercan O, Petersson A, Cao S, Aboklaish AF, Rominski A, Crich D, Böttger EC, Walsh TR, Hughes D, Hobbie SN (2019)
    J Antimicrob Chemother 74: 944-952
  17. Rapid identification of NDM-, KPC-, IMP-, VIM- and OXA-48-like carbapenemase-producing Enterobacteriales from blood cultures by a multiplex lateral flow immunoassay
    Bodendoerfer E, Keller PM, Mancini S (2019)
    J Antimicrob Chemother 74: 1749-1751
  18. The pleiotropic Legionella transcription factor LvbR links the Lqs and c-di-GMP regulatory networks to control biofilm architecture and virulence.
    Hochstrasser R, Kessler A, Sahr T, Simon S, Schell U, Gomez-Valero L, Buchrieser C, Hilbi H (2019)
    Environ Microbiol 21: 1035-1053
  19. Modification at the 2'-position of the 4,5-series of 2-deoxystreptamine aminoglycoside antibiotics to resist aminoglycoside modifying enzymes and increase ribosomal target selectivity.
    Sati GC, Sarpe VA, Furukawa T, Mondal S, Mantovani M, Hobbie SN, Vasella A, Böttger EC, Crich D (2019)
    ACS Infect Dis 5: 1718-1730
  20. Identification of novel scaffolds targeting Mycobacterium tuberculosis.
    Dal Molin M, Selchow P, Schäfle D, Tschumi A, Ryckmans T, Laage-Witt S, Sander P (2019)
    J Mol Med 97: 1601-1613
  21. Whole genome sequencing for drug resistance profile prediction in Mycobacterium tuberculosis.
    Gygli S, Keller P, Ballif M, Blöchliger N, Hömke R, Reinhard M, Loiseau C, Ritter C, Sander P, Borrell S, Collantes J, Avihingsanon A, Gnokoro J, Yotebieng M, Egger M, Gagneux S, Böttger EC (2019)
    Antimicrob Agents Chemother 63: e02175-18
  22. Distinct Mycobacterium marinum phosphatases determine pathogen vacuole phosphoinositide pattern, phagosome maturation and escape to the cytosol.
    Koliwer-Brandl H, Knobloch P, Barisch C, Welin A, Hanna N, Soldati T, Hilbi H (2019)
    Cell Microbiol 21: e13008
  23. Discovery and characterization of Mycobacterium basiliense sp nov, a nontuberculous mycobacterium isolated from human lungs.
    Seth-Smith HM, Imkamp F, Tagini F, Cuenod A, Hoemke R, Tschacher JK, Grendelmeier P, Baettig V, Erb S, Reinhard M, Ruettimann G, Borrell S, Gagneux S, Casanova C, Droz S, Osthoff M, Tamm M, Nübel U, Greub G, Keller PM, Egli A (2019)
    Frontiers in Microbiolgy 9: 3184
  24. Structure and function of Spc42 coiled-coils in yeast centrosome assembly and duplication.
    Drennan AC, Krishna S, Seeger MA, Andreas MP, Gardner JM, Sether EKR, Jaspersen SL, Rayment I (2019)
    Mol Biol Cell 30: 1505-1522
  25. Increased drug permeability of a stiffened mycobacterial outer membrane in cells lacking MFS transporter Rv1410 and lipoprotein LprG.
    Hohl M, Remm S, Eskandarian HA, Dal Molin M, Arnold FM, Hürlimann LM, Krügel A, Fantner GE, Sander P, Seeger MA (2019)
    Mol Microbiol 111: 1263-1282
  26. The effect of varying multidrug-resistence (MDR) definitions on rates of MDR gram-negative rods.
    Wolfensberger A, Kuster SP, Marchesi M, Zbinden R, Hombach M (2019)
    Antimicrob Resist Infect Control 8: 193
  27. Evaluation of the AID AmpC line probe assay for molecular detection of AmpC-producing Enterobacterales.
    Wagner K, Mancini S, Ritter C, Böttger EC, Keller PM (2019)
    J Glob Antimicrob Resist 19: 8-13
  28. Synthesis of saccharocin from apramycin and evaluation of its ribosomal selectivity.
    Sarpe VA, Pirrone MG, Haldimann K, Hobbie SN, Vasella A, Crich D (2019)
    Medchemcomm 10: 554-558
  29. Synthesis, ribosomal selectivity, and antibacterial activity of netilmicin 4’-derivatives.
    Sonousi A, Shcherbakov D, Vasella A, Böttger EC, Crich D (2019)
    Medchemcomm 10: 946-950
  30. Identification of conformation-selective nanobodies against the membrane protein insertase BamA by an integrated structural biology approach.
    Kaur H, Hartmann JB, Jakob RP, Zahn M, Zimmermann I, Maier T, Seeger MA, Hiller S (2019)
    J Biomol NMR 73: 375-384
  31. Detection of NDM-19, a novel variant of the New Delhi metallo-β-lactamase with increased carbapenemase activity under zinc-limited conditions, in Switzerland.
    Mancini S, Keller PM, Greiner M, Bruderer V, Imkamp F (2019)
    Diagn Microbiol Infect Dis 95: 114851
  32. Defining threshold values in microscopic examination and qPCR for optimal performance of line blot assays for resistance detection in Mycobacterium tuberculosis complex.
    Wagner K, Preiswerk B, Keller PM, Schulthess B (2019)
    Diagn Microbiol Infect Dis 95: 159-161
  33. Painful lymphadenopathy after an insect bite-a case report.
    Vukovic S, Anagnostopoulos A, Zbinden R, Schönenberger L, Guillod C, French LE, Navarini A, Roider E (2019)
    Hautarzt 70: 47-50
  34. Deep infection with Mycobacterium marinum - successful treatment of a frequently misdiagnosed disease.
    Pop R, Eberhard N, Schulthess B, Estermann L (2019)
    BMJ Case Reports 12: e229663

    Reviews
  35. Role of the small GTPase Rap1 in signal transduction, cell dynamics and bacterial infection.
    Hilbi H, Kortholt A (2019)
    Small GTPases 10: 336-34

    Book Chapters
  36. Aggregatibacter Capnocytophaga, Eikenella, Kingella Pasteurella, and other fastidious or rarely encountered Gram-negative rods.
    Zbinden R (2019)
    In: Carroll K.C., M.A. Pfaller, M. L. Landry, A.J. Mc Adam, R. Patel, R. Patel, S.S. Richter, and D.W. Warnock (ed.) Manual of Clinical Microbiology (12th edition). ASM Press, Washington, D. C., USA 656-669
  37. Preface
    Buchrieser C, Hilbi H (2019)
    In Meth. Mol. Biol. 1921, Legionella: methods and protocols, 2nd edition. Buchrieser, C. & Hilbi, H. (eds.), Springer Press; pp. v-xviii
  38. Migration of Acanthamoeba castellanii through Legionella Biofilms.
    Hochstrasser R, Hilbi H (2019)
    In Meth. Mol. Biol. 1921, Legionella: methods and protocols, 2nd edition. Buchrieser, C. & Hilbi, H. (eds.), Springer Press; pp. 79-89
  39. Quantitative imaging flow cytometry of Legionella-containing vacuoles in dually fluorescence-labelled Dictyostelium.
    Welin A, Weber S, Hilbi H (2019)
    In Meth. Mol. Biol. 1921, Legionella: methods and protocols; 2nd edition. Buchrieser, C. & Hilbi, H. (eds.), Springer Press; pp. 161-177
  40. Single cell analysis of Legionella and Legionella-infected Acanthamoeba by agarose embedment.
    Personnic N, Striednig B, Hilbi H (2019)
    In Meth. Mol. Biol. 1921, Legionella: methods and protocols; 2nd edition. Buchrieser, C. & Hilbi, H. (eds.), Springer Press; pp. 191-204
  41. Perturbation of Legionella infection by RNA interference.
    Steiner B, Swart AL, Hilbi H (2019)
    In Meth. Mol. Biol. 1921, Legionella: methods and protocols; 2nd edition. Buchrieser, C. & Hilbi, H. (eds.), Springer Press; pp. 191-204.

2018

  1. A cluster of multidrug-resistant Mycobacterium tuberculosis among patients arriving in Europe from the Horn of Africa: a molecular epidemiological study.
    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)
    Lancet Infect Dis 18: 431-440
  2. Ribosome levels selectively regulate translation and lineage commitment to human hematopoiesis.
    Khajuria RK, Munschauer M, Ulirsch JC, Fiorini C, Ludwig LS, McFarland SK, Abdulhay NJ, Specht H, Keshishian H, Mani DR, Jovanovic M, Ellis SR, Fulco CP, Engreitz JM, Schütz S, Lian J, Gripp KW, Weinberg OK, Pinkus GS, Gehrke L, Regev A, Lander ES, Gazda HT, Lee Wy, Panse VG, Carr SA, Sankaran VG (2018)
    Cell 173: 90-103
  3. Correction to: Catheter retention as a consequence rather than a cause of unfavorable outcome in candidemia.
    Damonti L, Erard V, Garbino J, Schrenzel J, Zimmerli S, Mühlethaler K, Imhof A, Zbinden R, Fehr J, Boggian K, Bruderer T, Flückiger U, Frei R, Orasch C, Conen A, Khanna N, Bregenzer T, Bille J, Lamoth F, Marchetti O, Bochud PY; Fungal Infection Network of Switzerland (FUNGINOS) (2018)
    Intensive Care Med 44: 405-407
  4. Atomistic Mechanism of Large-Scale Conformational Transition in a Heterodimeric ABC Exporter.
    Göddeke H, Timachi MH, Hutter CAJ, Galazzo L, Seeger MA, Karttunen M, Bordignon E, Schäfer LV (2018)
    J Am Chem Soc 140: 4543-4551
  5. Molecular basis for disassembly of an importin:ribosomal protein complex by the escortin Tsr2.
    Schütz S, Michel E, Damberger FF, Oplová M, Peña C, Leitner A, Aebersold R, Allain FH, Panse VG (2018)
    Nat Commun 9: 3669
  6. Treatment outcome definitions in nontuberculous mycobacterial pulmonary disease: an NTM-NET consensus statement.
    van Ingen J, Aksamit T, Andrejak C, Böttger EC, Cambau E, Daley CL, Griffith DE, Guglielmetti L, Holland SM, Huitt GA, Koh WJ, Lange C, Leitman P, Marras TK, Morimoto K, Olivier KN, Santin M, Stout JE, Thomson R, Tortoli E, Wallace RJ Jr, Winthrop KL, Wagner D; for NTM-NET (2018)
    Eur Respir J 51: 1800170
  7. Structure of a eukaryotic cytoplasmic pre-40S ribosomal subunit.
    Scaiola A, Peña C, Weisser M, Böhringer D, Leibundgut M, Klingauf-Nerurkar P, Gerhardy S, Panse VG, Ban N (2018)
    EMBO J 37: e98499
  8. Association of Cutibacterium avidum Colonization in the Groin With Obesity: A Potential Risk Factor for Hip Periprosthetic Joint Infection.
    Böni L, Kuster SP, Bartik B, Zbinden R, Zingg PO, Achermann Y (2018)
    Clin Infect Dis 67: 1878-1882
  9. Propionibacterium avidum – a virulent pathogen causing hip periprosthetic joint infection.
    Achermann Y, Liu J, Zbinden R, Zingg PO, Anagnostopoulos A, Barnard E, Sutter R, Li H, McDowell A, Zinkernagel AS (2018)
    Clin Infect Dis 66: 54-63
  10. Mutant MRPS5 affects mitoribosomal accuracy and confers stress-related behavioral alterations.
    Akbergenov R, Duscha S, Fritz A-K, Juskeviciene R, Oishi N, Schmitt K, Shcherbakov D, Teo Y, Boukari H, Freihofer P, Isnard-Petit P, Oettinghaus B, Frank S, Thiam K, Rehrauer H, Westhof E, Schacht J, Eckert A, Wolfer D, Böttger EC (2018)
    EMBO Rep 19: e46193
  11. The Mycobacterial LexA/RecA-Independent DNA Damage Response Is Controlled by PafBC and the Pup-Proteasome System.
    Müller AU, Imkamp F, Weber-Ban E (2018)
    Cell Reports 23: 3551-3564
  12. Multiplex PCR on the Bronchoalveolar Lavage Fluid of Immunocompromised Patients.
    Affolter K, Schumann DM, Tamm M, Jahn K, Siebeneichler A, Junker L, Wagner K, Keller PM, Frei R, Stolz D (2018)
    Chest 154: 722-725
  13. Synthetic single domain antibodies for the conformational trapping of membrane proteins.
    Zimmermann I, Egloff P, Hutter CA, Arnold FM, Stohler P, Bocquet N, Hug MN, Huber S, Siegrist M, Hetemann L, Gera J, Gmür S, Spies P, Gygax D, Geertsma ER, Dawson RJ, Seeger MA (2018)
    Elife 7: e34317
  14. Aortic Endograft Infection with Mycobacterium chimaera and Granulicatella adiacens, Switzerland, 2014.
    Plate A, Kohl TA, Keller PM, Majer S, Fulchini R, Strahm C, Medugno C, Rancic Z, Husmann L, Sax H, Niemann S, Hasse B (2018)
    Emerg Infect Dis 24: 1700-1704
  15. Global health estimate of invasive Mycobacterium chimaera infections associated with heater-cooler devices in cardiac surgery.
    Sommerstein R, Hasse B, Marschall J, Sax H, Genoni M, Schlegel M, Widmer AF; Swiss Chimaera Taskforce (Consiglio J, Erny S, Gardiol C, Häussler A, Keller PM, Koch D, Masserey V, Moreno R, Schulthess B, Wälti M) (2018)
    Emerg Infect Dis 24: 576-578
  16. Legionella-containing vacuoles capture PtdIns(4)P-rich vesicles derived from the Golgi apparatus.
    Weber S, Steiner B, Welin A, Hilbi H (2018)
    MBio 9: e02420-18
  17. Inflammatory disorders mimicking periprosthetic joint infections may result in false-positive α-defensin.
    Plate A, Stadler L, Sutter R, Anagnostopoulos A, Frustaci D, Zbinden R, Fucentese SF, Zinkernagel AS, Zingg PO, Achermann Y (2018)
    Clin Microbiol Infect 24: 1212.e1-1212.e6
  18. Evaluation of the Lightmix® Mycoplasma macrolide assay for the detection of macrolide resistant Mycoplasma pneumoniae in pneumonia patients.
    Wagner K, Imkamp F, Pires V, Keller PM (2018)
    Clin Microbiol Infect 25: 383
  19. Rapid disk diffusion antibiotic susceptibility testing for Pseudomonas aeruginosa, Acinetobacter baumanii and Enterococcus.
    Hombach M, Jetter M, Keller PM, Blöchliger N, Kolesnik-Goldmann N, Böttger EC (2018)
    J Antimicrob Chemother 73: 385-391
  20. Combining forecast probabilities with graphical visualization for improved reporting of antimicrobial susceptibility testing.
    Mancini S, Marchesi M, Blöchliger N, Schmid M, Courvalin P, Keller P, Böttger EC (2018)
    J Antimicrob Chemother 73: 2266-2268
  21. Fluconazole non-susceptible breakthrough candidemia after prolonged low-dose prophylaxis: a prospective FUNGINOS study.
    Orasch C, Mertz D, Garbino J, van Delden C, Emonet S, Schrenzel J, Zimmerli S, Damonti L, Mühlethaler K, Imhof A, Ruef C, Fehr J, Zbinden R, Boggian K, Bruderer T, Flückiger U, Conen A, Khanna N, Frei R, Bregenzer T, Lamoth F, Erard V, Bochud PY, Calandra T, Bille J, Marchetti O; Fungal Infection Network of Switzerland (FUNGINOS) (2018)
    J Infect 76: 489-495
  22. Effects of the 1- N-(4-amino-2 S-hydroxybutyryl) and 6'- N-(2-hydroxyethyl) substituents on ribosomal selectivity, cochleotoxicity, and antibacterial activity in the sisomicin class of aminoglycoside antibiotics.
    Sonousi A, Sarpe VA, Brilkova M, Schacht J, Vasella A, Böttger EC, Crich D (2018)
    ACS Infect Dis 4: 1114-1120
  23. Molecular mechanisms of intrinsic streptomycin resistance in Mycobacterium abscessus.
    Dal Molin M, Gut M, Rominski A, Haldimann K, Becker K, Sander P (2018)
    Antimicrob Agents Chemother 62: e01427-17
  24. A uniform cloning platform for mycobacterial genetics and protein production.
    Arnold FM, Hohl M, Remm S, Koliwer-Brandl H, Adenau S, Chusri S, Sander P, Hilbi H, Seeger MA (2018)
    Sci Rep 8: 9539
  25. Molecular detection of fungal pathogens in clinical specimens by 18S rDNA high-throughput screening in comparison to ITS PCR and culture.
    Wagner K, Springer B, Pires VP, Keller PM (2018)
    Sci Rep 8: 6964
  26. Corynebacterium species rarely cause orthopedic infections.
    Kalt F, Schulthess B, Sidler F, Herren S, Fucentese SF, Zingg PO, Berli M, Zinkernagel AS, Zbinden R, Achermann Y (2018)
    J Clin Microbiol 56: e01200-18
  27. Whole-Genome Sequencing of Aggregatibacter Species Isolated from Human Clinical Specimens and Description of Aggregatibacter kilianii sp. nov.
    Murra M, Lützen L, Barut A, Zbinden R, Lund M, Villesen P, Nørskov-Lauritsen N (2018)
    J Clin Microbiol 56: e00053-18
  28. Pathogen identification by multiplex Lightmix® RT-PCR in patients with meningitis and culture-negative cerebrospinal fluid.
    Wagner K, Springer B, Pires VP, Keller PM (2018)
    J Clin Microbiol 56: e01492-17
  29. A Library-Based Screening Strategy for the Identification of DARPins as Ligands for Receptor-Targeted AAV and Lentiviral Vectors.
    Hartmann J, Münch RC, Freiling RT, Schneider IC, Dreier B, Samukange W, Koch, J, Seeger MA, Plückthun A, Buchholz CJ (2018)
    Mol Ther Methods Clin Dev 10: 128-143
  30. Quantitative imaging flow cytometry of Legionella-infected Dictyostelium reveals the impact of retrograde trafficking on pathogen vacuole composition.
    Welin A, Weber S, Hilbi H (2018)
    Appl Environ Microbiol 84: e00158-18
  31. Detection limit of Mycobacterium chimaera in water samples for monitoring medical device safety: insights from a pilot experimental series.
    Schreiber PW, Köhler N, Cervera R, Hasse B, Sax H, Keller PM (2018)
    J Hosp Infect 99: 284-289
  32. Detection of respiratory bacterial pathogens causing atypical pneumonia by multiplex Lightmix® RT-PCR.
    Wagner K, Springer B, Imkamp F, Opota O, Greub G, Keller PM. (2018)   
    Int J Med Microbiol 308: 317-323
  33. Different Types of Heater-Cooler Units and Their Risk of Transmission of Mycobacterium chimaera During Open-Heart Surgery: Clues From Device Design.
    Kuehl R, Banderet F, Egli A, Keller PM, Frei R, Döbele T, Eckstein F, Widmer AF (2018)
    Infect Control Hosp Epidemiol 39: 834-840
  34. Comparison of Löwenstein-Jensen and BACTEC MGIT 960 culture for Mycobacterium tuberculosis in people living with HIV.
    Hongler J, Musaazi J, Ledergerber B, Eberhard N, Sekaggya-Wiltshire C, Keller PM, Fehr J, Castelnuovo B (2018)
    HIV Med 19: 654-661
  35. Antibiotic-resistant indicator bacteria in irrigation water: High prevalence of extended-spectrum beta-lactamase (ESBL)-producing  Escherichia coli.
    Gekenidis MT, Qi W, Hummerjohann J, Zbinden R, Walsh F, Drissner D (2018)
    PLoS One 13: e0207857
  36. Influence of skin disinfection prior removal of perineural catheter on bacterial colonization, contamination and local inflammation: a prospective randomized study.
    Blumenthal S, Zbinden R, Mandic S, Rüst CA, Aguirre J, Borgeat A (2018)
    Minerva Anestesiol 84: 319-327
  37. A novel RT-PCR for the detection of Helicobacter pylori and identification of clarithromycin resistance mediated by mutations in the 23S rRNA gene.
    Redondo JR, Keller PM, Zbinden R, Wagner K. (2018)
    Diagn Microbiol Infect Dis 90: 1-6
  38. High-throughput screening of bacterial pathogens in clinical specimens using 16S rDNA qPCR and fragment analysis.
    Wagner K, Springer B, Pires VP, Keller PM (2018)
    Diagn Microbiol Infect Dis 93: 287-292
  39. Increased Pathogen Identification in Vascular Graft Infections by the Combined Use of Tissue Cultures and 16S rRNA Gene Polymerase Chain Reaction.
    Ajdler-Schaeffler E, Scherrer AU, Keller PM, Anagnostopoulos A, Hofmann M, Rancic Z, Zinkernagel AS, Bloemberg GV, Hasse BK; and the VASGRA Cohort (2018)
    Front Med (Lausanne) 5: 169
  40. A cluster of scedosporiosis in lung transplant candidates and recipients: The Zurich experience and review of the literature.
    Abela IA, Murer C, Schuurmans MM, Schmitt JW, Muller F, Imkamp F, Mueller NJ, Benden C (2018)
    Transpl Infect Dis 20: e12792
  41. Ureaplasma and Mycoplasma in kidney allograft recipients-A case series and review of the literature.
    Gerber L, Gaspert A, Braghetti A, Zwahlen H, Wüthrich R, Zbinden R, Mueller N, Fehr T (2018)
    Transpl Infect Dis 20: e12937
  42. Whisky, microwave or hairdryer? Exploring the most efficient way to reduce bacterial colonisation on contaminated toothbrushes.
    Patcas R, Zbinden R, Schätzle M, Schmidlin PR, Zehnder M (2018)
    Br Dent J 225: 1007-1010

    Reviews
  43. Legionella quorum sensing and its role in pathogen-host interactions.
    Personnic N, Striednig B, Hilbi H (2018)
    Curr Opin Microbiol 41: 29-35
  44. Membrane transporter research in times of countless structures.
    Seeger MA (2018)
    Biochim Biophys Acta 1860: 804-808
  45. The Role of Antibiotic-Target-Modifying and Antibiotic-Modifying Enzymes in Mycobacterium abscessus Drug Resistance.
    Luthra S, Rominski A, Sander P (2018)
    Front Microbiol 9: 2179
  46. Acanthamoeba and Dictyostelium as cellular models for Legionella infection.
    Swart AL, Harrison CF, Eichinger L, Steinert M, Hilbi H (2018)
    Front Cell Infect Microbiol 8: 61
  47. Improving the quality and workflow of bacterial genome sequencing and analysis: paving the way for a Switzerland-wide molecular epidemiological surveillance platform.
    Egli A, Blanc DS, Greub G, Keller PM, Lazarevic V, Lebrand A, Leib S, Neher RA, Perreten V, Ramette A, Schrenzel J, Stephan R, Wagner K, Wuethrich D, Xenarios I (2018)
    Swiss Med Wkly 148: w14693
  48.  The large GTPase atlastin controls ER remodeling around a pathogen vacuole.
    Steiner B, Weber S, Kaech A, Ziegler U, Hilbi H (2018)
    Commun Integr Biol 11: 1-5
  49. Analysis of Legionella metabolism by pathogen vacuole proteomics.
    Manske C, Finsel I, Hoffmann C, Hilbi H (2018)
    In Meth. Mol. Biol. 1841, Microbial proteomics. Becher, D. (ed.), Springer Press; pp. 59-76.

    Comment Letters
  50. Urban transmission of tuberculosis in China.
    Keller PM (2018)
    Comment on: Internal migration and transmission dynamics of tuberculosis in Shanghai, China: an epidemiological, spatial, genomic analysis.
    Yang, Chongguang et al (2018)
    The Lancet Infect Dis 18: 706-707
  51. Re: Zweifel et al.: Clinical and histopathologic findings in disseminated Mycobacterium chimera infection after cardiothoracic surgery (Ophthalmology. 2017;124:178-188).
    Zweifel SA, Keller PM, Hasse B, Barthelmes D, Böni C (2018)
    Ophthalmology 125: e33-e34

 

2017

  1. Global outbreak of severe Mycobacterium chimaera disease after cardiac surgery: a molecular epidemiological study.
    van Ingen J, Kohl TA, Kranzer K, Hasse B, Keller P, Szafrańska AK, 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 AB, Vos MC, Ahmed N, Brown T, Crook D, Lamagni T, Phin N, Smith G, 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)
    Lancet Infect Dis 17: 1033-1041
  2. Development of a novel lead that targets M. tuberculosis polyketide synthase 13.
    Aggarwal A, Parai MK, Shetty N, Wallis D, Woolhiser L, Hastings C, Dutta NK, Galaviz S, Dhakal RC, Shrestha R, Wakabayashi S, Walpole C, Matthews D, Floyd D, Scullion P, Riley J, Epemolu O, Norval S, Snavely T, Robertson GT, Rubin EJ, Ioerger TR,  Sirgel FA, van der Merwe R, van Helden PD, Keller P, Böttger EC, Karakousis PC, Lenaerts AJ, Sacchettini JC (2017)
    Cell 170: 249-259
  3. Structure-based design and synthesis of apramycin-paromomycin analogues. Importance of the configuration at the 6′-position and differences between the 6′-amino and hydroxy series.
    Mandhapati AR, Yang G, Kato T, Shcherbakov D, Hobbie SN, Vasella A, Böttger EC, Crich D (2017)
    J Am Chem Soc 139: 14611-14619  
  4. A model to improve and standardize clinical breakpoints for antimicrobial susceptibility testing using forecast probabilities.
    Blöchliger N, Keller P, Böttger EC, Hombach M (2017)
    J Antimicrob Chemother 72: 2553-2561
  5. Rapid detection of ESBL, carbapenemases, MRSA and other important resistance phenotypes within 6h to 8h by automated disk diffusion antibiotic susceptibility testing.
    Hombach M, Jetter M, Keller P, Blöchliger N, Kolesnik-Goldmann N, Böttger EC (2017)
    J Antimicrob Chemother 72: 3063-3069
  6. Fully automated disc diffusion for rapid antibiotic susceptibility test results: a proof-of-principle study.
    Hombach M, Jetter M, Blöchliger N, Kolesnik-Goldmann N, Böttger EC (2017)
    J Antimicrob Chemother 72: 1659-1688
  7. N6’, N6’’’ and O4' modifications to neomycin affect ribosomal selectivity without compromising antibacterial activity.
    Sati G, Scherbakov D, Hobbie S, Vasella A, Böttger EC, Crich D (2017)
    ACS Infect Dis 3: 368-377
  8. Structure-activity relationships of spectinamide antituberculosis agents; a dissection of ribosomal inhibition and native efflux avoidance contributions.
    Liu J, Bruhn D, Lee R, Zheng Z, Janusic T, Scherbakov D, Scherman M, Boshoff H, Das S, Raskesh K, Waidyarachchi S, Brewer T, Gracia B, Yang L, Bollinger J, Robertson G, Meibohm B, Lenaerts A, Ainsa J, Böttger EC, Lee R (2017)
    ACS Infect Dis 3: 72-88
  9. Lipoprotein glycosylation by protein-O-mannosyltransferase (MAB_1122c) contributes to low cell envelope permeability and antibiotic resistance in Mycobacterium abscessus.
    Becker K, Haldimann K, Selchow P, Reinau LM, Dal Molin M, Sander P (2017)
    Frontiers Microbiology 8: 2123
  10. Effect of β-lactamase production and β-lactam instability on MIC testing results of Mycobacterium abscessus.
    Rominski A, Schultess B, Müller D, Keller P, Sander P (2017)
    J Antimicrob Chemother 72: 3070-3078
  11. Elucidation of Mycobacterium abscessus aminoglycoside and capreomycin resistance by targeted deletion of three putative resistance genes.
    Rominski A, Selchow P, Becker K, Brülle JK, Dal Molin M, Sander P (2017)
    J Antimicrob Chemother 72: 2191-2200
  12. Intrinsic rifamycin resistance of Mycobacterium abscessus is mediated by ADP-ribosyltransferase MAB_0591.
    Rominski A, Roditscheff A, Selchow P, Böttger EC, Sander P (2017)
    J Antimicrob Chemother 72: 376-384
  13. Chloroquine enhances the antimycobacterial activity of isoniazid and pyrazinamide by reversing inflammation-induced macrophage efflux.
    Matt U, Selchow P, Dal Molin M, Strommer S, Sharif O, Schilcher K, Andreoni F, Stenzinger A, Zinkernagel AS, Zeitlinger M, Sander P, Nemeth J (2017)
    Int J Antimicrob Agents 50: 55-62
  14. Structural insights into Legionella RidL-Vps29 retromer subunit interaction reveal displacement of the regulator TBC1D5.
    Bärlocher K, Hutter CAJ, Swart AL, Steiner B, Welin A, Hohl M, Letourneur F, Seeger MA, Hilbi H (2017)
    Nat Commun 8: 1543
  15. ER remodeling by the large GTPase atlastin promotes vacuolar growth of Legionella pneumophila.
    Steiner B, Swart AL, Welin A, Weber S, Personnic N, Kaech A, Freyre C, Ziegler U, Klemm RW, Hilbi H (2017)
    EMBO Rep 18: 1817-1836
  16. Legionella pneumophila modulates mitochondrial dynamics to trigger metabolic repurposing of infected macrophages.
    Escoll P, Song OR, Viana F, Steiner B, Lagache T, Olivo-Marin JC, Impens F, Brodin P, Hilbi H, Buchrieser C (2017)
    Cell Host Microbe 22: 302-316
  17. Inhibitors of Mycobacterium marinum virulence identified in a Dictyostelium discoideum host model.
    Ouertatani-Sakouhi H, Kicka S, Chiriano G, Harrison CF, Hilbi H, Scapozza L, Soldati T, Cosson P (2017)
    PLoS One 12: e0181121
  18. Comparative proteomics of purified pathogen vacuoles correlates intracellular replication of Legionella pneumophila with the small GTPase Rap1.
    Schmölders J, Manske C, Otto A, Hoffmann C, Steiner B, Welin A, Becher D, Hilbi H (2017)
    Mol Cell Proteomics 16: 622-641
  19. Split tasks of asymmetric nucleotide-binding sites in the heterodimeric ABC exporter EfrCD.
    Hürlimann LM, Hohl M, Seeger MA (2017)
    FEBS J 284: 1672-1687
  20. Exploring conformational equilibria of a heterodimeric ABC transporter.
    Timachi MH, Hutter CAJ, Hohl M, Assafa T, Böhm S, Mittal A, Seeger MA and Bordignon E (2017)
    Elife 6: e20236
  21. Non-invasive in vivo imaging of tumour-associated cathepsin B by a highly selective inhibitory DARPin.
    Kramer L, Renko M, Završnik J, Turk D, Seeger MA, Vasiljeva O, Grütter MG, Turk V, Turk B (2017)
    Theranostics 7: 2806-2821
  22. Mycobacterium smegmatis PafBC is involved in regulation of DNA damage response.
    Olivencia BF, Müller AU, Roschitzki B, Burger S, Weber-Ban E, Imkamp F (2017)
    Sci Rep 7: 13987
  23. Evaluation of the AID carbapenemase line probe assay for rapid detection and identification of carbapenemase genes in Gram-negative bacilli.
    Bloemberg GV, Braun-Kiewnick A, Tedrup J, Meijerink C, Durer E, Ritter C, Keller PM, Hombach M (2017)
    J Antimicrob Chemother 72: 1948-1954
  24. Comparison of phenotypic methods for the detection of penicillinase in Staphylococcus aureus and proposal of a practical diagnostic approach.
    Hombach M, Weissert C, Senn MM, Zbinden R (2017)
    J Antimicrob Chemother 72: 1089-1093
  25. Effects of SecDF on the antimicrobial functions of cathelicidins against Staphylococcus aureus.
    Blodkamp S, Kadlec K, Gutsmann T, Quiblier C, Naim HY, Schwarz S, von Köckritz-Blickwede M (2017)
    Vet Microbiol 200: 52-58
  26. Asymptomatic congenital tuberculosis: A case report.
    Meyer Sauteur PM, Marques-Maggio E, Relly C, Keller PM, Clarenbach CF, Berger C (2017)
    Medicine (Baltimore) 96: e7562
  27. Epidemiology of invasive aspergillosis and azole resistance in patients with acute leukaemia: the SEPIA Study.
    Koehler P, Hamprecht A, Bader O, Bekeredjian-Ding I, Buchheidt D, Doelken G, Elias J, Haase G, Hahn-Ast C, Karthaus M, Kekulé A, Keller P, Kiehl M, Krause SW, Krämer C, Neumann S, Rohde H, La Rosée P, Ruhnke M, Schafhausen P, Schalk E, Schulz K, Schwartz S, Silling G, Staib P, Ullmann A, Vergoulidou M, Weber T, Cornely OA, Vehreschild MJ (2017)
    Int J Antimicrob Agents 49: 218-223

    Reviews
  28. Eukaryotic ribosome assembly, transport and quality control.
    Peña C, Hurt E, Panse VG (2017)
    Nat Struct Mol Biol 24: 689-699
  29. Formation of the Legionella replicative compartment at the crossroads of retrograde trafficking.
    Bärlocher K, Welin A, Hilbi H (2017)
    Front Cell Infect Microbiol 7: 482
  30. Formation of the Legionella-containing vacuole: phosphoinositide conversion, GTPase modulation and ER dynamics. 
    Steiner B, Weber S, Hilbi H (2017)
    Int J Med Microbiol 308: 49-57
  31. Role of the small GTPase Rap1 in signal transduction, cell dynamics and bacterial Infection.
    Hilbi H, Kortholt A (2017)
    Small GTPases 10: 336-342
  32. Intra-species and inter-kingdom signaling of Legionella pneumophila.
    Hochstrasser R, Hilbi H (2017)
    Front Microbiol 8: 79
  33. Mycobacterium tuberculosis drug-resistance testing: challenges, recent developments and perspectives.
    Schön T, Miotto P, Köser CU, Viveiros M, Böttger EC, Cambau E (2017)
    Clin Microbiol Infect 23: 154-160
  34. TBVAC2020: Advancing tuberculosis vaccines from discovery to clinical development.
    Kaufmann SHE, Dockrell HM, Drager N, Ho MM, McShane H, Neyrolles O, Ottenhoff THM, Patel B, Roordink D, Spertini F, Stenger S, Thole J, Verreck FAW, Williams A; TBVAC2020 Consortium (2017)
    Front Immunol 8: 1203

    Book Chapters
  35. Subversion of Host Membrane Dynamics by the Legionella Dot/Icm Type IV Secretion System.
    Hilbi H, Nagai H, Kubori T, Roy CR (2017)
    Curr Top Microbiol Immunol 413: 221-242

 

2016

  1. Non-mutational compensation of the fitness cost of antibiotic resistance in mycobacteria by overexpression of tlyA rRNA methylase.
    Freihofer P, Akbergenov R, Teo Y, Juskeviciene R, Anderson DI, Böttger EC (2016)
    RNA 22: 1836-1843
  2. Diagnostic molecular mycobacteriology in regions with low tuberculosis endemicity: combining real-time PCR assays for detection of multiple mycobacterial pathogens with line probe assays for identification of resistance mutations.
    Deggim-Messmer V, Bloemberg GV, Ritter C, Voit A, Hömke R, Keller PM, Böttger EC (2016)
    EBioMedicine 9: 228-237
  3. Standard genotyping overestimates transmission of Mycobacterium tuberculosis among immigrants in a low-incidence country.
    Stucki D, Ballif M, Egger M, Furrer H, Altpeter E, Battegay M, Droz S, Bruderer T, Coscolla M, Borrell S, Zürcher K, Janssens JP, Calmy A, Mazza Stalder J, Jaton K, Rieder HL, Pfyffer GE, Siegrist HH, Hoffmann M, Fehr J, Dolina M, Frei R, Schrenzel J, Böttger EC, Gagneux S, Fenner L (2016)
    J Clin Microbiol 54: 1862-1870
  4. Mycobacterium tuberculosis EsxO (Rv2346c) promotes bacillary survival by inducing oxidative stress mediated genomic instability in macrophages.
    Mohanty S, Dal Molin M, Ganguli G, Padhi A, Jena P, Selchow P, Sengupta S, Meuli M, Sander P, Sonawane A (2016)
    Tuberculosis 96: 44-57
  5. Comprehensive proteomic analysis of nitrogen-starved Mycobacterium smegmatis Δpup reveals the impact of pupylation on nitrogen stress response.
    Fascellaro G, Petrera A, Lai ZW, Nanni P, Grossmann J, Burger S, Biniossek ML, Gomez-Auli A, Schilling O, Imkamp F (2016)
    J Proteome Res 15: 2812-2825
  6. Prefabrication of a ribosomal protein subcomplex essential for eukaryotic ribosome formation.
    Peña C, Schütz S, Fischer U, Chang Y, Panse VG (2016)
    Elife 5: e21755
  7. The heterodimeric ABC transporter EfrCD mediates multidrug efflux in Enterococcus faecalis.
    Hürlimann LM, Corradi V, Hohl M, Bloemberg GV, Tieleman DP, Seeger MA (2016)
    Antimicrob Agents Chemother 60: 5400-5411
  8. The α-hydroxyketone LAI-1 regulates motility, Lqs-dependent phosphorylation signaling and gene expression of Legionella pneumophila.
    Schell U, Simon S, Sahr T, Hager D, Albers MF, Kessler A, Fahrnbauer F, Trauner D, Hedberg C, Buchrieser C and Hilbi H (2016)
    Mol Microbiol 99: 778-793
  9. Metabolism of myo-inositol by Legionella pneumophila promotes infection of amoeba and macrophages.
    Manske C, Schell U, Hilbi H (2016)
    Appl Environ Microbiol 82: 5000-5014
  10. Pathway analysis using 13C-glycerol and other carbon tracers reveals bipartite metabolism of Legionella pneumophila.
    Häuslein I, Manske C, Goebel W, Eisenreich W and Hilbi H (2016)
    Mol Microbiol 100: 229-246
  11. In silico driven design and synthesis of rhodanine derivatives as novel antibacterials targeting the enoyl reductase InhA.
    Slepikas L, Chiriano G, Perozzo R, Tardy S, Kranjc-Pietrucci A, Patthey-Vuadens O, Ouertatani-Sakouhi H, Kicka S, Harrison CF, Scrignari T, Perron K, Hilbi H, Soldati T, Cosson P, Tarasevicius E, Scapozza L (2016)
    J Med Chem 59: 10917-10928
  12. IFNs modify the proteome of Legionella-containing vacuoles and restrict infection via IRG1-derived itaconic acid.
    Naujoks J, Tabeling C, Dill BD, Hoffmann C, Brown AS, Kunze M, Kempa S, Peter A, Mollenkopf H-J, Dorhoi A, Kershaw O, Gruber AD, Sander LE, Witzenrath M, Herold S, Nerlich A, Hocke AC, van Driel I, Suttorp N, Bedoui S, Hilbi H, Trost M, Opitz B (2016)
    PLoS Pathog 12: e1005408
  13. Legionella pneumophila S1P-lyase targets host sphingolipid metabolism and restrains autophagy.
    Rolando M, Escoll P, Nora T, Botti J, Boitez V, Bedia C, Daniels C, Abraham G, Stogios PJ, Skarina T, Christophe C, Dervins-Ravault D, Cazalet C, Hilbi H, Rupasinghe T, Tull DL, McConville MJ, Ong SY, Hartland EL, Codogno P, Levade T, Naderer T, Savchenko A, Buchrieser C (2016)
    Proc Natl Acad Sci USA 113: 1901-1906
  14. Legionella shows a diverse secondary metabolism dependent on a single Sfp-type phosphopantetheinyl transferase.
    Tobias NJ, Ahrendt T, Schell U, Miltenberger M, Hilbi H, Bode H B (2016)
    PeerJ 4: e2720
  15. Delamanid and bedaquiline resistance in Mycobacterium tuberculosis ancestral Beijing genotype causing XDR-TB in a tibetan refugee.
    Hoffmann H, Kohl TA, Hofmann-Thiel S, Merker M, Beckert P, Jaton K, Nedialkova L, Sahalchyk E, Rothe T, Keller PM, Niemann S (2016)
    Am J Resp Crit Care Med 193: 337-340
  16. Relative contribution of biological variation and technical variables to zone diameter variations of disc diffusion susceptibility testing.
    Hombach M, Ochoa C, Maurer FP, Pfiffner T, Böttger EC, Furrer R (2016)
    J Antimicrob Chemother 71: 141-151
  17. Evaluation of the Bruker MALDI Biotyper for the identification of fastidious Gram-negative rods.
    Schulthess B, Bloemberg GV, Zbinden A, Mouttet F, Zbinden, R, Böttger EC, Hombach M (2016)
    J Clin Microbiol 54: 543-548
  18. Performance of Copan WASP for Routine Urine Microbiology.
    Quiblier C*, Jetter M*, Rominski M, Mouttet F, Böttger EC, Keller PM*, Hombach M* (2016)
    J Clin Microbiol 54: 585-592
  19. Detection of Helicobacter pylori in head and neck cancer patients: Results from a prospective comparative study combining serology, PCR, and rapid urease test.
    Morand GB, Fellmann J, Laske RD, Weisert JU, Soltermann A, Zbinden R, Probst R, Huber GF (2016)
    Head Neck 38: 769-774
  20. Optimal length of cultivation time for isolation of Propionibacterium acnes in suspected bone and joint infections is more than 7 days.
    Bossard DA, Ledergerber B, Zingg PO, Gerber C, Zinkernagel AS, Zbinden R, Achermann Y (2016)
    J Clin Microbiol 54: 3043-3049
  21. Prosthetic vascular graft infections: bacterial cultures from negative-pressure-wound-therapy foams do not improve diagnostics.
    Scherrer AU, Bloemberg G, Zbinden R, Zinkernagel AS, Fuchs C, Frauenfelder S, Rancic Z, Mayer D, Hasse B; VASGRA Cohort (2016)
    J Clin Microbiol 54: 2190-2193
  22. Bacteriophages as potential treatment for urinary tract infections.
    Sybesma W, Zbinden R, Chanishvili N, Kutateladze M, Chkhotua A, Ujmajuridze A, Mehnert U, Kessler TM (2016)
    Front Microbiol 7: 465
  23. Outbreak investigation for toxigenic Corynebacterium diphtheriae wound infections in refugees from Northeast Africa and Syria in Switzerland and Germany by whole genome sequencing.
    Meinel DM, Kuehl R, Zbinden R, Boskova V, Garzoni C, Fadini D, Dolina M, Blümel B, Weibel T, Tschudin-Sutter S, Widmer AF, Bielicki JA, Dierig A, Heininger U, Konrad R, Berger A, Hinic V, Goldenberger D, Blaich A, Stadler T, Battegay M, Sing A, Egli A (2016)
    Clin Microbiol Infect 22:1003

    Reviews
  24. Clinical implications of molecular drug resistance testing for Mycobacterium tuberculosis: a TBNET/RESIST-TB consensus Statement.
    Dominguez J, Böttger EC, Cirillo D, Cobelens F, Eisenach KD, Gagneux S, Hillemann D, Horsburgh R,Molina-Moya B, Niemann S, Tortoli E, Whitelaw A, Lange C (2016)
    Int J Tuberc Lung Dis 20: 24-42
  25. Subversion of retrograde trafficking by translocated pathogen effectors.
    Personnic N, Bärlocher K, Finsel I, Hilbi H (2016)
    Trends Microbiol 24: 450-462
  26. M. tuberculosis lipoproteins in virulence and immunity: fighting with a double-edged sword.
    Becker K, Sander P (2016)
    FEBS Lett: 590: 3800-3819

    Comment Letters
  27. Comment on: Delamanid susceptibility testing of Mycobacterium tuberculosis using the resazurin microtitre assay and the BACTEC™ MGIT™ 960 system.
    Imkamp F, Keller PM, Böttger EC (2016)
    J Antimicrob Chemother 71: 3624
  28. Lipase Processing of Complex Lipid Antigens.
    Sander P, Becker K, Molin MD (2016)
    Cell Chem Biol 23: 1044-1046

    Book Chapters
  29. Inflammasome recognition and regulation of the Legionella flagellum.
    Schell U, Simon S, Hilbi H (2016)
    Curr Top Microbiol Immunol 397: 161-181
  30. Identification of anti-infective compounds using amoebae.
    Harrison CF, Hilbi H  (2016)
    In: Host - pathogen interaction: microbial metabolism, pathogenicity and anti-infectives. Unden, G. Thines, E. & Schüffler, A. (eds). Wiley-Blackwell Press; pp. 139-152
  31. ABC Exporters from a Structural Perspective.
    Seeger MA, Bordignon E, Hohl M (2016)
    In: ABC Transporters – 40 years on. George, A.M. (ed). Springer; pp. 65-84

2015

  1. Aminomethyl spectinomycins as novel therapeutics for drug resistant respiratory tract and sexually transmitted bacterial infections.
    Bruhn DF, Waidyarachchi SL, Madhura DB, Shcherbakov D, Zheng Z, Liu J, Abdelrahmand YM, Singh AP, Duscha S, Rathi C, Lee RB, Belland RJ, Meibohm B, Rosch JW, Böttger EC, Lee RE (2015)
    Sci Transl Med 7: 288ra75
  2. The Resistant-Population Cutoff (RCOFF): a New Concept for Improved Characterization of Antimicrobial Susceptibility Patterns of Non-Wild-Type Bacterial Populations.
    Valsesia G, Hombach M, Maurer FP, Courvalin P, Roos M, Böttger EC (2015)
    J Clin Microbiol 53: 1806-1811
  3. Phosphatidylinositol 4-phosphate and phosphatidyl-inositol 3-phosphate regulate phagolysosome biogenesis.
    Jeschke A, Zehethofer N, Lindner B, Krupp J, Schwudke D, Haneburger I, Jovic M, Backer JM, Balla T, Hilbi H and Haas A (2015)
    Proc Natl Acad Sci USA 112: 4636-4641
  4. Amoebae-based screening reveals a novel family of compounds restricting intracellular Legionella.
    Harrison CF, Chiriano G, Finsel I, Manske C, Hoffmann C, Steiner B, Kranjc A, Pattey-Vuadens O, Kicka S, Trofimov V, Ouertatani-Sakouhi H, Soldati T, Scapozza L and Hilbi H (2015)
    ACS Infect Dis 1: 327-338
  5. Inter-kingdom signaling by the Legionella quorum sensing molecule LAI-1 inhibits cell migration through an IQGAP1/CDC42/ARHGEF9-dependent pathway.
    Simon S, Schell U, Heuer N, Hager D, Albers MF, Matthias J, Fahrnbauer F, Trauner D, Eichinger L, Hedberg C and Hilbi H (2015)
    PLoS Pathog 11: e1005307
  6. Influence of 4'-O-glycoside constitution and configuration on ribosomal selectivity of paromomycin.
    Matsushita T, Chen W, Juskeviciene R, Youjin T, Shcherbakov D, Vasella A, Böttger EC, Crich D (2015)
    J Am Chem Soc 137: 7706-7717
  7. Synthesis and antiribossomal, activities of 4’-0-, 6’-0-,4’’,6’’-0-derivatives in the kanamycin series reveal differing target selectivity patterns between the 4.5- and 4.6- series of disubstituted 2-deoxystreptamine classes of aminoglycoside antibiotics.
    Kato T, Yang G, Youjin T, Juskeviciene R, Perez-Fernandez D, Shinde HM, Salian S, Bernet B, Vasella A, Böttger EC, Crich D (2015)
    ACS Infect Dis 1: 479-486
  8. In vitro and in vivo evaluation of synergism between anti-tubercular spectinamides and non-classical tuberculosis antibiotics.
    Bruhn DF, Schermann M, Liu J, Shcherbakov D, Meibohm B, Böttger EC, Lenaerts AJ, Lee RE (2015)
    Sci Rep 5: 13985
  9. Determination of MIC distribution and epidemiological cut-off values for bedaquiline and delamanid in Mycobacterium tuberculosis using MGIT 960/ TB eXiST.
    Keller P, Hömke R, Ritter C, Valsesia G, Bloemberg GV, Böttger EC (2015)
    Antimicrob Agents Chemother 59: 4352-4355
  10. Effect of application of a PVP-iodine solution before and during subgingival ultrasonic instrumentation on post-treatment bacteremia: A randomized single-center placebo-controlled clinical trial.
    Sahrmann P, Manz A, Attin T, Zbinden R, Schmidlin PR (2015)
    J Clin Periodontol 42: 632-639
  11. Health-care associated prosthetic heart valve, aortic vascular graft, and disseminated Mycobacterium chimaera infections subsequent to open heart surgery.
    Kohler P, Kuster SP, Bloemberg GV, Schulthess B, Frank M, Tanner FC, Rössle M, Böni C, Falk V, Wilhelm MJ, Sommerstein R, Achermann Y, ten Oever J, Debast SB, Wolfhagen MJHM, Brandon Bravo Bruinsma GJ, Vos MC, Bogers A, Serr A, Beyersdorf F, Sax H, Böttger EC, Weber R, van Ingen J, Wagner D, Hasse B (2015)
    Eur Heart J 36: 2745-2753
  12. Acquired resistance to bedaquiline and delamanid in therapy for tuberculosis.
    Bloemberg GV, Keller P, Stucki D, Trauner A, Borrell S, Latshang T, Coscolla N, Rothe T, Hömke R, Ritter C, Feldmann J, Schulthess B, Gagneux S, Böttger EC (2015)
    N Engl J Med 373: 1986-1988
  13. Case series of Bifidobacterium longum bacteremia in three preterm infants on probiotic therapy.
    Zbinden A, Zbinden R, Berger C, Arlettaz R (2015)
    Neonatology 107: 56-59
  14. Clonality and antimicrobial susceptibility of methicillin-resistant Staphylococcus aureus at the University Hospital Zurich, Switzerland between 2012 and 2014.
    Seidl K, Leimer N, Marques MP, Furrer A, Holzmann-Bürgel A, Senn G, Zbinden R, Zinkernagel AS (2015)
    Ann Clin Microb Antimicro 14: 1-7
  15. Standardization of operator-dependent variables affecting precision and accuracy of the disk diffusion method for antibiotic susceptibility testing.
    Hombach M, Maurer FP, Pfiffner T, Böttger EC, Furrer R (2015)
    J Clin Microbiol 53: 3864-3869
  16. Evaluation of the RAPIDEC® CARBA NP test for the detection of carbapenemases in Enterobacteriaceae.
    Hombach M, von Gunten B, Castelberg C, Bloemberg GV (2015)
    J Clin Microbiol 53: 3828-3833
  17. A transporter motor taken apart: flexibility in the nucleotide binding domains of a heterodimeric ABC exporter.
    Bukowska MA, Hohl M, Geertsma ER, Hürlimann LM, Grütter MG, and Seeger MA (2015)
    Biochemistry 54: 3086–3099
  18. Adrenergic antagonists restrict replication of Legionella.
    Harrison CF, Kicka S, Kranjc A, Finsel I, Chiriano G, Ouertatani-Sakouhi H, Soldati T, Scapozza L and Hilbi H (2015)
    Microbiology 161: 1392-1406
  19. Fluorine-decoupled carbon spectroscopy for the determination of configuration at fully substituted, trifluoromethyl- and perfluoroalkyl-bearing carbons: comparison with (19)f-(1)h heteronuclear overhauser effect spectroscopy.
    Mandhapati AR, Kato T, Matsushita T, Ksebati B, Vasella A, Böttger EC, Crich D (2015)
    J Org Chem 80: 1754-1763
  20. Bicistronic mRNAs to enhance membrane protein overexpression.
    Marino J, Hohl M, Seeger MA, Zerbe O, Geertsma ER (2015)
    J Mol Biol 427: 943-954
  21. Deletion of zmp1 improves Mycobacterium bovis BCG-mediated protection in a guinea pig model of tuberculosis.
    Sander P, Clark S, Petrera A, Vilaplana C, Meuli M, Selchow P, Zelmer A, Mohanan D, Andreu N, Rayner E, Dal Molin M, Bancroft GJ, Johansen P, Cardona PJ, Williams A, Böttger EC (2015)
    Vaccine 33: 1353-1359
  22. XBP1 mitigates aminoglycoside-induced endoplasmic reticulum stress and neuronal cell death.
    Oishi N, Duscha S, Boukari H, Meyer M, Xie J, Wei G, Roschitzki B, Böttger EC, Schacht J (2015)
    Cell Death and Disease 6: e1763
  23. Revisiting susceptibility testing in multidrug resistant tuberculosis by a standardized quantitative phenotypic assessment in a European multicenter study.
    Cambau E, Viveiros M, Machado D, Raskine L, Ritter C, Tortoli E, Mattys V, Hoffner S, Richter E, Perez-del-Molino L, Cirillo D, van Soolingen D, Böttger EC (2015)
    J Antimicrob Chemother 70: 686-696
  24. Evaluation of carbapenemase screening and confirmation tests in Enterobacteriaceae and development of a practical diagnostic algorithm.
    Maurer F, Castelberg C, Quiblier C, Bloemberg G, Hombach M (2015)
    J Clin Microbiol 53: 95-104
  25. A mutation associated with clofazimine and bedaquiline cross-resistance in MDRTB following bedaquiline treatment.
    Somoskovi A, Bruderer V,Hömke R, Bloemberg GV, Böttger EC (2015)
    Eur Respir J 45: 554-557
  26. Aminoglycoside modifying enzymes determine the innate susceptibility to aminoglycoside antibiotics in rapidly growing mycobacteria.
    Maurer F, Bruderer V, Castelberg C, Ritter C, Scherbakov D, Bloemberg G, Böttger E (2015)
    J Antimicrob Chemother 70: 1412-1419
  27. A statistical approach for determination of disk-diffusion based cut-off values for systematic characterization of wild-type and non-wild-type bacterial populations in antimicrobial susceptibility testing.
    Valsesia G, Roos M, Böttger EC, Hombach M (2015)
    J Clin Microbiol 2015 53: 1812-1822
  28. Prolonged outbreak of Mycobacterium chimaera infection after open chest heart surgery.
    Sax H, Bloemberg G, Hasse B, Sommerstein R, Kohler P, Achermann Y, Rössle M, Falk V, Kuster SP, Böttger EC, Weber R (2015)
    Clin Infect Dis 61: 67-75

    Reviews
  29. Formation of a pathogen vacuole according to Legionella pneumophila: how to kill one bird with many stones.
    Finsel I and Hilbi H (2015)
    Cell Microbiol 17: 935-950
  30. Purification and proteomics of pathogen-modified vacuoles and membranes.
    Herweg JA, Hansmeier N, Otto A, Geffken AC, Subbarayal P, Prusty BK, Becher D, Hensel M, Schaible UE, Rudel T and Hilbi H (2015)
    Front Cell Infect Microbiol 5: 48
  31. Subversion of cell autonomous immunity and cell migration by Legionella pneumophila effectors.
    Simon S and Hilbi H (2015)
    Front Immunol 6: 477
  32. Developing whole mycobacteria cell vaccines for tuberculosis: Workshop proceedings, Max Planck Institute for Infection Biology, Berlin, Germany, July 9, 2014.
    Whole Mycobacteria Cell Vaccines for Tuberculosis Summary Group: Kaufmann S, Bloom B, Brosch R, Cardona P-J, Dockrell H, Fritzell B, Grode L, Hanekom W, Hokey D, Levin M, Martin C, Sander P, Scriba T, Shaligram U, Tameris M, von Reyn F, Walker B, Weiner J, White RG, Schrager L (2015)
    Vaccine 33: 3047-3055
  33. Pupylation-dependent and independent proteasomal degradation in mycobacteria.
    Imkamp F, Ziemski M, Weber-Ban E (2015)
    Biomol Concepts 6: 285-301

    Book Chapters
  34. Aggregatibacter, Capnocytophaga, Eikenella, Kingella, Pasteurella, and other fastidious or rarely encountered Gram-negative rods.
    R. Zbinden (2015)
    In Manual of Clinical Microbiology 11th Edition, 652-666
    Jorgensen JH, Pfaller MA, Carroll KC, Funke G, Landry ML, Richter SS, Warnock DW (eds) ASM press, Washington DC, USA

2014

  1. Spectinamides: a new class of semisynthetic antituberculosis agents that overcome native drug efflux.
    Lee RE, Hurdle JG, Liu J, Bruhn DF, Matt T, Scherman MS, Vaddady PK, Zheng Z, Qi J, Akbergenov R, Das S, Madhura DB, Rathi C, Trivedi A, Villellas C, Lee RB, Rakesh, Waidyarachchi SL, Sun D, McNeil MR, Ainsa JA, Boshoff HI, Gonzalez-Juarrero M, Meibohm B, Böttger EC, Lenaerts AJ (2014)
    Nat Med 20: 152-158
  2. 4’-O-substitutions determine selectivity of aminoglycoside antibiotics.
    Perez-Fernandez D, Shcherbakov D, Matt T, Leong NC, Kudyba I, Duscha S, Boukari H, Patak R, Dubbaka SR, Lang K, Meyer M, Akbergenov R, Freihofer P, Vaddi S, Thommes P, Ramakrishnan V, Vasella A, Böttger EC (2014)
    Nat Commun 5: 3112
  3. Parallel T-cell cloning and deep sequencing of human MAIT cells reveal stable oligoclonal TCRβ repertoire.
    Lepore M, Kalinicenko A, Colone A, Paleja B, Singhal A, Tschumi A, Lee B, Poidinger M, Zolezzi F, Quagliata L, Sander P, Newell E, Bertoletti A, Terracciano L, De Libero G, Mori L (2014)
    Nat Commun 5: 3866
  4. Identification and evaluation of improved 4’-O-(alkyl) 4,5-disubstituted 2-deoxystreptamines as next generation aminoglycoside antibiotics.
    Duscha S, Boukari H, Shcherbakov D, Salian S, Silva S, Kendall A, Kato T, Akbergenov R, Perez-Fernandez D, Bernet B, Vaddi S, Thommes P, Schacht J, Crich D, Vasella A, Böttger EC (2014)
    mBio 5: e01827-14
  5. Discovery of the first potent and selective Mycobacterium tuberculosis Zmp1 inhibitor.
    Mori M, Moraca F, Deodato D, Ferraris DM, Selchow P, Sander P, Rizzi M, Botta M (2014)
    Bioorg Med Chem Lett 24: 2508-2511
  6. Importance of the 6‘-hydroxy group and its configuration for apramycin activity.
    Mandhapati AR, Shcherbakov D, Duscha S, Vasella A, Böttger EC and Crich D (2014)
    ChemMedChem 9: 2074-2083
  7. Synthesis, antiribosomal and antibacterial activity of 4’-O-glycopyranosyl paromomycin aminoglycoside antibiotics.
    Chen W, Matsushita T, Shcherbakov D, Boukari H, Vasella A, Böttger EC and Crich D (2014)
    Med Chem Commun 5: 1179–1187
  8. In-vivo efficacy of apramycin in murine infection models.
    Meyer M, Freihofer P, Scherman M, Teague J, Lenaerts A, Böttger EC (2014)
    Antimicrob Agents Chemother 58: 6938-6941
  9. Structural basis for allosteric cross-talk between the asymmetric nucleotide binding sites of a heterodimeric ABC exporter.
    Hohl M, Hürlimann LM, Böhm S, Schöppe J, Grütter MG, Bordignon E, Seeger MA (2014)
    Proc Natl Acad Sci U S A 111: 11025-11030
  10. Coupling of remote alternating-access transport mechanisms for protons and substrates in the multidrug efflux pump AcrB.
    Eicher T, Seeger MA, Anselmi C, Zhou W, Brandstätter L, Verrey F, Diederichs K, Faraldo-Gómez JD, Pos KM (2014)
    Elife 3: 03145
  11. Phosphorylation signaling through the Legionella quorum sensing histidine kinases LqsS and LqsT converges on the response regulator LqsR.
    Schell U, Kessler A and Hilbi H (2014)
    Mol Microbiol 92: 1039–1055
  12. Icm/Dot-dependent inhibition of phagocyte migration by Legionella is antagonized by a translocated Ran GTPase activator.
    Simon S, Wagner M, Rothmeier E, Müller-Taubenberger A and Hilbi H (2014)
    Cell Microbiol 16: 977–992
  13. The Legionella longbeachae Icm/Dot substrate SidC selectively binds PtdIns(4)P with nanomolar affinity and promotes pathogen vacuole-endoplasmic reticulum interactions.
    Dolinsky S, Haneburger I, Hannemann M, Cichy A, Itzen A and Hilbi H (2014)
    Infect Immun 82: 4021-4033
  14. BCG Δzmp1 vaccine induces enhanced antigen specific immune responses in cattle.
    Khatri B, Whelan A, Clifford D, Petrera A, Sander P, Vordermeier HM (2014)
    Vaccine 32: 779-784
  15. Evaluation of the AID ESBL line probe assay for rapid detection of extended spectrum β-lactamases (ESBL) and KPC carbapenamase genes in Enterobacteriaceae.
    Bloemberg GV, Polsfuss S, Meyer V, Böttger EC, Hombach M (2014)
    J Antimicrob Chemother 69: 85-90
  16. Streptococcus tigurinus small-colony variants causing prosthetic joint infection: characterization by comparative whole-genome analyses.
    Zbinden A, Quiblier C, Hernandez D, Herzog K, Bodler P, Senn MM, Gizard Y, Schrenzel J, François P (2014)
    J Clin Microbiol 52: 467-474
  17. Evaluation of the AID TB Resistance line probe assay for rapid detection of genetic alterations associated with Mycobacterium tuberculosis drug resistance.
    Ritter C, Lucke K, Sirgel FA, Warren RW, van Helden PD, Böttger EC, Bloemberg GV (2014)
    J Clin Microbiol 52: 940-946
  18. Transmission of multidrug-resistant tuberculosis in low-incidence setting, Switzerland, 2006 to 2012.
    Somoskovi A, Helbling P, Deggim V, Hömke R, Ritter C, Böttger EC (2014)
    Euro Surveill 19(11)
  19. Erm(41)-dependent inducible resistance to azithromycin and clarithromycin in clinical isolates of Mycobacterium abscessus.
    Maurer F, Castelberg C, Quiblier C, Böttger E, Somoskövi A (2014)
    J. Antimicrob Chemother 69: 1559-1563
  20. Evaluation of the Bruker MALDI Biotyper for identification of Gram-positive rods - development of a diagnostic algorithm for the clinical laboratory.
    Schulthess B, Bloemberg G, Zbinden R, Böttger E, Hombach M (2014)
    J Clin Microbiol 52: 1089-1097
  21. Infections with the tick-borne bacterium "Candidatus Neoehrlichia mikurensis" mimic non-infectious conditions in patients with B cell malignancies or autoimmune diseases.
    Grankvist A, Andersson PO, Mattsson M, Sender M, Vaht K, Höper L, Sakiniene E, Trysberg E, Stenson M, Fehr J, Pekova S, Bogdan C, Bloemberg G, Wennerås C (2014)
    Clin Infect Dis 58: 1716-1722
  22. Lack of antimicrobial bactericidal activity in Mycobacterium abscessus.
    Maurer F, Bruderer V, Ritter C, Castelberg C, Bloemberg GV, Böttger EC (2014)
    Antimicrob Agents Chemother 58: 3828-3836
  23. Validation of antibiotic susceptibility testing guidelines in a routine clinical microbiology laboratory exemplifies general key challenges in setting clinical breakpoints.
    Hombach M, Courvalin P, Böttger EC (2014)
    Antimicrob Agents Chemother 58: 3921-3926
  24. Use of the Bruker MALDI Biotyper for the identification of molds in the clinical mycology laboratory.
    Schulthess B, Ledermann R, Mouttet F, Zbinden A, Bloemberg GV, Böttger EC, Hombach M (2014)
    J Clin Microbiol 52: 2797-2803
  25. Antibiotic susceptibility of Clostridium difficile is similar worldwide over two decades despite widespread use of broad-spectrum antibiotics: an analysis done at the University Hospital of Zurich.
    Büchler AC, Rampini SK, Stelling S, Ledergerber B, Peter S, Schweiger A, Ruef C, Zbinden R, Speck RF (2014)
    BMC Infect Dis 14: 607
  26. Candida species distribution and antifungal susceptibility testing according to EUCAST and new vs. old CLSI clinical breakpoints: a six-year prospective candidemia survey from the Fungal Infection Network of Switzerland (FUNGINOS).
    Orasch C, Marchetti O, Garbino J, Schrenzel J, Zimmerli S, Mühlethaler K, Rossi M, Pfyffer G, Ruef C, Fehr J, Zbinden R, Calandra T, Bille J; The Fungal Infection Network of Switzerland (FUNGINOS) (2014)
    Clin Microbiol Infect 20: 698-705
  27. Postsurgical wound infections due to rapidly growing myciobacteria in Swiss medical tourists following cosmetic surgery in Latin America between 2012 and 2014.
    Maurer FP, Castelberg C, von Braun A, Wolfensberger A, Bloemberg GV, Böttger EC, Somoskovi A (2014)
    Euro Surveill 19: 37
  28. Integrating forecast probabilities in antibiograms - a way to guide antimicrobial prescriptions more reliably?
    Maurer FP, Courvalin P, Böttger EC, Hombach M (2014)
    J Clin Microbiol 52: 3674-3684
  29. A type IV-translocated Legionella cysteine phytase counteracts intracellular growth restriction by phytate.
    Weber S, Stirnimann CU, Wieser M, Frey D, Meier R, Engelhardt S, Li X, Capitani G, Kammerer RA and Hilbi H (2014)
    J Biol Chem 289: 34175-34188

    Reviews
  30. Pupylation as a signal for proteasomal degradation in bacteria.
    Striebel F, Imkamp F, Ozcelik D, Weber-Ban E (2014)
    Biochim Biophys Acta 1843: 103-113
  31. Metabolism of the vacuolar pathogen Legionella and implications for virulence.
    Manske C and Hilbi H (2014)
    Front Microbiol 4: 125
  32. Beyond Rab GTPases: Legionella activates the small GTPase Ran to promote microtubule polymerization, pathogen vacuole motility and infection.
    Hilbi H, Rothmeier E, Hoffmann C and Harrison CF (2014)
    Small GTPases 5: 1-6

    Comment Letters
  33. Reply to the comment of Blakemore and Alland to "Described diagnostic inconsistencies were observed with an obsolete version of the Xpert MTB/RIF Assay and are unlikely to recur in the current version of the assay"
    Somoskovi A, Bloemberg GV (2014)
    J Clin Microbiol 52: 705
  34. Reply to the comment of Blaich and Frei to "Performance of the Xpert MTB/RIF Assay on Nonrespiratory Specimens and Its Accuracy for Detection of Rifampin Resistance in a Low-Prevalence Setting"
    Deggim V, Somoskovi A, Bloemberg GV (2014)
    J Clin Microbiol 52: 707
  35. Reply to Raoult.
    Wennerås C, Bloemberg G, Bogdan C (2014)
    Clin Infect Dis 59: 1042-1043

    Book Chapters
  36. Life cell imaging of phosphoinositide dynamics during Legionella infection. 
    Weber S and Hilbi H (2014)
    In Meth. Mol. Biol. 1197, Pathogen-host interactions: method and protocols. Vergunst, A. C. and O´Callaghan, D. (eds.), Springer Press; pp. 153-167.
  37. Bacterial lipoproteins: biogenesis, virulence/pathogenicity and trafficking.
    Tokuda H*, Sander P*, Lee BL*, Okuda S, Grau T, Tschumi A, Brülle JK, Kurokawa K and Nakayama H (2014)
    In: Bacterial membranes: Structural and molecular biology. Remaut, H., Fronzes, R. (eds). Caister Academic Press, Norfolk, UK, p. 133 – 177.

2013

  1. Lymph node targeting of BCG vaccines amplifies CD4 and CD8 T-cell responses and protection against Mycobacterium tuberculosis.
    Waeckerle-Men Y, Bruffaerts N, Liang Y, Jurion F, Sander P, Kündig TM, Huygen K, Johansen P (2013)
    Vaccine 31: 1057-1064
  2. HIV infection disrupts the sympatric host-pathogen relationship in human tuberculosis.
    Fenner L, Egger M, Bodmer T, Furrer H, Ballif M, Battegay M, Helbling P, Fehr , Gsponer T, Rieder HL, Zwahlen M, Hoffmann M, Bernasconi E, Cavassini M, Calmy A, Dolina M, Frei R, Janssens JP, Borrell S, Stucki D, Schrenzel J, Böttger EC, Gagneux S (2013)
    PLoS Genet 9: e1003318
  3. The rationale for using rifabutin in the treatment of MDR and XDR tuberculosis outbreaks.
    Sirgel FA, Warren RM, Böttger EC, Klopper M, Victor TC, van Helden PD (2013)
    PLoS One 8: e59414
  4. Mutation in the C-Di-AMP Cyclase dacA Affects Fitness and Resistance of Methicillin Resistant Staphylococcus aureus.
    Dengler V, McCallum N, Kiefer P, Christen P, Patrignani A, Vorholt JA, Berger-Bächi B, Senn MM (2013)
    PLoS One 8: e73512
  5. Close geographic association of human neoehrlichiosis and tick populations carrying Candidatus Neoehrlichia mikurensis in Eastern Switzerland.
    Maurer F, Keller PM, Beuret CM, Joha C, Achermann Y, Gubler J, Birchler D, Karrer U, Fehr J, Zimmerli L, Bloemberg GV (2013)
    J Clin Microbiol 51: 169-176
  6. A well preserved culprit.
    Maurer F, Marques Maggio E, Roth TN, Kuster SP, Bloemberg GV (2013)
    Clin Infect Dis 56: 747-748
  7. The critical influence of the intermediate category on interpretation errors in revised EUCAST and CLSI antimicrobial susceptibility testing guidelines.
    Hombach M, Böttger EC, Roos M (2013)
    Clin Microbiol Infect 19: E59-71
  8. Influence of clinical breakpoint changes from CLSI 2009 to EUCAST 2011 AST guidelines on multi drug resistance rates of Gram-negative rods.
    Hombach M, Wolfensberger A, Kuster SP, Böttger EC (2013)
    J Clin Microbiol 51: 2385-2387
  9. Prosthetic valve endocarditis and bloodstream infection due to Mycobacterium chimaera.
    Achermann Y, Rössle M, Hoffmann M, Deggim V, Kuster S, Zimmermann DR, Bloemberg GV, Hombach M, Hasse B (2013)
    J Clin Microbiol 51: 1769-1773
  10. Consequences of revised CLSI and EUCAST guidelines for antibiotic susceptibility patterns of Extended Spectrum Beta-Lactamase and AmpC Beta-Lactamase producing clinical Enterobacteriaceae isolates.
    Hombach M, Mouttet B, Bloemberg GV (2013)
    J Antimicrob Chemother 68: 2092-2098
  11. Identification of Gram-positive cocci using MALDI-TOF MS: comparison of different preparation methods and implementation of a practical algorithm for routine diagnostics.
    Schulthess B, Brodner K, Bloemberg G, Zbinden R, Böttger E, Hombach M (2013)
    J Clin Microbiol 51: 1834-1840
  12. High level resistance to isoniazid and ethionamide in multidrug resistant Mycobacterium tuberculosis of the Lisboa family is associated with inhA double mutations.
    Machado D, Perdigão J, Ramos J, Couto I, Portugal I, Ritter C, Böttger EC, Viveiros M (2013)
    J Antimicrob Chemother 68: 1728-1732
  13. Evaluation of COBAS(R) TaqMan MTB for direct detection of Mycobacterium tuberculosis complex in comparison with the COBAS(R) Amplicor MTB.
    Bloemberg GV, Voit A, Ritter C, Deggim V, Böttger EC (2013)
    J Clin Microbiol 51: 2112-2117
  14. Integrating the Xpert MTB/RIF assay in a diagnostic work flow for rapid detection of Mycobacterium tuberculosis in a low prevalence area.
    Deggim V, Somoskövi A, Voit A, Böttger EC, Bloemberg GV (2013)
    J Clin Microbiol 51: 2396-2399
  15. Molecular epidemiology of methicillin-resistant Staphylococcus aureus in Switzerland: sampling only invasive isolates does not allow a representative description of the local diversity of clones.
    Senn L, Basset P, Greub G, Prod'hom G, Frei R, Zbinden R, Gaia V, Balmelli C, Pfyffer GE, Mühlemann K, Zanetti G, Blanc DS (2013)
    Clin Microbiol Infect 19: E288-290
  16. Drug susceptibility distributions in slowly growing non-tuberculous mycobacteria using MGIT 960 TB eXiST.
    Hombach M, Somoskövi A, Hömke R, Ritter C, Böttger EC (2013)
    Int J Med Microbiol 303: 270-276
  17. Lipoproteins of slow-growing Mycobacteria carry three fatty acids and are N-acylated by apolipoprotein N-acyltransferase BCG_2070c.
    Brülle JK, Tschumi A, Sander P (2013)
    BMC Microbiol 13: 223
  18. Change of antibiotic susceptibility testing guidelines from CLSI to EUCAST: Influence on cumulative hospital antibiograms.
    Wolfensberger A, Sax H, Weber R, Zbinden R, Kuster SP, Hombach M (2013)
    PLOS ONE 8: e79130
  19. Standardisation of disk diffusion results for antibiotic susceptibility testing using the Sirscan automated zone reader.
    Hombach M, Zbinden R, Böttger EC (2013)
    BMC Microbiol 13: 225

    Reviews
  20. The mitochondrion: A perpetrator of acquired hearing loss.
    Böttger EC, Schacht J (2013)
    Hear Res 303: 12-19

  21. Comment Letter
  22. Transmission of M. abscessus in patients with cystic fibrosis.
    Böttger EC (2013)
    Lancet 382: 503-504

2012

  1. Dissociation of antibacterial activity and aminoglycoside ototoxicity in the 4-monosubstituted 2-deoxystreptamine apramycin.
    Matt T, Ng CL, Lang K, Sha SH, Akbergenov R, Shcherbakov D, Meyer M, Duscha S, Xie J, Dubbaka SR, Perez-Fernandez D, Vasella A, Ramakrishnan V, Schacht J, Böttger EC (2012)
    Proc Natl Acad Sci USA 109: 10984-10989
  2. Comparison of EUCAST and CLSI screening parameters for the detection of extended spectrum beta-lactamase (ESBL) production in clinical Enterobacteriaceae isolates.
    Polsfuss S, Bloemberg GV, Giger J, Meyer V, Hombach M (2012)
    J Antimicrob Chemother 67: 159-166
  3. Automated quantitative drug susceptibility testing of nontuberculous mycobacteria using MGIT960 / EpiCenter TBeXIST.
    Lucke K, Hombach M, Friedel U, Ritter C, Böttger EC (2012)
    J Antimicrob Chemother 67: 154-158
  4. Deletion of hypothetical wall teichoic acid ligases in Staphylococcus aureus activates the cell wall stress response.
    Dengler V, Stutzmann-Meier P, Heusser R, Kupferschmied P, Fazekas J, Friebe S, Burger-Staufer S, Majcherczyk PA, Moreillon P, Berger-Bächi B, McCallum N (2012)
    FEMS Microbiol Lett 333: 109-120
  5. Phenylethyl-butyrate enhances the potency of second-line drugs against clinical isolates of M. tuberculosis.
    Grau T, Selchow P, Tigges M, Burri R, Gitzinger M, Böttger EC, Fussenegger M, Sander P (2012)
    Antimicrob Agents Chemother 56: 1142-1145
  6. Functional analyses of mycobacterial lipoprotein diacylglyceryl transferase and comparative secretome analysis of a mycobacterial lgt mutant.
    Tschumi A, Grau T, Albrecht D, Rezwan M, Antelmann H, Sander P (2012)
    J Bacteriol 194: 3938-3949
  7. Functional characterization of the Mycobacterium tuberculosis zinc metallopeptidase Zmp1 and identification of potential substrates.
    Petrera A, Amstutz B, Gioia M, Hähnlein J, Baici A, Selchow P, Ferraris DM, Rizzi M, Sbardella D, Marini S, Coletta M, Sander P (2012)
    Biol Chem 393: 631-640
  8. Opposing roles of Sigma B and Sigma B-controlled SpoVG in the global regulation of esxA in Staphylococcus aureus.
    Schulthess B, Bloes DA, Berger-Bächi B (2012)
    BMC Microbiol 12: 17
  9. Effects of clinical breakpoint changes in CLSI guidelines 2010/2011 and EUCAST guidelines 2011 on antibiotic susceptibility test reporting of Gram-negative bacilli.
    Hombach M, Bloemberg GV, Böttger EC (2012)
    J. Antimicrob Chemother 67: 622-632
  10. Streptococcus tigurinus, a novel member of the Streptococcus mitis group, causes invasive infections.
    Zbinden A, Müller NJ, Tarr PE, Eich G, Schulthess B, Bahlmann AS, Keller PM, Bloemberg GV (2012)
    J Clin Microbiol 50: 2969-2973
  11. Important role for Mycobacterium tuberculosis UvrD1 in pathogenesis and persistence apart from its function in nucleotide excision repair.
    Houghton J, Townsend C, Williams AR, Rodgers A, Rand L, Walker KB, Böttger EC, Springer B, Davis EO (2012)
    J Bacteriol 194: 2916-2923
  12. Mycobacterium tuberculosis transmission in a low-incidence country: role of immigration and HIV infection.
    Fenner L, Gagneux S, Helbling P, Battegay M, Rieder H, Pfyffer G, Zwahlen M, Furrer H, Siegrist H, Fehr J, Dolina M, Calmy A, Stucki D, Jaton K, Janssens JP, Mazza Stalder J, Bodmer T, Ninet B, Böttger EC, Egger M (2012)
    J Clin Microbiol 50: 388-395
  13. Tuberculosis in HIV-negative and HIV-infected patients in a low-incidence country: clinical characteristics and treatment outcome.
    Fenner L, Gagneux S, Janssens JP, Fehr J, Cavassini M, Hoffman M, Bernasconi E, Schrenzel J, Bodmer T, Böttger EC, Helbling P, Egger M (2012)
    PLoS One 7: e34186
  14. Mycobacterium tuberculosis population structure determines the outcome of genetic based second-line drug resistance testing.
    Streicher E, Bergval I, Dheda K, Böttger EC, Gey van Pitius N, Bosman M, Coetzee G, Anthony R, van Helden PD, Victor TC, Warren RM (2012)
    Antimicrob Agents Chemother 56: 2420-2427
  15. Effect of mutation and genetic background on drug resistance in Mycobacterium tuberculosis.
    Fenner L, Egger M, Bodmer T, Altpeter E, Zwahlen M, Jaton K, Pfyffer GE, Borrell S, Dubuis O, Bruderer T, Siegrist HH, Furrer H, Calmy A, Fehr J, Stalder JM, Ninen B, Böttger EC, Gagneux S (2012)
    Antimicrob Agents Chemother 56: 3047-3053
  16. Evaluation of a diagnostic flow-chart for detection and confirmation of extended spectrum beta-lactamases (ESBL) in Enterobacteriaceae.
    Polsfuss S, Bloemberg GV, Giger J, Meyer V, Böttger EC, Hombach M (2012)
    Clin Microbiol Infect 18: 1194-1204
  17. gyrA mutations and phenotypic susceptibility levels to ofloxacin and moxifloxacin in clinical isolates of Mycobacterium tuberculosis.
    Sirgel FA, Warren RM, Streicher EM, Victor TC, van Helden PD, Böttger EC (2012)
    J Antimicrob Chemother 67: 1088-1093
  18. Mutations in the rrs A1401G gene and phenotypic resistance to amikacin and capreomycin in Mycobacterium tuberculosis.
    Sirgel FA, Tait M, Warren RM, Streicher EM, Böttger EC, van Helden PD, Gey van Pittius NC, Coetzee G, Hoosain EY, Chabula-Nxiweni M, Hayes C, Victor TC, Trollip A (2012)
    Microb Drug Resist 18: 193-197
  19. embB306 mutations as molecular indicators to predict ethambutol susceptibility in Mycobacterium tuberculosis.
    Sirgel FA, Warren RM, Streicher EM, Victor TC, van Helden PD, Böttger EC (2012)
    Chemotherapy 58: 358-363
  20. Structure-activity relationships among the kanamycin aminoglycosides: role of ring I hydroxy and amino groups.
    Salian S, Matt T, Akbergenov R, Harish S, Meyer M, Duscha S, Shcherbakov D, Bernet BB, Vasella A, Westhof E, Böttger EC (2012)
    Antimicrob Agents Chemother 56: 6104-6108
  21. Acquisition of clarithromycin resistance mutations in the 23S rRNA gene of Mycobacterium abscessus in the presence of inducible erm(41) methylase.
    Maurer F, Rüegger V, Ritter C, Bloemberg GV, Böttger EC (2012)
    J Antimicrob Chemother 67: 2606–2611
  22. Streptococcus tigurinus sp. nov., isolated from blood of patients with endocarditis, meningitis and spondylodiscitis.
    Zbinden A, Müller NJ, Tarr PE, Spröer C, Keller PM, Bloemberg GV (2012)
    Int J Syst Evol Microbiol 62: 2941-2945

    Comment Letter
  23. Interferon-gamma release assays and the risk of developing active tuberculosis.
    Böttger EC (2012)
    Am J Respir Crit Care Med 185: 786-787