English Intern

    Publikationen 2023-2022


    Däullary T, Imdahl F, Dietrich O, Hepp L, Krammer T, Fey C, Neuhaus W, Metzger M, Vogel J, Westermann AJ, Saliba AE, Zdzieblo D (2023)
    A primary cell-based in vitro model of the human small intestine reveals host Olfactomedin-4 induction in response to Salmonella Typhimurium infection
    Gut Microbes 15(1):2186109

    Dischinger U, Kötzner L, Kovatcheva-Datchary P, Kleinschmidt H, Haas C, Perez J, Presek C, Koschker AC, Miras AD, Hankir MK, Vogel J, Germer CT, Fassnacht M, Herrmann MJ, Seyfried F (2023)
    Hypothalamic integrity is necessary for sustained weight loss after bariatric surgery: A prospective, cross-sectional study
    Metabolism 138:155341

    Fuchs M, Lamm-Schmidt V, Lenče T, Sulzer J, Bublitz A, Wackenreuter J, Gerovac M, Strowig T, Faber F (2023)
    A network of small RNAs regulates sporulation initiation in Clostridioides difficile
    EMBO Journal doi: 10.15252/embj.2022112858 (Online ahead of print)

    Hadjeras L*, Bartel J*, Maier LK*, Maaß S, Vogel V, Svensson SL, Eggenhofer F, Gelhausen R, Müller T, Alkhnbashi OS, Backofen R, Becher D, Sharma CM, Marchfelder A (2023)
    Revealing the small proteome of Haloferax volcanii by combining ribosome profiling and small-protein optimised mass spectrometry
    µLife (4)uqad001

    Hadjeras L, Heiniger B, Maaß S, Scheuer R, Gelhausen R, Azarderakhsh S, Barth-Weber S, Backofen R, Becher D, Ahrens C#, Sharma CM#, Evguenieva-Hackenberg E# (2022)
    Unraveling the small proteome of the plant symbiont Sinorhizobium meliloti by ribosome profiling and proteogenomics
    µLife (4)uqad012

    Hankir MK, Kovatcheva-Datchary P, Springer R, Hoffmann A, Vogel J, Seyfried F, Arora T (2023)
    Gut Microbiota Contribution to Weight-Independent Glycemic Improvements after Gastric Bypass Surgery
    Microbiology Spectrum doi: 10.1128/spectrum.05109-22 (Epub ahead of print)

    Homberger C, Hayward RJ, Barquist L, Vogel J (2023)
    Improved bacterial single-cell RNA-seq through automated MATQ-seq and Cas9-based removal of rRNA reads
    mBio 14(2):e0355722

    Homberger C, Saliba AE, Vogel J (2023)
    A MATQ-seq-Based Protocol for Single-Cell RNA-seq in Bacteria
    Methods in Molecular Biology 2584:105-12

    Hung S, Kasperkowitz A, Kurz F, Dreher L, Diessner J, Ibrahim ES, Schwarz S, Ohlsen K*, Hertlein T* (2023)
    Next-generation humanized NSG-SGM3 mice are highly susceptible to Staphylococcus aureus infection
    Frontiers in Immunology 14:1127709

    Jiao C, Rechstadt C, König F, Homberger C, Yu J, Vogel J, Westermann AJ, Sharma CM, Beisel CL (2023)
    RNA recording in single bacterial cells using reprogrammed tracrRNAs
    Nature Biotechnology doi: 10.1038/s41587-022-01604-8 (Online ahead of print)

    Jung JJ, Popella L, Do PT, Pfau P, Vogel J, Barquist L (2023)
    Design and off-target prediction for antisense oligomers targeting bacterial mRNAs with the MASON webserver
    RNA rna.079263.122

    Kirchner L, Marciniak T, Ziebuhr W, Scherf-Clavel O, Holzgrabe U (2023)
    Development, validation and application of a selective and sensitive LC-MS/MS method for the quantification of daptomycin in a suspension of Mammaliicoccus sciuri in Mueller-Hinton broth
    Journal of Pharmaceutical and Biomedical Analysis 227:115293

    Masota NE, Ohlsen K, Meinel L, Holzgrabe U (2023)
    Nature-inspired synthesis of antibacterial glucovanillin derivatives
    Fitoterapia 167:105475

    Michaux C, Gerovac M, Hansen EE, Barquist L, Vogel J (2023)
    Grad-seq analysis of Enterococcus faecalis and Enterococcus faecium provides a global view of RNA and protein complexes in these two opportunistic pathogens
    microLife (4)uqac027

    Raschig M, Ramírez-Zavala B, Wiest J, Saedtler M, Gutmann M, Holzgrabe U, Morschhäuser J, Meinel L (2023)
    Azobenzene derivatives with activity against drug-resistant Candida albicans and Candida auris
    Archiv der Pharmazie 356(2):e2200463

    Winter SE, Faber F, Bäumler AJ (2023)
    Durchfallerreger und die Homöostase der Mikrobiota
    Biospektrum 2/2023


    Aguilar C, Pauzuolis M, Pompaiah M, Vafadarnejad E, Arampatzi P, Fischer M, Narres D, Neyazi M, Kayisoglu Ö, Sell T, Blüthgen N, Morkel M, Wiegering A, Germer CT, Kircher S, Rosenwald A, Saliba AE, Bartfeld S (2022)
    Helicobacter pylori shows tropism to gastric differentiated pit cells dependent on urea chemotaxis
    Nature Communications 5;13(1):5878

    Ataide MA, Knöpper K, Cruz de Casas P, Ugur M, Eickhoff S, Zou M, Shaikh H, Trivedi A, Grafen A, Yang T, Prinz I, Ohlsen K, Gomez de Agüero M, Beilhack A, Huehn J, Gaya M, Saliba AE, Gasteiger G, Kastenmüller W (2022)
    Lymphatic migration of unconventional T cells promotes site-specific immunity in distinct lymph nodes
    Immunity 11;55(10):1813-1828.e9

    Barthels F, Meyr J, Hammerschmidt SJ, Marciniak T, Rader HJ, Ziebuhr W, Engels B, Schirmeister T (2022)
    2-Sulfonylpyrimidines as Privileged Warheads for the Development of S. aureus Sortase A Inhibitors
    Frontiers in Molecular Biosciences 8:804970

    Bornet E, Westermann AJ (2022)
    The ambivalent role of Bacteroides in enteric infections
    Trends in Microbiology 30(2):104-108

    Brandt P, Gerwien F, Wagner L, Krüger T, Ramıírez-Zavala B, Mirhakkak MH, Schäuble S, Kniemeyer O, Panagiotou G, Brakhage AA, Morschhäuser J, Vylkova S (2022)
    Candida albicans SR-like protein kinases regulate different cellular processes: Sky1 is involved in control of ion homeostasis, while Sky2 is important for dipeptide utilization
    Frontiers in Cellular and Infection Microbiology 12:850531

    Cordero M, García-Fernández J, Acosta IC, Yepes A, Avendano-Ortiz J, Lisowski C, Oesterreicht B, Ohlsen K, Lopez-Collazo E, Förstner KU, Eulalio A, Lopez D (2022)
    The induction of natural competence adapts staphylococcal metabolism to infection
    Nature Communications 21;13(1):1525

    Doorley LA, Rybak JM, Berkow EL, Zhang Q, Morschhäuser J, Rogers PD (2022)
    Candida parapsilosis Mdr1B and Cdr1B are drivers of Mrr1-mediated clinical fluconazole resistance
    Antimicrobial Agents and Chemotherapy 66:e0028922

    Gelhausen R, Müller T, Svensson SL, Alkhnbashi OS, Sharma CM, Eggenhofer F, Backofen R (2022)
    RiboReport - benchmarking tools for ribosome profiling-based identification of open reading frames in bacteria
    Briefings in Bioinformatics 23(2):bbab549

    Gomez-Raya-Vilanova MV, Leskinen K, Bhattacharjee A, Virta P, Rosenqvist P, Smith JLR, Bayfield OW, Homberger C, Kerrinnes T, Vogel J, Pajunen MI, Skurnik M (2022)
    The DNA polymerase of bacteriophage YerA41 replicates its T-modified DNA in a primer-independent manner
    Nucleic Acids Research 50(7):3985-3997

    Halloy F, Biscans A, Bujold KE, Debacker A, Hill AC, Lacroix A, Luige O, Strömberg R, Sundstrom L, Vogel J, Ghidini A (2022)
    Innovative developments and emerging technologies in RNA therapeutics
    RNA Biology 19(1):313-332

    Herrera-Uribe J, Zaldívar-López S, Aguilar C, Entrenas-García C, Bautista R, Claros MG, Garrido JJ (2022)
    Study of microRNA expression in Salmonella Typhimurium-infected porcine ileum reveals miR-194a-5p as an important regulator of the TLR4-mediated inflammatory response
    Veterinary Research 53(1):35

    Hör J, Jung J, Ðurica-Mitić S, Barquist L, Vogel J (2022)
    INRI-seq enables global cell-free analysis of translation initiation and off-target effects of antisense inhibitors
    Nucleic Acids Research 14:gkac838

    Hung S, Dreher L, Diessner J, Schwarz S, Ohlsen K, Hertlein T (2022)
    MRSA Infection in the Thigh Muscle Leads to Systemic Disease, Strong Inflammation, and Loss of Human Monocytes in Humanized Mice
    Frontiers in Immunology 13:892053

    Ibrahim ES, Ohlsen K (2022)
    The Old Yellow Enzyme OfrA Fosters Staphylococcus aureus Survival via Affecting Thiol-Dependent Redox Homeostasis
    Frontiers in Microbiology 13:888140

    Liao C, Sharma S, Svensson SL, Kibe A, Weinberg Z, Alkhnbashi OS, Bischler T, Backofen R, Caliskan N, Sharma CM, Beisel CL (2022)
    Spacer prioritization in CRISPR-Cas9 immunity is enabled by the leader RNA
    Nature Microbiology 7(4):530-541

    Matera G, Altuvia Y, Gerovac M, El Mouali Y, Margalit H, Vogel J (2022)
    Global RNA interactome of Salmonella discovers a 5' UTR sponge for the MicF small RNA that connects membrane permeability to transport capacity
    Molecular Cell 82(3):629-644.e4

    Omran R, Ramírez-Zavala B, Aji Tebung W, Yao S, Feng J, Law C, Dumeaux V, Morschhäuser J, Whiteway M (20222)
    The zinc cluster transcription factor Rha1 is a positive filamentation regulator in Candida albicans
    Genetics 220:iyab155

    Ponath F, Zhu Y, Cosi V, Vogel J (2022)
    Expanding the genetic toolkit helps dissect a global stress response in the early-branching species Fusobacterium nucleatum
    PNAS 2 4;119(40)

    Popella L, Jung J, Do PT, Hayward RJ, Barquist L, Vogel J (2022)
    Comprehensive analysis of PNA-based antisense antibiotics targeting various essential genes in uropathogenic Escherichia coli
    Nucleic Acids Research 50(11):6435–52

    Prezza G, Ryan D, Mädler G, Reichardt S, Barquist L, Westermann AJ (2022)
    Comparative genomics provides structural and functional insights into Bacteroides RNA biology
    Molecular Microbiology 117(1):67-85

    Ramírez-Zavala B, Krüger I, Dunker C, Jacobsen ID, Morschhäuser J (2022)
    The protein kinase Ire1 has a Hac1-independent essential role in iron uptake and virulence of Candida albicans
    PLoS Pathogens 18(2): e1010283

    Schneider C, Erhard F, Binotti B, Buchberger A, Vogel J, Fischer U (2022)
    An unusual mode of baseline translation adjusts cellular protein synthesis capacity to metabolic needs
    Cell Reports 11;41(2):111467

    Schuster EM, Epple MW, Bremser A, Lucht K, Zimmermann J, Polyzou A, Ballabio A, Trompouki E, Vogel J, Büscher J, Westermann AJ, Rambold AS (2022)
    Lysosomal signaling induces mitochondrial itaconate synthesis to suppress virulent bacterial growth states in macrophages
    Nature Metabolism 4(7):856-866

    Seethaler M, Hertlein T, Hopke E, Köhling P, Ohlsen K, Lalk M, Hilgeroth A (2022)
    Novel Effective Fluorinated Benzothiophene-Indole Hybrid Antibacterials against S. aureus and MRSA Strains
    Pharmaceuticals (Basel) 13;15(9):1138

    Solar Venero EC, Matera G, Vogel J, López NI#, Tribelli PM# (2022)
    Small RNAs in the Antarctic bacterium Pseudomonas extremaustralis responsive to oxygen availability and oxidative stress
    Environmental Microbiology Reports Online ahead of print

    Umstätter F, Werner J, Zerlin L, Mühlberg E, Kleist C, Klika KD, Hertlein T, Beijer B, Domhan C, Zimmermann S, Ohlsen K, Haberkorn U, Mier W, Uhl P(2022)
    Impact of Linker Modification and PEGylation of Vancomycin Conjugates on Structure-Activity Relationships and Pharmacokinetics
    Pharmaceuticals (Basel) 28;15(2):159

    Vazquez-Laslop N, Sharma CM, Mankin A, Buskirk AR (2022)
    Identifying small ORFs in prokaryotes with ribosome profiling
    Journal of Bacteriology 18;204(1):e0029421

    Yair Y, Michaux C, Biran D, Bernhard J, Vogel J, Barquist L, Ron EZ (2022)
    Cellular RNA Targets of Cold Shock Proteins CspC and CspE and Their Importance for Serum Resistance in Septicemic Escherichia coli
    mSystems e0008622