Publikationen 2023 - 2022
2023
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 J, 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 web server
RNA 29(5):570-583. doi: 10.1261/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, Zehe M, Vogg G, Ohlsen K, Meinel L, Holzgrabe U (2023)
Searching for new agents against Enterobacteriaceae from nature: approaches, potential plant species, isolated compounds, and their respective properties
Phytochemistry Reviews doi.org/10.1007/s11101-023-09902-y
Masota NE, Ohlsen K, Meinel L, Holzgrabe U (2023)
Nature-inspired synthesis of antibacterial glucovanillin derivatives
Fitoterapia 167:105475
McFleder RL, Makhotkina A, Groh J, Keber U, Imdahl F, Peña Mosca J, Peteranderl A, Wu J, Tabuchi S, Hoffmann J, Karl AK, Pagenstecher A, Vogel J, Beilhack A, Koprich JB, Brotchie JM, Saliba AE, Volkmann J, Ip CW (2023)
Brain-to-gut trafficking of alpha-synuclein by CD11c+ cells in a mouse model of Parkinson's disease
Nature Communication 20;14(1):7529. doi: 10.1038/s41467-023-43224-z
McQuail J, Matera G, Gräfenhan T, Bischler T, Haberkant P, Stein F, Vogel J, Wigneshweraraj S (2023)
Global Hfq-mediated RNA interactome of nitrogen starved Escherichia coli uncovers a conserved post-transcriptional regulatory axis required for optimal growth recovery
Nucleic Acids Research 24:gkad1211. doi: 10.1093/nar/gkad1211. Online ahead of print
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
Okuda T, Lenz AK, Seitz F, Vogel J, Höbartner C (2023)
A SAM analogue-utilizing ribozyme for site-specific RNA alkylation in living cells
Nature Chemistry 15(11):1523-1531. doi: 10.1038/s41557-023-01320
Oneissi M, Cruz MR, Ramírez-Zavala B, Lindemann-Perez E, Morschhäuser J, Garsin DA, Perez JC (2023)
Host-derived reactive oxygen species trigger activation of the Candida albicans transcription regulator Rtg1/3
PLoS Pathogens 28;19(9):e1011692
Ramírez-Zavala B, Betsova D, Schwanfelder S, Krüger I, Mottola A, Krüger T, Kniemeyer O, Brakhage AA, Morschhäuser J (2023)
Multiple phosphorylation sites regulate the activity of the repressor Mig1 in Candida albicans
mSphere 20;8(6):e0054623
Ramírez-Zavala B, Krüger I, Wollner A, Schwanfelder S, Morschhäuser J. (2023)
The Ypk1 protein kinase signaling pathway is rewired and not essential for viability in Candida albicans
PLoS Genetics 10;19(8):e1010890. doi: 10.1371/journal.pgen.1010890
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
Sparmann A, Vogel J (2023)
RNA-based medicine: from molecular mechanisms to therapy
EMBO Journal 2;42(21):e114760. doi: 10.15252/embj.2023114760
Üresin D, Pyper DJ, Borst A, Hadjeras L, Gelhausen R, Backofen R, Sharma CM, Schwalbe H, Soppa J (2023)
Characterization of the zinc finger μ-protein HVO_0758 from Haloferax volcanii: biological roles, zinc binding, and NMR solution structure
Front Microbiol 29;14:1280972. doi: 10.3389/fmicb.2023.1280972. eCollection
Werner J, Umstätter F, Hertlein T, Beijer B, Kleist C, Mühlberg E, Zimmermann S, Haberkorn U, Ohlsen K, Fricker G, Mier W, Uhl P (2023)
Improved pharmacokinetics and enhanced efficacy of the vancomycin derivative FU002 using a liposomal nanocarrier
Nanomedicine 27;56:102731. doi: 10.1016/j.nano.2023.102731. Online ahead of print
Winter SE, Faber F, Bäumler AJ (2023)
Durchfallerreger und die Homöostase der Mikrobiota
Biospektrum 2/2023
2022
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
Chihara K, Gerovac M, Hör J, Vogel J (2022)
Global profiling of the RNA and protein complexes of Escherichia coli by size exclusion chromatography followed by RNA
sequencing and mass spectrometry (SEC-seq)
RNA 3;29:123-39
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
