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Publications

2022

  • Bär D, Konetschny B, Kulik A, Xu H, Paccagnella D, Beller P, Ziemert N, Dickschat JS, Gust B. Origin of the 3-methylglutaryl moiety in caprazamycin biosynthesis. Microb Cell Fact. 21(1):232. (2022) doi: 10.1186/s12934-022-01955-6.
  • Le AV, Muehe EM, Drabesch S, Pacheco JL, Bayer T, Joshi P, Kappler A, Mansor M. Environmental Risk of Arsenic Mobilization from Disposed Sand Filter Materials. Environ. Sci. Technol. (2022) doi: 10.1021/acs.est.2c04915.
  • Muenkel M, Aparicio-Yuste R, Tal MC. Kraicy P, Bastounis EE. Spatiotemporal characterization of endothelial cell motility and physical forces during exposure to Borrelia burgdorferi. STAR Protoc. 9;3(4):101832. (2022) doi: 10.1016/j.xpro.2022.101832 .
  • Burian M, Wolz C, Yazdi AS. Transcriptional adaption of staphylococci during colonization of the authentic human environment: An overview of transcriptomic changes and their relationship to physiological conditions. Front. Cell. Infect. Microbiol.12:1062329. (2022) doi: 10.3389/fcimb.2022.1062329.
  • Meißner J, Schramm T, Hoßbach B, Stark K, Link H, Stülke J. How To Deal with Toxic Amino Acids: the Bipartite AzlCD Complex Exports Histidine in Bacillus subtilis. J Bacteriol. Nov 15;e0035322. (2022) doi: 10.1128/jb.00353-22.
  • Rohmer C, Dobritz R, Tuncbilek-Dere D, Lehmann E, Gerlach D, George ES, Bae T, Nieselt K, Wolz C. Influence of Staphylococcus aureus Strain Background on Sa3int Phage Life Cycle Switches. Viruses 14(11). (2022) doi: 10.3390/v14112471.
  • Reinhardt L, Thomy D, Lakemeyer M, Westermann LM, Ortega J, Sieber SA, Sass P, Brötz-Oesterhelt H. Antibiotic Acyldepsipeptides Stimulate the Streptomyces Clp-ATPase/ClpP Complex for Accelerated Proteolysis. mBio. (2022) doi: 10.1128/mbio.01413-22.
  • Walther R, Westermann LM, Jackson SE, Brötz-Oesterhelt H, Spring DR. Identification of macrocyclic peptides which allosterically activate bacterial cylindrical proteases. ChemRxiv. (2022) doi: 10.26434/chemrxiv-2022-hqv53.
  • Zhang L, Esquembre LA, Xia SN, Oesterhelt F, Hughes C, Brötz-Oesterhelt H, Teufel R.  Antibacterial Synnepyrroles from Human-Associated Nocardiopsis sp. Show Protonophore Activity and Disrupt the Bacterial Cytoplasmic Membrane. ACS Chem. Biol. 17(10):2836–2848. (2022) doi: 10.1021/acschembio.2c00460.
  • Mungan M, Harbig T, Perez Naybel, Edenhart  S, Stegmann E, Nieselt K, Ziemert N. Secondary Metabolite Transcriptomic Pipeline (SeMa-Trap), an expression-based exploration tool for increased secondary metabolite production in bacteria. NAR, 50(W1):682–689. (2022) doi: 10.1093/nar/gkac371.
  • Fink C, Angenent LT, Molitor B. An Interdomain Conjugation Protocol for Plasmid-DNA Transfer into Methanothermobacter thermautotrophicus ΔH. In: Ferreira-Cerca, S. (eds) Archaea. Methods Mol. Biol. 2522:119-133. (2022) doi: 10.1007/978-1-0716-2445-6_7.
  • Srivastava A, Selim KA. Inheritable nanotubes boost bioimaging and photovoltaics in cyanobacteria. Nat. Nanotechnol. 17:1046–1047. (2022) doi: 10.1038/s41565-022-01212-2.
  • Höll D, Bossert L. Introducing the Microbiome: Interdisciplinary Perspectives. Endeavour 46 (1–2). (2022) doi: 10.1016/j.endeavour.2022.100817.
  • Höll D, Bossert L. "What would a microbe say?": Paving the Way to Multispecies Communication. Transpositiones 1(1):103–118. (2022) doi: 10.14220/trns.2022.1.1.103.
  • Xu H, Wochele A, Lou M, Schnakenburg G, Sun Y, Brötz-Oesterhelt H, Dickschat JS. Synthesis of tryptophan-dehydrobutyrine diketopiperazine and biological activity of hangtaimycin and its co-metabolites. Beilstein J. Org. Chem. 18:1159-116. (2022) doi: 10.3762/bjoc.18.120.
  • Šarić E, Quinn GA, Nalpas N, Paradžik T, Kazazić S, Filić Ž, Šemanjski M, Herron P, Hunter I, Maček B, Vujaklija D. Phosphoproteome Dynamics of Streptomyces rimosus during Submerged Growth and Antibiotic Production. mSystems. Sep 12:e0019922. (2022) doi: 10.1128/msystems.00199-22.
  • Visser AN, Wankel SD, Frey C, Kappler A, Lehmann MF. Unchanged nitrate and nitrite isotope fractionation during heterotrophic and Fe(II)-mixotrophic denitrification suggest a non-enzymatic link between denitrification and Fe(II) oxidation. Front Microbiol. 13:927475. (2022) doi: 10.3389/fmicb.2022.927475.
  • Birkle K, Renschler F, Angelov A, Wilharm G, Franz-Wachtel M, Maček B, Bohn E, Weber E, Müller J, Friedrich L, Schütz M. An Unprecedented Tolerance to Deletion of the Periplasmic Chaperones SurA, Skp, and DegP in the Nosocomial Pathogen Acinetobacter baumannii. J Bacteriol. 204(10):e00054–22. (2022) doi: 10.1128/jb.00054-22.
  • Suzuki TA, Fitzstevens JL, Schmidt VT, Enav H, Huus KE, Mbong Ngwese M, Grießhammer A, Pfleiderer A, Adegbite BR, Zinsou JF, Esen M, Velavan TP, Adegnika AA, Song LH, Spector TD, Muehlbauer AL, Marchi N, Kang H, Maier L, Blekhman R, Ségurel L, Ko G, Youngblut ND, Kremsner P, Ley RE. Codiversification of gut microbiota with humans. Science 377(6612): 1328–1332. (2022) doi: 10.1126/science.abm7759.
  • Gerlach D, Sieber RN, Larsen J, Krusche J, De Castro C, Baumann J, Molinaro A, Peschel A. Clonal complex-specific restriction of the immune-evasion factor tarP. Front. Microbiol. (2022) doi: 10.3389/fmicb.2022.951333.
  • Hu Z, Kopparapu PK, Ebner P, Mohammad M, Lind S, Jarneborn A, Dahlgren C, Schultz M, Deshmukh M, Pullerits R, Nega M, Nguyen M-T, Fei Y, Forsman H, Götz F, Jin T. Phenol-soluble modulin α and β display divergent roles in mice with staphylococcal septic arthritis. Communications Biology 5(1), 910. (2022) doi: https://doi.org/10.1038/s42003-022-03839-2.
  • Purder P, Krysenko S. Meyners C, Funk J, Wohlleben W, Hausch F. Mechanism‐based design of the first GlnA4‐specific inhibitors. ChemBioChem. 23(19):e20220031. (2022) doi: 10.1002/cbic.202200312.
  • Aparicio-Yuste R, Serrano-Alcalde F, Muenkel M, Garcia-Aznar JM, Bastounis EE, Gomez-Benito MJ. Computational modelling of epithelial cell monolayers during infection with Listeria monocytogenes. Comput. Methods Appl. Mech. Eng. 401(A):115477. (2022) doi: 10.1016/j.cma.2022.115477.
  • Krysenko S, Wohlleben W. Polyamine and Ethanolamine Metabolism in Bacteria as an Important Component of Nitrogen Assimilation for Survival and Pathogenicity. Med. Sci. (Basel). 10(3):40. (2022) doi: 10.3390/medsci10030040.
  • Schafhauser T, Wibberg D, Binder A, Rückert C, Busche T, Wohlleben W, Kalinowski J. Genome Assembly and Genetic Traits of the Pleuromutilin-Producer Clitopilus passeckerianus DSM1602. J Fungi (Basel). 8(8):862. (2022) doi: 10.3390/jof8080862.
  • Kazmierski J, Elsner C, Döhner K, Xu S, Ducroux A, Pott F, Jansen J, Thorball CW, Zeymer O, Zhou X, Fedorov R, Fellay J, Löffler MW, Weber ANR, Sodeik B, Goffinet C. A Baseline Cellular Antiviral State Is Maintained by cGAS and Its Most Frequent Naturally Occurring Variant rs610913. J Immunol. Jul 18:ji2100685. (2022) doi: 10.4049/jimmunol.2100685.
  • Hansen MH, Stegmann E, Cryle MJ. Beyond vancomycin: recent advances in the modification, reengineering, production and discovery of improved glycopeptide antibiotics to tackle multidrug-resistant bacteria. Curr. Opin. Biotechnol. 4(77):102767. (2022) doi: 10.1016/j.copbio.2022.102767.
  • Yang Z, Sun T, Kappler A, Jiang J. Biochar facilitates ferrihydrite reduction by Shewanella oneidensis MR-1 through stimulating the secretion of extracellular polymeric substances. Sci. Total Environ. 848:157560. (2022) doi: 10.1016/j.scitotenv.2022.157560.
  • Silva GFD, Gautam A, Duarte ICS, Delforno TP, Oliveira VM, Huson DH. Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN. Sci. Rep. 12(1):7769. (2022) doi: 10.1038/s41598-022-11753-0.
  • Zeng W, Gautam A, Huson DH. DeepToA: An Ensemble Deep-Learning Approach to Predicting the Theater of Activity of a Microbiome. Bioinformatics. 38(20):4670–4676. (2022) doi: 10.1093/bioinformatics/btac584.
  • Mendes SS, Marques J, Mesterházy E, Straetener J, Arts M, Pissarro T, Reginold J, Berscheid A, Bornikoel J, Kluj RM, Mayer C, Oesterhelt F, Friães S, Royo B, Schneider T, Brötz-Oesterhelt H, Romão CC, Saraiva LM. Synergetic Antimicrobial Activity and Mechanism of Clotrimazole-Linked CO-Releasing Molecules. ACS Bio Med Chem Au. 2(4):419-436. (2022) doi: 10.1021/acsbiomedchemau.2c00007.
  • Fromm K, Boegli A, Ortelli M, Wagner A, Bohn E, Malmsheimer S, Wagner S, Dehio C. Bartonella taylorii: A Model Organism for Studying Bartonella Infection in vitro and in vivo. Front Microbiol. 13:913434. (2022) doi: 10.3389/fmicb.2022.913434.
  • Burger KE, Pfaffelhuber P, Baumdicker F. Neural networks for self-adjusting mutation rate estimation when the recombination rate is unknown. PLoS Comput Biol. 18(8):e1010407. (2022) doi: 10.1371/journal.pcbi.1010407.
  • Berasategui A, Breitenbach N, García-Lozano M, Pons I, Sailer B, Lanz C, Rodriguez V, Hipp K, Ziemert N, Windsor D, Salem H. The leaf beetle Chelymorpha alternans propagates a plant pathogen in exchange for pupal protection. Current Biology. 32(19):4114–4127. (2022) doi: https://doi.org/10.1016/j.cub.2022.07.065.
  • Majer T, Bhattarai K, Straetener J, Pohlmann J, Cahill P, Zimmermann MO, Hübner MP, Kaiser M, Svenson J, Schindler M, Brötz-Oesterhelt H, Boeckler FM, Gross Harald. Discovery of Ircinianin Lactones B and C—Two New Cyclic Sesterterpenes from the Marine Sponge Ircinia wistarii. Marine Drugs 20(8). (2022) doi: 10.3390/md20080532.
  • Reher R, Aron AT, Fajtová P, Stincone P, Wagner B, Pérez-Lorente AI, Liu C, Shalom IYB, Bittremieux W, Wang M, Jeong K, Matos-Hernandez ML, Alexander KL, Caro-Diaz EJ, Naman CB, Scanlan JHW, Hochban PMM, Diederich WE, Molina-Santiago C, Romero D, Selim KA, Sass P, Brötz-Oesterhelt H, Hughes CC, Dorrestein PC, O’Donoghue AJ, Gerwick WH, Petras D. Native metabolomics identifies the rivulariapeptolide family of protease inhibitors. Nature Communications 13:4619. (2022) doi: https://doi.org/10.1038/s41467-022-32016-6.
  • Neumann N, Friz S, Forchhammer K. Glucose-1,6-Bisphosphate, a Key Metabolic Regulator, Is Synthesized by a Distinct Family of α-Phosphohexomutases Widely Distributed in Prokaryotes. mBio. 13(4):e0146922. (2022) doi: 10.1128/mbio.01469-22.
  • Bork F, Greve C L, Youn C, Chen S, Wang Y, Nasri M, Focken J, Scheurer J, Engels P, Dubbelaar M, Hipp K, Schittek B, Bugl S, Löffler M W, Skokowa J, Archer N K, Weber A. naRNA is a canonical neutrophil extracellular trap (NET) component and novel inflammation-amplifying composite DAMP. bioRxiv. (2022) doi: 10.1101/2022.07.26.499571.
  • Yuste R A, Muenkel M, Axarlis K, Gómez Benito M J, Reuss A, Blacker G, Tal M C, Kraicy P, Bastounis E. Borrelia burgdorfei modulates the physical forces and immunity signaling in endothelial cells. iScience. 25(8):104793. (2022) doi: 10.1016/j.isci.2022.104793.
  • Radoš D, Donati S, Lempp M, Rapp J, Link H. Homeostasis of the biosynthetic E. coli metabolome. iScience 25(7). (2022). doi: 10.1016/j.isci.2022.104503.
  • Shalev O, Karasov TL, Lundberg DS, Ashkenazy H, Pramoj Na Ayutthaya P, Weigel D. Commensal Pseudomonas strains facilitate protective response against pathogens in the host plant. Nat Ecol Evol. 6:383–396. (2022) doi: 10.1038/s41559-022-01673-7.
  • Abramov SM, Straub D, Tejada J, Grimm L, Schädler F, Bulaev A, Thorwarth H, Amils R, Kappler A, Kleindienst S. Biogeochemical Niches of Fe-Cycling Communities Influencing Heavy Metal Transport along the Rio Tinto, Spain. Appl Environ Microbiol. 88(4):e0229021. (2022) doi: 10.1128/AEM.02290-21.
  • Borisova M, Balbuchta K, Lovering A, Titz A, Mayer C. NamZ1 and NamZ2 from the oral pathogen Tannerella forsythia are peptidoglycan processing exo-β-N-acetylmuramidases with distinct substrate specificity. J Bacteriol. Feb 7:jb0059721. (2022) doi: 10.1128/jb.00597-21. 
  • Kuhn Cuellar L, Friedrich A, Gabernet G, de la Garza L, Fillinger S, Seyboldt A, Koch T, Zur Oven-Krockhaus S, Wanke F, Richter S, Thaiss WM, Horger M, Malek N, Harter K, Bitzer M, Nahnsen S. A data management infrastructure for the integration of imaging and omics data in life sciences. BMC Bioinformatics. 23(1):61.(2022) doi: 10.1186/s12859-022-04584-3
  • Huang L, Matsuo M, Calderón C, Fan SH, Ammanath AV, Fu X, Li N, Luqman A, Ullrich M, Herrmann F, Maier M, Cheng A, Zhang F, Oesterhelt F, Lämmerhofer M, Götz F. Molecular Basis of Rhodomyrtone Resistance in Staphylococcus aureusmBio. 13(1):e0383321. (2022) doi: 10.1128/mbio.03833-21.
  • Wegley Kelly L, Nelson CE, Petras D, Koester I, Quinlan ZA, Arts MGI, Nothias LF, Comstock J, White BM, Hopmans EC, van Duyl FC, Carlson CA, Aluwihare LI, Dorrestein PC, Haas AF. Distinguishing the molecular diversity, nutrient content, and energetic potential of exometabolomes produced by macroalgae and reef-building corals. Proc Natl Acad Sci U S A. 119(5):e2110283119. (2022) doi: 10.1073/pnas.2110283119.
  • Panchiwala H, Shah S, Planatscher H, Zakharchuk M, König M, Dräger A. The systems biology simulation core library, Bioinformatics 38(3):864–865. (2022) doi: 10.1093/bioinformatics/btab669.
  • Geißert JK, Bohn E, Mostolizadeh R, Dräger A, Autenrieth IB, Beier S, Deusch O, Renz A, Eichner M, Schütz MS. A Computational Model of Bacterial Population Dynamics in Gastrointestinal Yersinia enterocolitica Infections in Mice. Biology 11:297. (2022) doi: 10.3390/ biology11020297
  • Krakau S, Straub D, Gourlé H, Gabernet G, Nahnsen S. nf-core/mag: a best-practice pipeline for metagenome hybrid assembly and binning. NAR Genomics and Bioinformatics 4(1):lqac007. (2022) doi: 10.1093/nargab/lqac007.
  • Tacconelli E, Göpel S, Gladstone BP, Eisenbeis S, Hölzl F, Buhl M, Górska A, Cattaneo C, Mischnik A, Rieg S, Rohde AM, Kohlmorgen B, Falgenhauer J, Trauth J, Käding N, Kramme E, Biehl LM, Walker SV, Peter S, Gastmeier P, Chakraborty T, Vehreschild MJ, Seifert H, Rupp J, Kern WV; DZIF BLOOMY study group. Development and validation of BLOOMY prediction scores for 14-day and 6-month mortality in hospitalised adults with bloodstream infections: a multicentre, prospective, cohort study. Lancet Infect Dis. 22(5):731–741. (2022) doi: 10.1016/S1473-3099(21)00587-9.
  • Slavetinsky CJ, Hauser JN, Gekeler C, Slavetinsky J, Geyer A, Kraus A, Heilingbrunner D, Wagner S, Tesar M, Krismer B, Kuhn S, Ernst CM, Peschel A. Sensitizing Staphylococcus aureus to antibacterial agents by decoding and blocking the lipid flippase MprF. eLife 11:e66376. (2022) doi: 10.7554/eLife.66376.
  • Forchhammer K, Selim KA, Huergo LF. New views on PII signaling: from nitrogen sensing to global metabolic control. Trends Microbiol. 30(8):722–735. (2022) doi: 10.1016/j.tim.2021.12.014.
  • Engelbrecht A, Wolf F, Esch A, Kulik A, Kozhushkov SI, de Meijere A, Hughes CC, Kaysser L. Discovery of a Cryptic Nitro Intermediate in the Biosynthesis of the 3-(trans-2'-Aminocyclopropyl)alanine Moiety of Belactosin A. Org Lett. 24(2):736-740. (2022) doi: 10.1021/acs.orglett.1c04205.
  • Lueder U, Jørgensen BB, Maisch M, Schmidt C, Kappler A. Influence of Fe(III) source, light quality, photon flux and presence of oxygen on photoreduction of Fe(III)-organic complexes - Implications for light-influenced coastal freshwater and marine sediments. Sci Total Environ. 814:152767. (2022) doi: 10.1016/j.scitotenv.2021.152767.
  • Malik IT, Hegemann JD, Brötz-Oesterhelt H. Generation of Lasso Peptide-Based ClpP Binders. International Journal of Molecular Sciences. 23(1):465. (2022) doi: 10.3390/ijms23010465.

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