A5072675361- Bacterial Genetics and Biotechnology
- Bioinformatics and Genomic Networks
- Antibiotic Resistance in Bacteria
- Bacteriophages and microbial interactions
- Gene expression and cancer classification
- Microbial Metabolic Engineering and Bioproduction
- RNA and protein synthesis mechanisms
- Bacterial biofilms and quorum sensing
- Vibrio bacteria research studies
- Computational Drug Discovery Methods
- Enzyme Structure and Function
- Gene Regulatory Network Analysis
- Remote Sensing and LiDAR Applications
- Evolution and Genetic Dynamics
- CRISPR and Genetic Engineering
- Pharmacogenetics and Drug Metabolism
- Machine Learning in Bioinformatics
- Fatty Acid Research and Health
- Historical Geography and Cartography
- Endoplasmic Reticulum Stress and Disease
- Australian History and Society
- Pharmaceutical and Antibiotic Environmental Impacts
- Bacterial Identification and Susceptibility Testing
- Genomics and Phylogenetic Studies
- Wound Healing and Treatments
European Molecular Biology Laboratory
2012-2024
European Molecular Biology Laboratory
2024
European Food Safety Authority
2024
University of Birmingham
2019-2020
Czech Academy of Sciences, Institute of Microbiology
2019-2020
BASF (Germany)
2020
European Molecular Biology Laboratory
2016-2017
Aristotle University of Thessaloniki
2004-2013
Academy of Athens
2011-2012
Biomedical Research Foundation of the Academy of Athens
2011
Highlights•Construction of two ordered gene deletion mutant libraries B. subtilis•Defined essential and auxotrophic sets in subtilis•High-throughput methods for transformation double-mutant analysis•Genome-wide screening growth, competence, sporulationSummaryA systems-level understanding Gram-positive bacteria is important from both an environmental health perspective most easily obtained when high-quality, validated genomic resources are available. To this end, we constructed ordered,...
The cell envelope of Gram-negative bacteria is a formidable barrier that difficult for antimicrobial drugs to penetrate. Thus, the list treatments effective against these organisms small and with rise new resistance mechanisms shrinking rapidly. New therapies treat bacterial infections are therefore sorely needed. This goal will be greatly aided by detailed mechanistic understanding assembly. Although excellent progress in identification essential biogenesis systems has been made recent...
Article3 February 2020Open Access Outer membrane lipoprotein NlpI scaffolds peptidoglycan hydrolases within multi-enzyme complexes in Escherichia coli Manuel Banzhaf European Molecular Biology Laboratory, Genome Unit, Heidelberg, Germany Search for more papers by this author Hamish CL Yau Centre Bacterial Cell Biology, Biosciences Institute, Newcastle University, Upon Tyne, UK Jolanda Verheul & Physiology, Swammerdam Institute Life Sciences, Faculty of Science, University Amsterdam, The...
Fighting antibiotic resistance requires a deeper understanding of the genetic factors that determine susceptibility bacteria. Here we describe chemical-genomic screen in Escherichia coli K-12 was designed to discover new aspects by focusing on set 26 antibiotics and other stresses with poorly characterized mode-of-action determinants resistance. We show identifies for these including common signature from two antimicrobials, kasugamycin blasticidin S, used treat crop diseases like rice blast...
By acquiring or evolving resistance to one antibiotic, bacteria can become resistant a second one, due shared underlying mechanisms. This is called cross-resistance (XR) and further limits therapeutic choices. The opposite scenario, in which initial leads sensitivity termed collateral (CS) inform cycling combinatorial treatments. Despite their clinical relevance, our current knowledge of such interactions limited, mostly experimental constraints assessment lack understanding the To fill this...
ABSTRACT Bacteria carry dozens of Toxin/Antitoxin systems (TAs) in their chromosomes. Upon growth, the antitoxin is co-expressed and neutralizes toxin. TAs can be activated inhibit but when how this occurs has largely remained enigmatic, hindering our understanding physiological roles. We developed TIC/TAC (Toxin Inhibition/Activation Conjugation), a high-throughput reverse genetics approach, to systematically identify molecular blockers triggers TAs. By applying tripartite TA, retron-Sen2...
High-throughput chemical genomic screens produce informative datasets, providing valuable insights into unknown gene function on a genome-wide level. However, there is currently no comprehensive analytic package publicly available. We developed ChemGAPP to bridge this gap. integrates various steps in streamlined and user-friendly format, including rigorous quality control measures curate screening data.ChemGAPP provides three sub-packages for different chemical-genomic screens: Big...
Biofilm inhibition by exogenous molecules has been an attractive strategy for the development of novel therapeutics. We investigated biofilm inhibitor taurolithocholic acid (TLCA) and its effects on specialized metabolism, virulence, formation clinically relevant bacterium Pseudomonas aeruginosa strain PA14. Our study shows that TLCA alters thereby affecting P. colony physiology. observed upregulation metabolites correlated to virulence such as siderophore pyochelin. A wax moth assay...
Abstract Background Recent technological advances applied to biology such as yeast-two-hybrid, phage display and mass spectrometry have enabled us create a detailed map of protein interaction networks. These networks represent rich, yet noisy, source data that could be used extract meaningful information, complexes. Several network weighting schemes been proposed so far in the literature order eliminate noise inherent interactome data. In this paper, we propose novel scheme apply it S....
The asymmetric Gram-negative outer membrane (OM) is the first line of defense for bacteria against environmental insults and attack by antimicrobials. key component OM lipopolysaccharide, which transported to surface essential lipopolysaccharide transport (Lpt) system. Correct folding Lpt system LptD regulated a periplasmic metalloprotease, BepA. Here, we present crystal structure BepA from Escherichia coli, solved resolution 2.18 Å, in M48 protease active site occluded an active-site plug....
Abstract The peptidoglycan (PG) sacculus provides bacteria with the mechanical strength to maintain cell shape and resist osmotic stress. Enlargement of mesh-like requires combined activity PG synthases hydrolases. In Escherichia coli , two bifunctional is driven by lipoproteins anchored in outer membrane. However, regulation hydrolases less well understood, only regulators for amidases having been described. Here, we identify lipoprotein NlpI as a general adaptor protein binds different...
Abstract By acquiring or evolving resistance to one antibiotic, bacteria can become cross-resistant a second which further limits therapeutic choices. In the opposite scenario, initial leads collateral sensitivity inform cycling combinatorial treatments. Despite their clinical relevance, our knowledge of both interactions is limited. We used published chemical genetics data Escherichia coli single-gene deletion library in 40 antibiotics and devised metric that discriminates between known...
Abstract Biofilm inhibition by exogenous molecules has been an attractive strategy for the development of novel therapeutics. We investigated biofilm inhibitor taurolithocholic acid (TLCA) and its effects on specialized metabolism, virulence formation clinically relevant bacterium Pseudomonas aeruginosa strain PA14. Our study shows that TLCA alters thereby affecting P. colony physiology. observed upregulation metabolites correlated to such as siderophore pyochelin. A wax moth assay confirmed...
Abstract The asymmetric Gram-negative outer membrane (OM) is the first line of defence for bacteria against environmental insults and attack by antimicrobials. key component OM barrier surface exposed lipopolysaccharide, which transported to essential lipopolysaccharide transport (Lpt) system. Correct folding Lpt system component, LptD, regulated a periplasmic metalloprotease, BepA. Here we present crystal structure BepA, solved resolution 1.9 Å. Our comprises zinc-bound m48 protease domain...
Abstract The asymmetric Gram-negative outer membrane (OM) is the first line of defence for bacteria against environmental insults and attack by antimicrobials. key component OM lipopolysaccharide, which transported to surface essential lipopolysaccharide transport (Lpt) system. Correct folding Lpt system LptD regulated a periplasmic metalloprotease, BepA. Here we present crystal structure BepA from Escherichia coli, solved resolution 2.18 Å, in M48 protease active site occluded an plug....