Research publications

The publications from the research projects and networks supported under the JPIAMR framework involve insights to the diverse aspects of AMR including transmission, therapeutics, diagnostics, interventions, surveillance, environmental reservoirs of microbes and resistance genes as well as technological platforms and policy papers.

The publications where JPIAMR has been acknowledged to support the researchers via grants are listed below.

In case we have missed any publication, please contact us at secretariat.jpiamr@vr.se with the details.

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Microbiology Spectrum, 2022. Intracellular Transposition of Mobile Genetic Elements Associated with the Colistin Resistance Gene mcr-1

Project Acronym STRESST

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Journal of Microbiological Methods, 2023. Development of pBACpAK entrapment vector derivatives to detect intracellular transfer of mobile genetic elements within chloramphenicol resistant bacterial isolates

Project Acronym STRESST

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Annals of Clinical Microbiology and Antimicrobials, 2023. Genetic determinants of macrolide and tetracycline resistance in penicillin non-susceptible Streptococcus pneumoniae isolates from people living with HIV in Dar es Salaam, Tanzania

Project Acronym STRESST

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Frontiers in Veterinary Science, 2023. Mapping the effect of antimicrobial resistance in poultry production in Senegal: an integrated system dynamics and network analysis approach

Project Acronym SEFASI

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication One Health, 2023. How farm practices and antibiotic use drive disease incidence in smallholder livestock farms: Evidence from a survey in Uganda

Project Acronym SEFASI

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Journal of Alloys and Compounds, 2023. A Systematic Study on Modulation of Plasma Electrolytic Oxidation Parameters for Optimizing Photocatalytic Coatings on Titanium Substrates

Project Acronym ARPHILAKE

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Chemical Engineering Journal, 2023. Valorization of soybean plant wastes in preparation of N-doped biochar for catalytic ozonation of organic contaminants: Atrazine degradation performance and mechanistic considerations

Project Acronym ARPHILAKE

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Applied Catalysis B Environmental, 2023. Tailoring surface defects in Plasma Electrolytic Oxidation (PEO) treated 2-D black TiO2: Post-treatment role, and intensification by peroxymonosulfate activation in visible light-driven photocatalysis

Project Acronym ARPHILAKE

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Plant Physiology and Biochemistry,2023. The silver lining of antibiotic resistance: Bacterial-mediated reduction of tetracycline plant stress via antibiotrophy

Project Acronym ARPHILAKE

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Chemical Engineering Journal, 2023. Effect of rGO content on enhanced Photo-Fenton degradation of Venlafaxine using rGO encapsulated magnetic hexagonal FeTiO3 nanosheets

Project Acronym ARPHILAKE

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Molecular Microbiology, 2023. Unlocking the potential of microbiome editing: A review of conjugation‐based delivery

Project Acronym MOB-TARGET

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Frontiers in Environmental Science, 2022. The Influence of Coalescent Microbiotic Particles From Water and Soil on the Evolution and Spread of Antimicrobial Resistance

Project Acronym MISTAR

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication Communications Biology, 2022. Screening of global microbiomes implies ecological boundaries impacting the distribution and dissemination of clinically relevant antimicrobial resistance genes

Project Acronym MISTAR

Call Name 2021 - One Health interventions to prevent or reduce the development and transmission of AMR

Publication One Health & Risk Management, 2022. Phage treatment and wetland technology as intervention strategy to prevent dissemination of antibiotic resistance in surface waters”- a project launch in low-middle in-come countries of Eastern Europé

Project Acronym PhageLand

Call Name 2020 - JPIAMR Network Plus

Publication Frontiers in Public Health, 2023. Users’ perception of the OH-EpiCap evaluation tool based on its application to nine national antimicrobial resistance surveillance systems

Project Acronym CoEval-AMR PHASE 2

Call Name 2020 - JPIAMR Network Plus

Publication Frontiers in Veterinary Science, 2023. Characterisation of antimicrobial usage in Danish pigs in 2020

Project Acronym CoEval-AMR PHASE 2

Call Name 2020 - JPIAMR Network Plus

Publication Scientific Data, 2022. Datasets for benchmarking antimicrobial resistance genes in bacterial metagenomic and whole genome sequencing

Project Acronym Seq4AMR

Call Name 2020 - JPIAMR Network Plus

Publication Antimicrobial Resistance & Infection Control, 2023. Best practice guidance for antibiotic audit and feedback interventions in primary care: a modified Delphi study from the Joint Programming Initiative on Antimicrobial resistance: Primary Care Antibiotic

Project Acronym PAAN

Call Name 2020 - JPIAMR Network Plus

Publication Research Square, 2023. Best Practice Guidance for Antibiotic Audit and Feedback interventions in Primary Care: a modified Delphi study from the Joint Programming Initiative on Antimicrobial Resistance - Primary Care Antibiotic Audit and Feedback Network (

Project Acronym PAAN

Call Name 2020 - JPIAMR Network Plus

Publication JAC-Antimicrobial Resistance, 2023. Regional and national antimicrobial stewardship activities: a survey from the Joint Programming Initiative on Antimicrobial Resistance—Primary Care Antibiotic Audit and Feedback Network (JPIAMR-PAAN)

Project Acronym PAAN

Call Name 2019 - Call on Diagnostics and Surveillance

Publication Nature, 2021. Unravelling the collateral damage of antibiotics on gut bacteria

Project Acronym EMBARK

Call Name 2019 - Call on Diagnostics and Surveillance

Publication Bioinformatics, 2021. CAFE: a software suite for analysis of paired-sample transposon insertion sequencing data.

Project Acronym EMBARK

Call Name 2019 - Call on Diagnostics and Surveillance

Publication FEMS Microbes, 2021. Microbial retention and resistances in stormwater quality improvement devices treating road runoff.

Project Acronym EMBARK

Call Name 2019 - Call on Diagnostics and Surveillance

Publication Water Res, 2021. Antibiotic resistance gene load and irrigation intensity determine the impact of wastewater irrigation on antimicrobial resistance in the soil microbiome.

Project Acronym EMBARK

Call Name 2019 - Call on Diagnostics and Surveillance

Publication J Hazard Mater, 2022. Elevated levels of antibiotic resistance in groundwater during treated wastewater irrigation associated with infiltration and accumulation of antibiotic residues.

Project Acronym EMBARK

Call Name 2019 - Call on Diagnostics and Surveillance

Publication bioRxiv, 2022. ResFinderFG v2.0: a database of antibiotic resistance genes obtained by functional metagenomics

Project Acronym EMBARK

Call Name 2019 - Call on Diagnostics and Surveillance

Publication J Glob Health, 2020. Lessons from COVID-19 on the role of the state and the market in providing early testing.

Project Acronym IDx

Call Name 2019 - Call on Diagnostics and Surveillance

Publication PNAS, 2020. Filling the gaps in the global prevalence map of clinical antimicrobial resistance

Project Acronym MAGIcIAN

Call Name 2019 - Call on Diagnostics and Surveillance

Publication Sci Rep, 2021. In silico designing of vaccine candidate against Clostridium difficile.

Project Acronym MAGIcIAN

Call Name 2019 - Call on Diagnostics and Surveillance

Publication IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2022. An agent-based multi-level model to study the spread of antimicrobial-resistant gonorrhoea

Project Acronym MAGIcIAN

Call Name 2019 - Call on Diagnostics and Surveillance

Publication Frontiers in Applied Mathematics and Statistics, 2023. An agent-based multi-level model to study the spread of gonorrhea in different and interacting risk groups

Project Acronym MAGIcIAN

Call Name 2019 - Call on Diagnostics and Surveillance

Publication Antibiotics, 2023. Antimicrobial Use by Peri-Urban Poultry Smallholders of Kajiado and Machakos Counties in Kenya

Project Acronym MAD-tech-AMR

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Chemical Biology, 2020. A nucleotide-switch mechanism mediates opposing catalytic activities of Rel enzymes

Project Acronym Anti-Persistence

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Front Microbiol, 2020. The C-Terminal RRM/ACT Domain Is Crucial for Fine-Tuning the Activation of ‘Long’ RelA-SpoT Homolog Enzymes by Ribosomal Complexes

Project Acronym Anti-Persistence

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Acta Crystallogr F Struct Biol Commun, 2019. The Rel stringent factor from Thermus thermophilus: crystallization and X-ray analysis

Project Acronym Anti-Persistence

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Research Square, 2022. The structure of SpoT reveals evolutionary tuning of enzymatic output through constraint of the conformational landscape

Project Acronym Anti-Persistence

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Chemical Biology, 2022. Structure of SpoT reveals evolutionary tuning of catalysis via conformational constraint

Project Acronym Anti-Persistence

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Communications, 2023. A polyamine acetyltransferase regulates the motility and biofilm formation of Acinetobacter baumannii

Project Acronym Anti-Persistence

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Research Square, 2023. Coupling between substrate specificity and neutralisation mechanisms in toxic Small Alarmone Synthetases

Project Acronym Anti-Persistence

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Journal of Medicinal Chemistry, 2022. LEGO-Lipophosphonoxins: A Novel Approach in Designing Membrane Targeting Antimicrobials

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature, 2022. Direct activation of a bacterial innate immune system by a viral capsid protein

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Science Advances, 2023. The structure of DarB in complex with RelNTD reveals nonribosomal activation of Rel stringent factors

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Microbiology Spectrum, 2023. Full Profiling of GE81112A, an Underexplored Tetrapeptide Antibiotic with Activity against Gram-Negative Pathogens

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Structural & Molecular Biology, 2023. Structural conservation of antibiotic interaction with ribosomes

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication PNAS, 2020. A widespread toxin−antitoxin system exploiting growth control via alarmone signaling

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Reviews Microbiology, 2020. Target protection as a key antibiotic resistance mechanism

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication International Journal of Molecular Sciences, 2020. Characterization of Cetacean Proline-Rich Antimicrobial Peptides Displaying Activity against ESKAPE Pathogens

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Molecular Cell, 2020. Structural Basis for Bacterial Ribosome-Associated Quality Control by RqcH and RqcP

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Int J Mol Sci, 2020. Characterization of Cetacean Proline-Rich Antimicrobial Peptides Displaying Activity against ESKAPE Pathogens

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication J Med Chem, 2020. Peptide Inhibitors of Bacterial Protein Synthesis with Broad Spectrum and SbmA-Independent Bactericidal Activity against Clinical Pathogens

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication ChemMedChem, 2019. Proline-Rich Peptides with Improved Antimicrobial Activity against E. coli, K. pneumoniae, and A. baumannii

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication ACS Infect Dis, 2019. 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

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication ACS Infect Dis, 2020. Aminoglycosides: Time for the Resurrection of a Neglected Class of Antibacterials?

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Medchemcomm, 2019. Synthesis, ribosomal selectivity, and antibacterial activity of netilmicin 4'-derivatives

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nucleic Acids Res, 2020. Reassembling green fluorescent protein for in vitro evaluation of trans-translation

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Bioorg Med Chem, 2019. Synthesis and evaluation of 1,3,4-oxadiazole derivatives for development as broad-spectrum antibiotics

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication PNAS, 2020. A widespread toxin-antitoxin system exploiting growth control via alarmone signaling

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Talanta, 2019. Analysis of nucleotide pools in bacteria using HPLC-MS in HILIC mode

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Communications, 2021. Structural basis of ABCF-mediated resistance to pleuromutilin, lincosamide, and streptogramin A antibiotics in Gram-positive pathogens

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Molecular Cell, 2021. (p)ppGpp controls stringent factors by exploiting antagonistic allosteric coupling between catalytic domains

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Communications, 2021. Structural and mechanistic basis for translation inhibition by macrolide and ketolide antibiotics

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Molecular Cell, 2021. RelA-SpoT Homolog toxins pyrophosphorylate the CCA end of tRNA to inhibit protein synthesis

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication PNAS, 2022. A hyperpromiscuous antitoxin protein domain for the neutralization of diverse toxin domains

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Communications, 2022. Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics.

Project Acronym RIBOTARGET

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Angewandte Chemie International Edition, 2021. Large Peptide Permeation Through a Membrane Channel: Understanding Protamine Translocation Through CymA from Klebsiella Oxytoca

Project Acronym RESET-ME

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication bioRxiv, 2022. Uptake of aminoglycosides through outer membrane porins in Escherichia coli

Project Acronym RESET-ME

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Biochimie, 2023. TolC-AcrA complex formation monitored by time dependent single-channel electrophysiology

Project Acronym RESET-ME

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Antimicrob Agents Chemother, 2019. Introducing RpsA Point Mutations Δ438A and D123A into the Chromosome of Mycobacterium tuberculosis Confirms Their Role in Causing Resistance to Pyrazinamide

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Sci Rep, 2019. Ample glycosylation in membrane and cell envelope proteins may explain the phenotypic diversity and virulence in the Mycobacterium tuberculosis complex

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Scientific Reports, 2021. Mycobacterium tuberculosis Rv3160c is a TetR-like transcriptional repressor that regulates expression of the putative oxygenase Rv3161c

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Organic & Biomolecular Chemistry, 2021. K2S2O8-mediated coupling of 6-amino-7-aminomethyl-thiazolino-pyridones with aldehydes to construct amyloid affecting pyrimidine-fused thiazolino-2-pyridones

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication The Journal of Organic Chemistry, 2021. Tandem Ring Opening/Intramolecular [2 + 2] Cycloaddition Reaction for the Synthesis of Cyclobutane Fused Thiazolino-2-Pyridones

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Microbiology Resource Announcements, 2022. Complete Genome Sequence of the Uropathogenic Methicillin-Resistant Staphylococcus aureus Strain MRSA-1369

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Pharmaceuticals, 2022. Isoniazid Linked to Sulfonate Esters via Hydrazone Functionality: Design, Synthesis, and Evaluation of Antitubercular Activity

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Journal of Medicinal Chemistry, 2023. Design, Synthesis, and Evaluation of Novel Δ2‑Thiazolino 2‑Pyridone Derivatives That Potentiate Isoniazid Activity in an Isoniazid-Resistant Mycobacterium tuberculosis Mutant

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication ACS Medicinal Chemistry Letters, 2023. Repurposing Azoles to Resolve Serotogenic Toxicity Associated with Linezolid to Combat Multidrug-Resistant Tuberculosis

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Front. Microbiol, 2020. Lineage-Specific Proteomic Signatures in the Mycobacterium tuberculosis Complex Reveal Differential Abundance of Proteins Involved in Virulence, DNA Repair, CRISPR-Cas, Bioenergetics and Lipid Metabolism

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication PLoS One, 2020. Characteristics of pulmonary multidrug-resistant tuberculosis patients in Tigray Region, Ethiopia: A cross-sectional study

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication FEMS Microbiol Rev, 2020. Antibiotic resistance: turning evolutionary principles into clinical reality

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Tuberculosis (Edinb), 2019. Molecular epidemiology of M. tuberculosis in Ethiopia: A systematic review and meta-analysis

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication PLOS Pathogens, 2023. Tirap controls Mycobacterium tuberculosis phagosomal acidification

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication mBio, 2023. A Highly Substituted Ring-Fused 2-Pyridone Compound Targeting PrfA and the Efflux Regulator BrtA in Listeria monocytogenes

Project Acronym MTI4MDR-TB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication International Journal of Molecular Sciences, 2020. Flavodoxins as Novel Therapeutic Targets against Helicobacter pylori and Other Gastric Pathogens

Project Acronym FLAV4AMR

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication ChemMedChem, 2021. Fragment‐based drug discovery for RNA targets

Project Acronym Explore

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication bioRxiv, 2022. Competence remodels the pneumococcal cell wall providing resistance to fratricide and surface exposing key virulence factors

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication PeerJ, 2022. 2FAST2Q: a general-purpose sequence search and counting program for FASTQ files

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Cell Reports, 2022. Pneumolysin promotes host cell necroptosis and bacterial competence during pneumococcal meningitis as shown by whole-animal dual RNA-seq

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication bioRxiv - December 2022. High-throughput profiling of drug interactions in Gram-positive bacteria

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Current Opinion in Microbiology, 2023. Gaps in the wall: understanding cell wall biology to tackle amoxicillin resistance in Streptococcus pneumoniae

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Structural & Molecular Biology, 2020. Structure of a proton-dependent lipid transporter involved in lipoteichoic acids biosynthesis

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication MicrobiologyOpen, 2020. Penicillin‐binding protein PBP2a provides variable levels of protection toward different b‐lactams in Staphylococcus aureus RN4220

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication eLife, 2020. Unbiased homeologous recombination during pneumococcal transformation allows for multiple chromosomal integration events

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Cell Host & Microbe, 2020. Exploration of Bacterial Bottlenecks and Streptococcus pneumoniae Pathogenesis by CRISPRi-Seq

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication PNAS, 2020. Synthetic gene-regulatory networks in the opportunistic human pathogen Streptococcus pneumoniae

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication MicrobiologyOpen, 2020. Penicillin‐binding protein PBP2a provides variable levels of protection toward different b‐lactams in Staphylococcus aureus RN4220

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication mBio, 2020. A CozE Homolog Contributes to Cell Size Homeostasis of Streptococcus pneumoniae

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Microbiology, 2021. CcrZ is a pneumococcal spatiotemporal cell cycle regulator that interacts with FtsZ and controls DNA replication by modulating the activity of DnaA

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Microbiology Spectrum, 2021. Ubericin K, a New Pore-Forming Bacteriocin Targeting mannose-PTS.

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Biophysical Journal, 2021. Switching off: the phenotypic transition to the uninduced state of the lactose uptake pathway

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Protocols, 2022. CRISPRi-seq for genome-wide fitness quantification in bacteria

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Appl Environ Microbiol, 2020. Harnessing CRISPR-Cas9 for genome editing in Streptococcus pneumoniae D39V

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Science Advances, 2022. Mechanistic basis of choline import involved in teichoic acids and lipopolysaccharide modification

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Nature Protocols, 2023. Design and construction of a microfluidics workstation for high-throughput multi-wavelength fluorescence and transmittance activated droplet analysis and sorting

Project Acronym DISRUPT

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Microbiology Spectrum, 2023. Phages against Noncapsulated Klebsiella pneumoniae: Broader Host range, Slower Resistance

Project Acronym CRISPRattacK

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Scientific Reports, 2020. A continuous evolution system for contracting the host range of bacteriophage T7

Project Acronym CRISPRattacK

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Frontiers in Microbiology, 2020. Local Bacteriophage Delivery for Treatment and Prevention of Bacterial Infections

Project Acronym ANTIBIO-LAB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Front. Microbiol, 2020. Antibacterial Efficacy of Two Commercially Available Bacteriophage Formulations, Staphylococcal Bacteriophage and PYO Bacteriophage, Against Methicillin-Resistant Staphylococcus aureus: Prevention and Eradication of Biofilm Formati

Project Acronym ANTIBIO-LAB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Eur Cell Mater, 2020. Bacteriophage therapy as a treatment strategy for orthopaedic-device-related infections: where do we stand?

Project Acronym ANTIBIO-LAB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Viruses, 2022. Novel Bacteriophage Specific against Staphylococcus epidermidis and with Antibiofilm Activity

Project Acronym ANTIBIO-LAB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Pharmaceutics, 2022. Novel Stenotrophomonas maltophilia Bacteriophage as Potential Therapeutic Agent

Project Acronym ANTIBIO-LAB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Journal of Drug Delivery Science and Technology, 2022. Alginate chitosan microbeads and thermos-responsive hyaluronic acid hydrogel for phage delivery

Project Acronym ANTIBIO-LAB

Call Name 2018 - Innovations against antibiotic-resistant bacteria: New targets, compounds and tools

Publication Journal of Controlled Release, 2023. Alginate microbeads and hydrogels delivering meropenem and bacteriophages to treat Pseudomonas aeruginosa fracture-related infections

Project Acronym ANTIBIO-LAB

Call Name 2018 - JPIAMR-VRI Network Call

Publication Drug Discovery Today, 2021. Improving the ability of antimicrobial susceptibility tests to predict clinical outcome accurately: adding metabolic evasion to the equation.

Project Acronym VeRI BEAM

Call Name 2018 - JPIAMR-VRI Network Call

Publication Microorganisms, 2020. When Combined with Colistin, an Otherwise Ineffective Rifampicin–Linezolid Combination Becomes Active in Escherichia coli, Pseudomonas aeruginosa, and Acinetobacter baumannii

Project Acronym TT

Call Name 2018 - JPIAMR-VRI Network Call

Publication Expert Opinion on Drug Delivery, 2020. Antibiotic uptake through porins located in the outer membrane of Gram-negative bacteria

Project Acronym TT

Call Name 2018 - JPIAMR-VRI Network Call

Publication Expert Opinion on Drug Discovery, 2021. Future prospects for Antimicrobial peptide development: peptidomimetics and antimicrobial combinations.

Project Acronym TT

Call Name 2018 - JPIAMR-VRI Network Call

Publication BMJ Global Health, 2020. Setting the standard: multidisciplinary hallmarks for structural, equitable and tracked antibiotic policy

Project Acronym NEAR-AMR

Call Name 2018 - JPIAMR-VRI Network Call

Publication The Lancet Microbe, 2021. NIMble innovation—a networked model for public antibiotic trials.

Project Acronym NEAR-AMR

Call Name 2018 - JPIAMR-VRI Network Call

Publication Nature Reviews Chemistry, 2021. Towards the sustainable discovery and development of new antibiotics

Project Acronym IRAADD

Call Name 2018 - JPIAMR-VRI Network Call

Publication Antimicrobial Resistance & Infection Control, 2020. A one health framework to estimate the cost of antimicrobial resistance

Project Acronym GAP-ON€

Call Name 2018 - JPIAMR-VRI Network Call

Publication Human Genetics, 2020. Delineation of phenotypes and genotypes related to cohesin structural protein RAD21

Project Acronym CONNECT

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Intensive Care Medicine, 2019. The association of cardiovascular failure with treatment for ventilator-associated lower respiratory tract infection

Project Acronym ICALM

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Intensive Care Medicine, 2020. Antibiotic prophylaxis in the ICU: to be or not to be administered for patients undergoing procedures?

Project Acronym ICALM

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Crit Care, 2020. The importance of airway and lung microbiome in the critically ill

Project Acronym ICALM

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Current Opinion in Microbiology, 2021. The potential of using E. coli as an indicator for the surveillance of antimicrobial resistance (AMR) in the environment

Project Acronym WAWES

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Book Chapter Antibiotics and Antimicrobial Resistance Genes (Springer International Publishing)’ eBook ISBN 978-3-030-40422-2, Hardcover ISBN 978-3-030-40421-5, 2020. Chapter 1 –* ‘Entry routes of antibiotics and antimicrobial resistance in the environmen

Project Acronym WAWES

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Antimicrobial Agents and Chemotherapy, 2019. Wildlife Is Overlooked in the Epidemiology of Medically Important Antibiotic-Resistant Bacteria

Project Acronym WAWES

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Clinical Microbiology and Infection, 2020. Evaluating integrated surveillance of antimicrobial resistance: experiences from use of three evaluation tools

Project Acronym CoEval-AMR

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Frontiers in Veterinary Science, 2021. Evaluating the Integration of One Health in Surveillance Systems for Antimicrobial Use and Resistance: A Conceptual Framework

Project Acronym CoEval-AMR

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Frontiers in Veterinary Science, 2021. Assessment of Evaluation Tools for Integrated Surveillance of Antimicrobial Use and Resistance Based on Selected Case Studies

Project Acronym CoEval-AMR

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Clinical Microbiology and Infection, 2021. Getting it right: automated surveillance of healthcare-associated infections

Project Acronym PRAISE

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Clinical Microbiology and Infection, 2021. PRAISE: providing a roadmap for automated infection surveillance in Europé

Project Acronym PRAISE

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Clinical Microbiology and Infection, 2021.Governance aspects of large-scale implementation of automated surveillance of healthcare-associated infections

Project Acronym PRAISE

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Clinical Microbiology and Infection, 2021. Information technology aspects of large-scale implementation of automated surveillance of healthcare-associated infections

Project Acronym PRAISE

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Journal of Hospital Infection, 2022. Automated surveillance systems for healthcare-associated infections: results from a European survey and experiences from real-life utilization

Project Acronym PRAISE

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication International Journal of Medical Microbiology, 2020. Virulence and resistance properties of E. coli isolated from urine samples of hospitalized patients in Rio de Janeiro, Brazil – The role of mobile genetic elements

Project Acronym SOLIDNESS

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Journal of Antimicrobial Chemotherapy, 2020. Bridging the gap between human and animal surveillance data, antibiotic policy and stewardship in the hospital sector

Project Acronym ARCH Net

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Journal of Antimicrobial Chemotherapy, 2020. White Paper: Bridging the gap between surveillance data and antimicrobial stewardship in long-term care facilities

Project Acronym ARCH Net

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Journal of Antimicrobial Chemotherapy, 2020. White Paper: Bridging the gap between surveillance data and antimicrobial stewardship in the outpatient sector

Project Acronym ARCH Net

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication Journal of Antimicrobial Chemotherapy, 2020. White Paper: Bridging the gap between surveillance data and antimicrobial stewardship in the animal sector

Project Acronym ARCH Net

Call Name 2018 - JPIAMR Network Call on Surveillance

Publication The Lancet Regional Health - Europe, 2022. EPI-Net One Health reporting guideline for antimicrobial consumption and resistance surveillance data: a Delphi approach

Project Acronym ARCH Net

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Antibiotics, 2022. Predicting In-Hospital Antibiotic Use in the Medical Department: Derivation and Validation Study

Project Acronym PILGRIM

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Frontiers in Microbiology, 2021. Exploring the Antibiotic Resistance Burden in Livestock, Livestock Handlers and Their Non-Livestock Handling Contacts: A One Health Perspective

Project Acronym REDUCE AMU

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Front. Vet. Sci., 2021. Geographic Drivers of Antimicrobial Use and Resistance in Pigs in Khon Kaen Province, Thailand

Project Acronym REDUCE AMU

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication BMC Microbiology, 2022. Genome-associations of extended-spectrum ß-lactamase producing (ESBL) or AmpC producing E. coli in small and medium pig farms from Khon Kaen province, Thailand

Project Acronym REDUCE AMU

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication PLoS ONE, 2020. Antibiotic use in pig farms at different levels of intensification - Farmers’ practices in northeastern Thailand

Project Acronym REDUCE AMU

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication BMJ Open, 2022. Methenamine hippurate to prevent recurrent urinary tract infections in older women: protocol for a randomised, placebo-controlled trial (ImpresU)

Project Acronym ImpresU

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication JAMDA, 2020. Antibiotic Stewardship in European Nursing Homes: Experiences From the Netherlands, Norway, Poland, and Sweden

Project Acronym ImpresU

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Canadian Journal of Microbiology, 2023. Potential selection and maintenance of manure-originated multi-drug resistant plasmids at sub-clinical concentrations for tetracycline family antibiotics

Project Acronym ARMIS

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication PLOS ONE, 2023. Characterization of Proteus mirabilis and associated plasmids isolated from anaerobic dairy cattle manure digesters

Project Acronym ARMIS

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Biointerface Research in Applied Chemistry, 2019. Prevalence of vancomycin resistance phenotypes among Enterococcus species isolated from

Project Acronym ARMIS

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication BMC Veterinary Research, 2021. Antibiotic resistance profiles in cultivable microbiota isolated from some romanian natural fishery lakes included in Natura 2000 network

Project Acronym ARMIS

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication BMJ Open 2020.Study protocol for an international, multicentre stepped-wedge cluster randomised trial to evaluate the impact of a digital antimicrobial stewardship smartphone application

Project Acronym AB-assistant

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Frontiers in Public Health, 2022. Governing Antimicrobial Resistance (AMR) in a Changing Climate: A Participatory Scenario Planning Approach Applied to Sweden in 2050

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Frontiers in Microbiology, 2023. Factors impacting antimicrobial resistance in the South East Asian food system and potential places to intervene: A participatory, one health study

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Research Square, 2023. Mapping out a One Health model of antimicrobial resistance in the context of the Swedish food system: A literature scan

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication The Lancet Planetary Health, 2023. Scope and applicability of social–ecological resilience to antimicrobial resistance

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication PLOS ONE, 2023. Is scientific evidence enough? Using expert opinion to fill gaps in data in antimicrobial resistance research

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Frontiers in Public Health, 2023. Exploring the factors that contribute to the successful implementation of antimicrobial resistance interventions: a comparison of high-income and low-middle-income countries

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication BMC Infectious Diseases, 2021. Characterizing social-ecological context and success factors of antimicrobial resistance interventions across the One Health spectrum: analysis of 42 interventions targeting E. coli

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication The Lancet Infectious Diseases, 2020. Evidence for action: a One Health learning platform on interventions to tackle antimicrobial resistance

Project Acronym AMResilience

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Biomolecules, 2022. A Comprehensive Study of the Microbiome, Resistome, and Physical and Chemical Characteristics of Chicken Waste from Intensive Farms

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication The Science of The Total Environment, 2022. Comparison of soil and grass microbiomes and resistomes reveals grass as a greater antimicrobial resistance reservoir than soil

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Scientific Reports, 2023. Pig manure treatment strategies for mitigating the spread of antibiotic resistance

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication ACCESS MICROBIOLOGY, 2019. Occurrence of extended-spectrum b-lactamase (ESBL)/AmpC producing bacteria in wastewater treatment plant effluent

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Antibiotics and Antimicrobial Resistance Genes, 2020. Treatment Technologies for Removal of Antibiotics, Antibiotic Resistance Bacteria and Antibiotic-Resistant Genes

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Frontiers in Microbiology, 2021. Antibiotics and Antibiotic Resistance Genes in Animal Manure – Consequences of Its Application in Agriculture

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Journal of Environmental Management, 2022. Fate of Clostridia and other spore-forming Firmicute bacteria during feedstock anaerobic digestion and aerobic composting

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Environmental Pollution, 2022. Metagenomic and HT-qPCR analysis reveal the microbiome and resistome in pig slurry under storage, composting, and anaerobic digestion

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication bioRxiv, 2022. Pig manure treatment strategies for mitigating the spread of antibiotic resistance.

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Applied and Environmental Microbiology, 2023. Modeling Antibiotic Concentrations in the Vicinity of Antibiotic-Producing Bacteria at the Micron Scale

Project Acronym INART

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication J Antibiotics, 2020. Industry incentives and antibiotic resistance: an introduction to the antibiotic susceptibility bonus

Project Acronym ASB

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Frontiers in Medicine, 2021. Surveillance of Resistance to New Antibiotics in an Era of Limited Treatment Options.

Project Acronym ASB

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication Irish Veterinary Journal, 2021. Livestock-associated methicillin-resistant Staphylococcus aureus (LA-MRSA) prevalence in humans in close contact with animals and measures to reduce on-farm colonisation

Project Acronym ExcludeMRSA

Call Name 2017 - Prevention and Intervention Strategies to control AMR infections

Publication mSystems, 2021. Differential Analysis of Longitudinal Methicillin-Resistant Staphylococcus aureus Colonization in Relation to Microbial Shifts in the Nasal Microbiome of Neonatal Piglets

Project Acronym ExcludeMRSA

Call Name 2016 - Transmission Dynamics

Publication Antimicrobial Resistance & Infection Control, 2018. Intestinal colonization due to Escherichia coli ST131: risk factors and prevalence

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication The Journal of Hospital Infection, 2019. Vagino-rectal colonization and maternal–neonatal transmission of Enterobacteriaceae producing extended-spectrum b-lactamases or carbapenemases: a cross-sectional study

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication International Journal of Antimicrobial Agents, 2018. Incidence and Risk Factors for Acquisition of Extended-Spectrum b-Lactamase-Producing Enterobacteriaceae in Newborns in Seville, Spain: A Prospective Cohort Study

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication Antimicrobial Resistance & Infection Control, 2018. Intestinal colonization due to Escherichia coli ST131: risk factors and prevalence

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication Nature Microbiology, 2021. Pervasive transmission of a carbapenem resistance plasmid in the gut microbiota of hospitalized patients

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication Clinical Microbiology and Infection, 2021. Household acquisition and transmission of extended-spectrum b-lactamase (ESBL) -producing Enterobacteriaceae after hospital discharge of ESBL-positive index patients

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication Clinical Microbiology and Infection, 2021. Populations of extended-spectrum b-lactamase-producing Escherichia coli and Klebsiella pneumoniae are different in human-polluted environment and food items: a multicentre European study

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication European Journal of Clinical Microbiology & Infectious Diseases, 2021. Higher prevalence of CTX-M-27-producing Escherichia coli belonging to ST131 clade C1 among residents of two long-term care facilities in Southern Spain.

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication European Journal of Clinical Microbiology & Infectious Diseases, 2021. Interplay between IncF plasmids and topoisomerase mutations conferring quinolone resistance in the Escherichia coli ST131 clone: stability and resistance evolution

Project Acronym MODERN

Call Name 2016 - Transmission Dynamics

Publication Sensors and Actuators B: Chemical, 2018. Bacteriophages as biorecognition elements in capacitive biosensors: Phage and host bacteria detection

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Front. Microbiol, 2017. Revisiting Antibiotic Resistance Spreading in Wastewater Treatment Plants – Bacteriophages as a Much Neglected Potential Transmission Vehicle

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Journal of Bacteriology, 2020. Studies on Bd0934 and Bd3507, Two Secreted Nucleases from Bdellovibrio bacteriovorus, Reveal Sequential Release of Nucleases during the Predatory Cycle

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Journal of Oral Microbiology, 2021. Entamoeba gingivalis: epidemiology, genetic diversity and association with oral microbiota signatures in North Eastern Tanzania

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Environmental Microbiology, 2022. Biogeographical variation in antimicrobial resistance in rivers is influenced by agriculture and is spread through bacteriophages

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Frontiers in Microbiology, 2022. Enrichment of antibiotic resistance genes within bacteriophage populations in saliva samples from individuals undergoing oral antibiotic treatments

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Journal of Visualized Experiments : JoVE, 2018. Ultrasensitive Detection of Biomarkers by Using a Molecular Imprinting Based Capacitive Biosensor

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Frontiers in Microbiology, 2020. Biotechnological Potential of Bdellovibrio and Like Organisms and Their Secreted Enzymes

Project Acronym Gene-gas

Call Name 2016 - Transmission Dynamics

Publication Nature Communications, 2020. Discovery of multiple anti-CRISPRs highlights anti-defense gene clustering in mobile genetic elements

Project Acronym DARWIN

Call Name 2016 - Transmission Dynamics

Publication Sci Total Environ, 2020. Comparison of antibiotic-resistant bacteria and antibiotic resistance genes abundance in hospital and community wastewater: A systematic review

Project Acronym DARWIN

Call Name 2016 - Transmission Dynamics

Publication Environ. Sci. Technol. Lett, 2018. Estimating the Transfer Range of Plasmids Encoding Antimicrobial Resistance in a Wastewater Treatment Plant Microbial Community

Project Acronym DARWIN

Call Name 2016 - Transmission Dynamics

Publication FEMS Microbiol Ecol, 2018. Water and sanitation: an essential battlefront in the war on antimicrobial resistance

Project Acronym DARWIN

Call Name 2016 - Transmission Dynamics

Publication Plasmid, 2018. Monitoring plasmid-mediated horizontal gene transfer in microbiomes: recent advances and future perspectives

Project Acronym DARWIN

Call Name 2016 - Transmission Dynamics

Publication Environ. Sci. Technol. 2021. Extended-Spectrum b-Lactamase and Carbapenemase Genes are Substantially and Sequentially Reduced during Conveyance and Treatment of Urban Sewage

Project Acronym DARWIN

Call Name 2016 - Transmission Dynamics

Publication Water Res, 2019. Spatial ecology of a wastewater network defines the antibiotic resistance genes in downstream receiving waters

Project Acronym DARWIN

Call Name 2016 - Transmission Dynamics

Publication Environment International, 2018. Selective concentration for ciprofloxacin resistance in Escherichia coli grown in complex aquatic bacterial biofilms

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication Journal of Environmental Protection, 2017. Physico-Chemical and Microbiological Assessment of Organic Pollution in Plain Salty Lakes from Protected Regions

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication PlosOne, 2020. Whole genome sequencing snapshot of multi-drug resistant Klebsiella pneumoniae strains from hospitals and receiving wastewater treatment plants in Southern Romania

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication MEDICHUB MEDIA, 2018. Review on methods for analyzing the antibiotic resistance in wastewater samples

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2021. Multidrug Resistant Klebsiella pneumoniae ST101 Clone Survival Chain From Inpatients to Hospital Effluent After Chlorine Treatment

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication Syst Rev. 2019. Do wastewater treatment plants increase antibiotic resistant bacteria or genes in the environment? Protocol for a systematic review.

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication Antibiotics (Basel). 2021. Antibiotic Resistance in Wastewater Treatment Plants and Transmission Risks for Employees and Residents: The Concept of the AWARE Study.

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication Microb Genom, 2020. Comprehensive screening of genomic and metagenomic data reveals a large diversity of tetracycline resistance genes

Project Acronym AWARE-WWTP

Call Name 2016 - Transmission Dynamics

Publication Microorganisms, 2021. Successful Dissemination of Plasmid-Mediated Extended-Spectrum b-Lactamases in Enterobacterales over Humans to Wild Fauna

Project Acronym TransComp-ESC-R

Call Name 2016 - Transmission Dynamics

Publication mBio, 2021. Host Colonization as a Major Evolutionary Force Favoring the Diversity and the Emergence of the Worldwide Multidrug-Resistant Escherichia coli ST131

Project Acronym TransComp-ESC-R

Call Name 2016 - Transmission Dynamics

Publication Vet Microbiol, 2019. Diversity of CTX-M-positive Escherichia coli recovered from animals in Canada.

Project Acronym TransComp-ESC-R

Call Name 2016 - Transmission Dynamics

Publication Microbiology Research, 2021. Multidrug Resistance Dissemination in Escherichia coli Isolated from Wild Animals: Bacterial Clones and Plasmid Complicity

Project Acronym TransComp-ESC-R

Call Name 2016 - Transmission Dynamics

Publication One Health, 2021. Drivers of ESBL-producing Escherichia coli dynamics in calf fattening farms: A modelling study

Project Acronym TransComp-ESC-R

Call Name 2016 - Transmission Dynamics

Publication Nat Commun, 2022.Dynamics of extended-spectrum cephalosporin resistance genes in Escherichia coli from Europe and North America.

Project Acronym TransComp-ESC-R

Call Name 2016 - Transmission Dynamics

Publication Microbiome, 2023. Genes mcr improve the intestinal fitness of pathogenic E. coli and balance their lifestyle to commensalism

Project Acronym TransComp-ESC-R

Call Name 2016 - Transmission Dynamics

Publication Environment International, 2018. Wild corvid birds colonized with vancomycin-resistant Enterococcus faecium of human origin harbor epidemic vanA plasmids

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Microbiome, 2018. In-depth resistome analysis by targeted metagenomics

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication The Lancet Microbe, 2022. The interplay between community and hospital Enterococcus faecium clones within health-care settings: a genomic analysis

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Clinical Microbiology Reviews, 2021. Evolutionary Pathways and Trajectories in Antibiotic Resistance

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Clinical Microbiology and Infection, 2021. Prospective One Health genetic surveillance in Vietnam identifies distinct bla CTX-M-harbouring Escherichia coli in food-chain and human-derived samples

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Nature Communications, 2023. Evolutionary and functional history of the Escherichia coli K1 capsule

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Microbiology Spectrum, 2023. The population-level impact of Enterococcus faecalis genetics on intestinal colonization and extraintestinal infection

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Science of The Total Environment, 2018. Water supply and feed as sources of antimicrobial-resistant Enterococcus spp. in aquacultures of rainbow trout (Oncorhyncus mykiss), Portugal

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication bioRxiv, 2019. Genomes of a major nosocomial pathogen Enterococcus faecium are shaped by adaptive evolution of the chromosome and plasmidome

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Microbial Genomics, 2018. mlplasmids: a user-friendly tool to predict plasmid- and chromosome-derived sequences for single species

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Environmental Microbiology Reports, 2018. Long‐term carriage and rapid transmission of extended spectrum beta‐lactamase‐producing E. coli within a flock of Mallards in the absence of antibiotic selection

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Frontiers in Microbiology, 2017. Transfer and Persistence of a Multi-Drug Resistance Plasmid in situ of the Infant Gut Microbiota in the Absence of Antibiotic Treatment

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Annals of the New York Academy of Sciences, 2016. Genomic and metagenomic technologies to explore the antibiotic resistance mobilome

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Bioinformatics, 2017. AcCNET (Accessory Genome Constellation Network): comparative genomics software for accessory genome analysis using bipartite networks

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Nature Microbiology, 2018. Prediction of the intestinal resistome by a three-dimensional structure-based method

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication F1000Research, 2018. The challenges of designing a benchmark strategy for bioinformatics pipelines in the identification of antimicrobial resistance determinants using next generation sequencing technologies

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Foodborne Pathogens and Disease, 2018. Are Food Animals Responsible for Transfer of Antimicrobial-Resistant Escherichia coli or Their Resistance Determinants to Human Populations? A Systematic Review

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Environmental Microbiology, 2019. Phylogenomics of Enterococcus faecalis from wild birds: new insights into host‐associated differences in core and accessory genomes of the species

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Royal Society of Open Science, 2017. Modelling the impact of curtailing antibiotic usage in food animals on antibiotic resistance in humans

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Bioinformatics, 2020. gplas: a comprehensive tool for plasmid analysis using short-read graphs

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Front. Microbiol, 2020. Antibiotic Resistance: Moving From Individual Health Norms to Social Norms in One Health and Global Health

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Genome Medicine, 2021. Mode and dynamics of vanA-type vancomycin resistance dissemination in Dutch hospitals

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Genome Medicine, 2021. The global dissemination of hospital clones of Enterococcus faecium

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Microb Genom, 2020. Genomic rearrangements uncovered by genome-wide co-evolution analysis of a major nosocomial pathogen, Enterococcus faecium

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Nat Commun, 2021. Apparent nosocomial adaptation of Enterococcus faecalis predates the modern hospital era

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication J Antimicrob Chemother. 2021. Comparative genomics of ESBL-producing Escherichia coli (ESBL-Ec) reveals a similar distribution of the 10 most prevalent ESBL-Ec clones and ESBL genes among human community faecal and extra-intestinal infection isolates in t

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2021. The Origin of Niches and Species in the Bacterial World

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2019. Gene Transmission in the One Health Microbiosphere and the Channels of Antimicrobial Resistance

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Nat Microbiol, 2019. Defining and combating antibiotic resistance from One Health and Global Health perspectives

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Methods Mol Biol, 2020. Statistical Analysis of Accessory Genome

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother. 2021. Selection of Resistant Bacteria in Mallards Exposed to Subinhibitory Concentrations of Ciprofloxacin in Their Water Environment

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Microbiol Resour Announc, 2021. Closed and High-Quality Bacterial Genome Sequences of the Oligo-Mouse-Microbiota Community

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication elife, 2021. MetaHiC phage-bacteria infection network reveals active cycling phages of the healthy human gut

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Nat Commun, 2020. Chromosome organization by a conserved condensin-ParB system in the actinobacterium Corynebacterium glutamicum

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Front Genet, 2019. A Computational Pipeline to Recover High-Quality Metagenomic Bins From Mammalian Gut Proximity-Ligation (meta3C) Libraries

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication J Glob Health, 2019. A cross-sectional survey of practices and knowledge among antibiotic retailers in Nairobi, Kenya

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Int J Antimicrob Agents. 2019. Epidemiology of antimicrobial-resistant Escherichia coli carriage in sympatric humans and livestock in a rapidly urbanizing city

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Clin Microbiol Infect, 2020. Quantifying the transmission of antimicrobial resistance at the human and livestock interface with genomics

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication J Microbiol Methods. 2019. Potential in vivo transfer of a blaCTX-M14-harbouring plasmid established by combining long- and short-read sequencing

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication GigaScience, 2021. A high-throughput multiplexing and selection strategy to complete bacterial genomes

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication mBio, 2020. Plasmids Shaped the Recent Emergence of the Major Nosocomial Pathogen Enterococcus faecium

Project Acronym STARCS

Call Name 2016 - Transmission Dynamics

Publication Diagn Microbiol Infect Dis, 2018. The population structure of clinical extra-intestinal Escherichia coli in a teaching hospital from Nigeria

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother. 2021. Antioxidant Molecules as a Source of Mitigation of Antibiotic Resistance Gene Dissemination

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Resist Infect Control, 2018. Intestinal colonization due to Escherichia coli ST131: risk factors and prevalence

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication J Antimicrob Chemother. 2021. Effect of RecA inactivation on quinolone susceptibility and the evolution of resistance in clinical isolates of Escherichia coli

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother. 2021. Antioxidant Molecules as a Source of Mitigation of Antibiotic Resistance Gene Dissemination

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother, 2020. Simulating the Influence of Conjugative-Plasmid Kinetic Values on the Multilevel Dynamics of Antimicrobial Resistance in a Membrane Computing Model

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Nat Microbiol, 2019. Prediction of the intestinal resistome by a three-dimensional structure-based method

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication J Antimicrob Chemother. 2021. Detection in livestock of the human pandemic Escherichia coli ST131 fimH30(R) clone carrying blaCTX-M-27

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2021. The Origin of Niches and Species in the Bacterial World

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Nat Microbiol, 2019. Defining and combating antibiotic resistance from One Health and Global Health perspectives

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2019. Gene Transmission in the One Health Microbiosphere and the Channels of Antimicrobial Resistance

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Methods Mol Biol, 2020. Statistical Analysis of Accessory Genome

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication European Journal of Clinical Microbiology & Infectious Diseases, 2021. Population-based epidemiology of Escherichia coli ST1193 causing blood stream infections in a centralized Canadian region

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Philosophical Transactions of the Royal Society B Biological Sciences, 2021. Translational demand is not a major source of plasmid-associated fitness costs

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Antimicrobial Agents and Chemotherapy, 2022. Escherichia coli ST1193: Following in the Footsteps of E. coli ST131

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication bioRxiv, 2022. Molecular characteristics of phages located in Carbapenemase-Producing Escherichia coli clinical isolates: New Phage-Like Plasmids

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Eurosurveillance, 2019. Emergence of diversity in carbapenemase-producing Escherichia coli ST131, England, January 2014 to June 2016

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Infection, Genetics and Evolution, 2020. The evolutionary puzzle of Escherichia coli ST131

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication mBio, 2020. Simulating multi-level dynamics of antimicrobial resistance in a membrane computing model

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Clinical Microbiol and Infection, 2020. Molecular epidemiology of Escherichia coli causing bloodstream infections in a centralized Canadian region: a population-based surveillance study

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother, 2020. Emerging Antimicrobial Resistant High-Risk clones among Klebsiella pneumoniae: ST307 and ST147

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2020. Pathogenic Escherichia coli in Dogs Reveals the Predominance of ST372 and the Human-Associated ST73 Extra-Intestinal Lineages

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication J Antimicrob Chemother, 2019. Emergence of the C1-M27 cluster in ST131 Escherichia coli from companion animals in France

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Appl Environ Microbiol, 2020. A Comprehensive Account of Escherichia coli Sequence Type 131 in Wastewater Reveals an Abundance of Fluoroquinolone-Resistant Clade A Strains

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication medRxiv, 2021. Bacterial genotypic and patient risk factors for adverse outcomes in Escherichia coli bloodstream infections: a prospective molecular-epidemiological study

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2019. Association Between Kinetics of Early Biofilm Formation and Clonal Lineage in Escherichia coli.

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication J Antimicrob Chemother. 2021. Spatial distribution of Escherichia coli ST131 C subclades in a centralized Canadian urban region.

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Emerg Infect Dis. 2020. Trends in Population Dynamics of Escherichia coli Sequence Type 131, Calgary, Alberta, Canada, 2006-2016

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Infect Genet Evol, 2020. The evolutionary puzzle of Escherichia coli ST131

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Clin Microbiol Rev, 2019. Global Extraintestinal Pathogenic Escherichia coli (ExPEC) Lineages

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Microbiology Spectrum, 2023. Molecular Epidemiology of Global Carbapenemase-Producing Citrobacter spp. (2015–2017)

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Infectious Diseases and Therapy, 2023. The Significance of Epidemic Plasmids in the Success of Multidrug-Resistant Drug Pandemic Extraintestinal Pathogenic Escherichia coli

Project Acronym ST 131_transmission

Call Name 2016 - Transmission Dynamics

Publication Microb Genom, 2021. Bacterial Genomic Epidemiology with Mixed Samples

Project Acronym SpARK

Call Name 2016 - Transmission Dynamics

Publication Frontiers in Microbiology, 2019. Description of Klebsiella spallanzanii sp. nov. and of Klebsiella pasteurii sp. nov

Project Acronym SpARK

Call Name 2016 - Transmission Dynamics

Publication G3 (Bethesda), 2021. Genome of Superficieibacter maynardsmithii, a novel, antibiotic susceptible representative of Enterobacteriaceae.

Project Acronym SpARK

Call Name 2016 - Transmission Dynamics

Publication Wellcome Open Res, 2021. High-resolution sweep metagenomics using ultrafast read mapping and inference

Project Acronym SpARK

Call Name 2016 - Transmission Dynamics

Publication Heredity, 2018. The fitness landscape of the codon space across environments

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Evolution, 2019. How phenotypic convergence arises in experimental evolution

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Evolution, 2019. Environment changes epistasis to alter trade‐offs along alternative evolutionary paths

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Nature Ecology & Evolution, 2020. Dysbiosis personalizes fitness effect of antibiotic resistance in the mammalian gut

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication PLOS Biology, 2020. Low mutational load and high mutation rate variation in gut commensal bacteria

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Molecular Biology and Evolution, 2021. DNA breaks-mediated fitness cost reveals RNase HI as a new target for selectively eliminating antibiotic resistant bacteria

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Evol Ecol, 2020. The effect of environmental heterogeneity on the fitness of antibiotic resistance mutations in Escherichia coli

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Can J Microbiol. 2018. Plasmid persistence: costs, benefits, and the plasmid paradox

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Genome Biol Evol, 2018. Fitness Tradeoffs of Antibiotic Resistance in Extraintestinal Pathogenic Escherichia coli

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Mol Biol Evol. 2021. The Adaptive Potential of the Middle Domain of Yeast Hsp90

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication elife, 2020. Comprehensive fitness maps of Hsp90 show widespread environmental dependence

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication EPL, 2018 Playing evolution in the laboratory: From the first major evolutionary transition to global warming

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Peer Community in Evolutionary Biology, 2018. Let’s move beyond costs of resistance!

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Heredity (Edinb). 2018. The fitness landscape of the codon space across environments

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Evolutionary Applications. 2020. Identifying the drivers of computationally detected correlated evolution among sites under antibiotic selection

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Nat Ecol Evol, 2020. Dysbiosis individualizes the fitness effect of antibiotic resistance in the mammalian gut

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication bioRxiv, 2023. Unpredictability of the fitness effects of antimicrobial resistance mutations across environments in Escherichia coli

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother. 2020. Radial Expansion Facilitates the Maintenance of Double Antibiotic Resistances

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Trends Microbiol. 2018. Evolutionary Mechanisms Shaping the Maintenance of Antibiotic Resistance

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Genome Biology and Evolution, 2022. Adaptive potential of epigenetic switching during adaptation to fluctuating environments

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Philosophical Transactions of the Royal Society B Biological Sciences, 2023. Epistasis decreases with increasing antibiotic pressure but not temperature

Project Acronym PREPARE

Call Name 2016 - Transmission Dynamics

Publication Eurosurveillance, 2022. mcr-1 colistin resistance gene sharing between Escherichia coli from cohabiting dogs and humans, Lisbon, Portugal, 2018 to 2020

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Microbiology Research, 2023. Detecting mecA in Faecal Samples: A Tool for Assessing Carriage of Meticillin-Resistant Staphylococci in Pets and Owners in the Microbiological ‘Fast Age’?

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication European Journal of Clinical Microbiology & Infectious Diseases, 2023. Longitudinal study of ESBL/AmpC-producing Enterobacterales strains sharing between cohabiting healthy companion animals and humans in Portugal and in the United Kingdom

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Journal of Infection and Public Health, 2023. Dissemination of bla NDM-5-carrying IncX3-type plasmid among non-clonal Escherichia coli strains colonising a dog with a skin infection caused by a carbapenem-resistant Klebsiella pneumoniae, United Kingdom

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Veterinary Microbiology, 2019. Clonal relatedness of Proteus mirabilis strains causing urinary tract infections in companion animals and humans

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Journal of Antimicrobial Chemotherapy, 2019. Klebsiella pneumoniae causing urinary tract infections in companion animals and humans: population structure, antimicrobial resistance and virulence genes

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Microbial Drug Resistance, 2020. Sharing of Clinically Important Antimicrobial Resistance Genes by Companion Animals and Their Human Household Members

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Journal of Antimicrobial Chemotherapy, 2019. Emergence of Escherichia coli ST131 H30/H30-Rx subclones in companion animals

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Chapter in Advances in Animal Health, Medicine and Production, 2020. The Public Health Risk of Companion Animal to Human Transmission of Antimicrobial Resistance During Different Types of Animal Infection

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Chapter in Advances in Animal Health, Medicine and Production, 2020. The Gut Microbiome and Antimicrobial Resistance in Companion Animals

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Chapter in Advances in Animal Health, Medicine and Production, 2020. Antimicrobial Resistance Trends in Dogs and Cats with Urinary Tract Infection

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Microorganisms, 2020. Genes on the Move: In Vitro Transduction of Antimicrobial Resistance Genes between Human and Canine Staphylococcal Pathogens

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Journal of Veterinary Internal Medicine, 2020. Extended‐spectrum‐beta‐lactamases‐ and carbapenemase‐producing Enterobacteriaceae isolated from the gut of sick companion animals in Portugal

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Journal of Veterinary Internal Medicine, 2020. Plasmid‐mediated colistin resistance mcr‐1 gene harbored on multi‐drug resistant isolates from companion animals in Portugal

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Chapter in Advances in Animal Health, Medicine and Production, 2020. The Public Health Risk of Companion Animal to Human Transmission of Antimicrobial Resistance During Different Types of Animal Infection

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Chapter in Advances in Animal Health, Medicine and Production, 2020. The Gut Microbiome and Antimicrobial Resistance in Companion Animals

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Chapter in Advances in Animal Health, Medicine and Production, 2020. Antimicrobial Resistance Trends in Dogs and Cats with Urinary Tract Infection

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication J Antimicrob Chemother, 2021. Two high-risk clones of carbapenemase-producing Klebsiella pneumoniae that cause infections in pets and are present in the environment of a veterinary referral hospital.

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother, 2020. OXA-181-Producing Extraintestinal Pathogenic Escherichia coli Sequence Type 410 Isolated from a Dog in Portugal

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Journal of Clinical Microbiology, 2019. Evidence of Sharing of Klebsiella pneumoniae Strains between Healthy Companion Animals and Cohabiting Humans

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Journal of Clinical Microbiology, 2021. Driving Laboratory Standardization of Bacterial Culture and Antimicrobial Susceptibility Testing in Veterinary Clinical Microbiology in Europe and Beyond

Project Acronym PET-Risk

Call Name 2016 - Transmission Dynamics

Publication Epidemics, 2021. Understanding MRSA clonal competition within a UK hospital; the possible importance of density dependence

Project Acronym MACOTRA

Call Name 2016 - Transmission Dynamics

Publication International Journal of Antimicrobial Agents, 2022. MRSA Surveillance Programmes Worldwide: Moving towards a harmonised international approach

Project Acronym MACOTRA

Call Name 2016 - Transmission Dynamics

Publication Microbiology Spectrum, 2022. Dehydration Tolerance in Epidemic versus Nonepidemic MRSA Demonstrated by Isothermal Microcalorimetry

Project Acronym MACOTRA

Call Name 2016 - Transmission Dynamics

Publication Clinical Microbiology and Infection, 2023. Markers of epidemiological success of methicillin-resistant Staphylococcus aureus (MRSA) isolates in European populations

Project Acronym MACOTRA

Call Name 2016 - Transmission Dynamics

Publication Cell, 2018. Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance

Project Acronym JumpAR

Call Name 2016 - Transmission Dynamics

Publication Current Opinion in Structural Biology, 2019. Jump ahead with a twist: DNA acrobatics drive transposition forward

Project Acronym JumpAR

Call Name 2016 - Transmission Dynamics

Publication Molecular Systems Biology, 2021. Sequence analysis of tyrosine recombinases allows annotation of mobile genetic elements in prokaryotic genomes

Project Acronym JumpAR

Call Name 2016 - Transmission Dynamics

Publication Nucleic Acids Res, 2021. SMART: recent updates, new developments and status in 2020

Project Acronym JumpAR

Call Name 2016 - Transmission Dynamics

Publication The FASEB Journal, 2022. Structure and function of DNA transposition assemblies involved in antibiotic resistance spreading

Project Acronym JumpAR

Call Name 2016 - Transmission Dynamics

Publication Frontiers in Microbiology, 2021. Genomic Diversity and Virulence Potential of ESBL- and AmpC-b-Lactamase-Producing Escherichia coli Strains From Healthy Food Animals Across Europe

Project Acronym HECTOR

Call Name 2016 - Transmission Dynamics

Publication Microb Genom, 2022. Benchmarking topological accuracy of bacterial phylogenomic workflows using in silico evolution

Project Acronym HECTOR

Call Name 2016 - Transmission Dynamics

Publication BMC Biology, 2023. Genome-wide association reveals host-specific genomic traits in Escherichia coli

Project Acronym HECTOR

Call Name 2016 - Transmission Dynamics

Publication BMC Microbiology, 2022. Using unique ORFan genes as strain-specific identifiers for Escherichia coli

Project Acronym HECTOR

Call Name 2016 - Transmission Dynamics

Publication bioRxiv, 2018. Conjugation factors controlling F-plasmid antibiotic resistance transmissio

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication Plos Computational Biology, 2018. Prediction of antibiotic resistance in Escherichia coli from large-scale pan-genome data

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication Scientific Reports, 2020. Complete genome sequences of Streptococcus pyogenes NCTC 8198T and CCUG 4207T, the type strain of the type species of the genus Streptococcus: 100% match in length and sequence identity between PacBio solo and Illumina plus Oxfor

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication Drug Development Research, 2018. Inhibiting conjugation as a tool in the fight against antibiotic resistance

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication mSystems, 2020. A High-Throughput Method for Screening for Genes Controlling Bacterial Conjugation of Antibiotic Resistance

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication mSystems, 2021. Machine Learning Prediction of Resistance to Subinhibitory Antimicrobial Concentrations from Escherichia coli Genomes

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication FEMS Microbiol Lett. 2020. Teaching about antibiotic resistance to a broad audience: a multidisciplinary approach

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication mSphere, 2021. Genomic Epidemiology and Evolution of Escherichia coli in Wild Animals in Mexico

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication Oikos, 2023. Scaling‐up the biodiversity–ecosystem functioning relationship: the effect of environmental heterogeneity on transgressive overyielding

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication Anal Chem. 2019. Chemical Changes On, and Through, The Bacterial Envelope in Escherichia coli Mutants Exhibiting Impaired Plasmid Transfer Identified Using Time-of-Flight Secondary Ion Mass Spectrometry

Project Acronym TransPred

Call Name 2016 - Transmission Dynamics

Publication Nature Communications, 2022. Population genomics of Group B Streptococcus reveals the genetics of neonatal disease onset and meningeal invasion

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Nature Microbiology, 2022. Pneumococcal within-host diversity during colonization, transmission and treatment

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication International Journal of Chronic Obstructive Pulmonary Disease, 2019. Personalized medicine for patients with COPD: where are we?

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Frontiers in Immunology, 2019. Peptidoglycan Recognition Protein 4 Limits Bacterial Clearance and Inflammation in Lungs by Control of the Gut Microbiota

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Communications Biology volume, 2020. Bacterial genome-wide association study of hyper-virulent pneumococcal serotype 1 identifies genetic variation associated with neurotropism

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Front Pediatr, 2021. Carriage Dynamics of Pneumococcal Serotypes in Naturally Colonized Infants in a Rural African Setting During the First Year of Life

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Scand J Immunol, 2020. Metabolic adaptations of human alveolar macrophages upon activation by lipopolysaccharide in vivo

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Scientific Reports, 2021. Novel computational analysis of large transcriptome datasets identifies sets of genes distinguishing chronic obstructive pulmonary disease from healthy lung samples

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Advanced Drug Delivery Reviews, 2021. The clinical role of host and bacterial-derived extracellular vesicles in pneumonia

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Mediators of Inflammation, 2021. Hypoxia-Inducible Factor-1α in Macrophages, but Not in Neutrophils, Is Important for Host Defense during Klebsiella pneumoniae-Induced Pneumosepsis

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication FASEB J, 2020. Influenza virus-mediated suppression of bronchial Chitinase-3-like 1 secretion promotes secondary pneumococcal infection

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication PLoS Comput Biol, 2020. Detection and segmentation of morphologically complex eukaryotic cells in fluorescence microscopy images via feature pyramid fusion

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication J Cyst Fibros, 2021. Defective BACH1/HO-1 regulatory circuits in cystic fibrosis bronchial epithelial cells

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication PNAS, 2020. Noncoding RNA MaIL1 is an integral component of the TLR4-TRIF pathway

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication mBio, 2020. A MicroRNA Network Controls Legionella pneumophila Replication in Human Macrophages via LGALS8 and MX1

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Sci Rep, 2020. Transcriptional analysis identifies potential biomarkers and molecular regulators in pneumonia and COPD exacerbation

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Cell Signal. 2020. NF-kB-mediated inhibition of microRNA-149-5p regulates Chitinase-3-like 1 expression in human airway epithelial cells

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Nat Commun, 2019. IL-17+ CD8+ T cell suppression by dimethyl fumarate associates with clinical response in multiple sclerosis

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Virulence. 2019. Antibacterial activity of a Tribolium castaneum defensin in an in vitro infection model of Streptococcus pneumoniae

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication J Infect Dis, 2020. Surface Proteome of Plasma Extracellular Vesicles as Biomarkers for Pneumonia and Acute Exacerbation of Chronic Obstructive Pulmonary Disease

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication J Virol, 2019. TMPRSS2 Is the Major Activating Protease of Influenza A Virus in Primary Human Airway Cells and Influenza B Virus in Human Type II Pneumocytes

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication J Clin Invest, 2019. Intestinal development and homeostasis require activation and apoptosis of diet-reactive T cells

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Nat Microbiol, 2019. Intracellular bacteria engage a STING-TBK1-MVB12b pathway to enable paracrine cGAS-STING signalling

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Methods Mol Biol, 2019. ncRNAs in Inflammatory and Infectious Diseases

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Mol Biol Evol, 2021. Pneumococcal Colonization and Virulence Factors Identified Via Experimental Evolution in Infection Models

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Sci Rep, 2020. Hypervirulent pneumococcal serotype 1 harbours two pneumolysin variants with differential haemolytic activity

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Clinical & Experimental Immunology, 2022. The PPAR-γ agonist pioglitazone exerts proinflammatory effects in bronchial epithelial cells during acute Pseudomonas aeruginosa pneumonia

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Nature Communications, 2020. Within-host microevolution of Streptococcus pneumoniae is rapid and adaptive during natural colonisation

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Annals of Intensive Care, 2021. Association between delay in intensive care unit admission and the host response in patients with community-acquired pneumonia

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Genome Biology and Evolution, 2022.Comparative genomics of disease and carriage serotype 1 pneumococci

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication Cell Communication and Signaling, 2023. Bacterial vesicles block viral replication in macrophages via TLR4-TRIF-axis

Project Acronym Restrict-Pneumo-AMR

Call Name 2016 - Transmission Dynamics

Publication EMBO Mol Med. 2020. Mannose receptor-derived peptides neutralize pore-forming toxins and reduce inflammation and development of pneumococcal disease

Project Acronym PNEUMOSPREAD

Call Name 2016 - Transmission Dynamics

Publication Cell Microbiol. 2019. Emerging concepts in the pathogenesis of the Streptococcus pneumoniae: From nasopharyngeal colonizer to intracellular pathogen

Project Acronym PNEUMOSPREAD

Call Name 2016 - Transmission Dynamics

Publication Microorganisms, 2020. Lysogeny in Streptococcus pneumoniae

Project Acronym PNEUMOSPREAD

Call Name 2016 - Transmission Dynamics

Publication Journal of Allergy and Clinical Immunology, 2020. Regulating T cell differentiation through the polyamine spermidine

Project Acronym PNEUMOSPREAD

Call Name 2016 - Transmission Dynamics

Publication Nature Microbiology, 2019. Pneumolysin binds to the mannose receptor C type 1 (MRC-1) leading to anti-inflammatory responses and enhanced pneumococcal survival

Project Acronym PNEUMOSPREAD

Call Name 2016 - Transmission Dynamics

Publication J Mol Med, 2021. Clarithromycin impairs tissue-resident memory and Th17 responses to macrolide-resistant Streptococcus pneumoniae infections

Project Acronym PNEUMOSPREAD

Call Name 2016 - Transmission Dynamics

Publication PLoS Comput Biol, 2021. Effects of incomplete inter-hospital network data on the assessment of transmission dynamics of hospital-acquired infections

Project Acronym EMerGE-NeT

Call Name 2016 - Transmission Dynamics

Publication PLoS Comput Biol, 2021. Relevance of intra-hospital patient movements for the spread of healthcare-associated infections within hospitals - a mathematical modeling study

Project Acronym EMerGE-NeT

Call Name 2016 - Transmission Dynamics

Publication PLoS Comput Biol, 2021. Modelling pathogen spread in a healthcare network: Indirect patient movements

Project Acronym EMerGE-NeT

Call Name 2016 - Transmission Dynamics

Publication Epidemics, 2020. Impact of inter-hospital transfers on the prevalence of resistant pathogens in a hospital–community system

Project Acronym EMerGE-NeT

Call Name 2016 - Transmission Dynamics

Publication MATHEMATICA APPLICANDA, 2019. Analysis of the AOK Plus data and derived hospital network

Project Acronym EMerGE-NeT

Call Name 2016 - Transmission Dynamics

Publication J Infect, 2021. Interventions to reduce infections caused by multidrug resistant Enterobacteriaceae (MDR-E): A systematic review and meta-analysis

Project Acronym EMerGE-NeT

Call Name 2016 - Transmission Dynamics

Publication PNAS, 2018. Cellular hysteresis as a principle to maximize the efficacy of antibiotic therapy

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Nature Communications, 2018. Conserved collateral antibiotic susceptibility networks in diverse clinical strains of Escherichia coli

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Scandinavian Journal of Primary Health Care, 2020. Retrospective study of men with E. coli UTI treated with an oral antibiotic, and risk for a new prescription or hospital admission due to UTI

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication PloS Biology, 2020. Molecular mechanisms of collateral sensitivity to the antibiotic nitrofurantoin

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Cell. Mol. Life Sci. 77, 2020. Multi-scale modeling of drug binding kinetics to predict drug efficacy.

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication PLoS Comput Biol, 2020. Drug-target binding quantitatively predicts optimal antibiotic dose levels in quinolones.

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Nat Commun, 2019. Collateral sensitivity constrains resistance evolution of the CTX-M-15 b-lactamase

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication FEMS Microbiology Reviews, 2020. Antibiotic resistance: turning evolutionary principles into clinical reality

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication EClinicalMedicine, 2019. Three versus five days of pivmecillinam for community-acquired uncomplicated lower urinary tract infection: A randomised, double-blind, placebo-controlled superiority trial

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Infect Drug Resist, 2019. Pivmecillinam compared to other antimicrobials for community-acquired urinary tract infections with Escherichia coli, ESBL-producing or not – a retrospective cohort study

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Journal of Antimicrobial Chemotherapy, 2019. Treatment duration of pivmecillinam in men, non-pregnant and pregnant women for community-acquired urinary tract infections caused by Escherichia coli: a retrospective Danish cohort study

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Antibiotics, 2019. "Pivmecillinam for Uncomplicated Lower Urinary Tract Infections Caused by Staphylococcus saprophyticus—Cumulative Observational Data from Four Recent Clinical Studies"

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication mSphere, 2019. OXA-48-Mediated Ceftazidime-Avibactam Resistance Is Associated with Evolutionary Trade-Offs

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication PLoS Pathog, 2021. Mechanisms and therapeutic potential of collateral sensitivity to antibiotics

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Antimicrob Agents Chemother, 2020. Ciprofloxacin Pharmacokinetics/Pharmacodynamics against Susceptible and Low-Level Resistant Escherichia coli Isolates in an Experimental Ascending Urinary Tract Infection Model in Mice

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication J Glob Antimicrob Resist, 2020. Manganese complex [Mn(CO)3(tpa-k3N)]Br increases antibiotic sensitivity in multidrug resistant Streptococcus pneumoniae

Project Acronym COLLATERALDAMAGE

Call Name 2016 - Transmission Dynamics

Publication Journal of Hospital Infection, 2020. Selection of resistance by antimicrobial coatings in the healthcare setting

Project Acronym BEAT-AMR

Call Name 2016 - Transmission Dynamics

Publication npj Biofilms and Microbiomes, 2020. An integrated model system to gain mechanistic insights into biofilm-associated antimicrobial resistance in Pseudomonas aeruginosa MPAO1

Project Acronym BEAT-AMR

Call Name 2016 - Transmission Dynamics

Publication Front Microbiol, 2021. Prevalent Synergy and Antagonism Among Antibiotics and Biocides in Pseudomonas aeruginosa

Project Acronym BEAT-AMR

Call Name 2016 - Transmission Dynamics

Publication Curr Opin Biotechnol, 2020. Environmental drivers of metabolic heterogeneity in clonal microbial populations

Project Acronym BEAT-AMR

Call Name 2016 - Transmission Dynamics

Publication J Colloid Interface Sci, 2019. Substrate viscosity plays an important role in bacterial adhesion under fluid flow

Project Acronym BEAT-AMR

Call Name 2016 - Transmission Dynamics

Publication The ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2021. Role of the flagellar hook in the structural development and antibiotic tolerance of Pseudomonas aeruginosa biofilms

Project Acronym BEAT-AMR

Call Name 2016 - Transmission Dynamics

Publication Microbiology Spectrum, 2023. Identification of Potential Antimicrobial Targets of Pseudomonas aeruginosa Biofilms through a Novel Screening Approach

Project Acronym BEAT-AMR

Call Name 2016 - AMR Networks/Working Groups

Publication Viruses, 2018. Expert Opinion on Three Phage Therapy Related Topics: Bacterial Phage Resistance, Phage Training and Prophages in Bacterial Production Strains

Project Acronym Phage Forward

Call Name 2016 - AMR Networks/Working Groups

Publication Nature Reviews Microbiology, 2018. Developmental roadmap for antimicrobial susceptibility testing systems

Project Acronym AMR-RDT

Call Name 2016 - AMR Networks/Working Groups

Publication European Journal of Clinical Microbiology & Infectious Diseases, 2019. The successful uptake and sustainability of rapid infectious disease and antimicrobial resistance point-of-care testing requires a complex ‘mix-and-match’ implementation package

Project Acronym AMR-RDT

Call Name 2016 - AMR Networks/Working Groups

Publication BEAM Alliance Position Paper, 2017. Key Guidelines to implement effective measures toward SMEs to revive the antibacterial R&D field

Project Acronym BEAM Alliance

Call Name 2016 - AMR Networks/Working Groups

Publication Evidence-based Complementary and Alternative Medicine, 2019. The Contribution of Complementary and Alternative Medicine to Reduce Antibiotic Use: A Narrative Review of Health Concepts, Prevention, and Treatment Strategies

Project Acronym

Call Name 2016 - AMR Networks/Working Groups

Publication BMJ Open, 2018. Do NHS GP surgeries employing GPs additionally trained in integrative or complementary medicine have lower antibiotic prescribing rates? Retrospective cross-sectional analysis of national primary care prescribing data in England in 2016

Project Acronym

Call Name 2016 - AMR Networks/Working Groups

Publication Clinical Microbiology and Infection, 2019. Optimizing design of research to evaluate antibiotic stewardship interventions: consensus recommendations of a multinational working group

Project Acronym

Call Name 2016 - AMR Networks/Working Groups

Publication Travel Medicine and Infectious Disease, 2018. The role of ‘filth flies’ in the spread of antimicrobial resistance

Project Acronym FARB

Call Name 2016 - AMR Networks/Working Groups

Publication AST of veterinary pathogens

Project Acronym VetCAST

Call Name 2016 - AMR Networks/Working Groups

Publication Frontiers in Microbiology, 2017. En Route towards European Clinical Breakpoints for Veterinary Antimicrobial Susceptibility Testing: A Position Paper Explaining the VetCAST Approach

Project Acronym VetCAST

Call Name 2016 - AMR Networks/Working Groups

Publication Clinical Microbiology and Infection, 2018. Prioritizing research areas for antibiotic stewardship programmes in hospitals: a behavioural perspective consensus paper

Project Acronym

Call Name 2016 - AMR Networks/Working Groups

Publication Journal of Antimicrobial Chemotherapy, 2020. A behavioural approach to specifying interventions: what insights can be gained for the reporting and implementation of interventions to reduce antibiotic use in hospitals?

Project Acronym

Call Name 2016 - AMR Networks/Working Groups

Publication Front. Sociol, 2020. Barriers and Facilitators to Implementation of Antibiotic Stewardship Programmes in Hospitals in Developed Countries

Project Acronym

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Molecular Microbiology, 2017. Silver potentiates aminoglycoside toxicity by enhancing their uptake

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Nature, 2018. Species-specific activity of antibacterial drug combinations

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Nucleic Acid Research, 2018. Deep genome annotation of the opportunistic human pathogen Streptococcus pneumoniae D39

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Nucleic Acids Research, 2018. High-resolution analysis of the pneumococcal transcriptome under a wide range of infection-relevant conditions

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Cell Reports, 2018. Antibiotic-induced cell chaining triggers pneumococcal competence by reshaping quorum sensing to autocrine signaling

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Genes, 2019. Three new integration vectors and fluorescent proteins for use in the opportunistic human pathogen Streptococcus pneumoniae

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication CPT: Pharmacometrics & Systemics Pharmacology, 2017. Translational Pharmacometric Evaluation of Typical Antibiotic Broad‐Spectrum Combination Therapies Against Staphylococcus Aureus Exploiting In Vitro Information

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Cell Host & Microbe, 2020. Proton Motive Force Disruptors Block Bacterial Competence and Horizontal Gene Transfer

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Nature Microbiology, 2019. RocS drives chromosome segregation and nucleoid protection in Streptococcus pneumoniae

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication PLOS Genetics, 2020. Oxidative stress antagonizes fluoroquinolone drug sensitivity via the SoxR-SUF Fe-S cluster homeostatic axis

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Antibiotics, 2020. Meropenem Plasma and Interstitial Soft Tissue Concentrations in Obese and Nonobese Patients—A Controlled Clinical Trial

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Clinical Pharmacology & Therapeutics, 2020. Perspectives on Model‐Informed Precision Dosing in the Digital Health Era: Challenges, Opportunities, and Recommendations

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication J Bacteriol, 2016. Antibodies Damage the Resilience of Fimbriae, Causing Them To Be Stiff and Tangled.

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Curr Opin Syst Biol, 2017. Chemical genetics in drug discovery.

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Nature, 2018. Species-specific activity of antibacterial drug combinations.

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Front Microbiol, 2018. Enhanced Biofilm Formation and Membrane Vesicle Release by Escherichia coli Expressing a Commonly Occurring Plasmid Gene, kil

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Diagnostics (Basel), 2020. Guideline for Urine Culture and Biochemical Identification of Bacterial Urinary Pathogens in Low-Resource Settings.

Project Acronym Combinatorials

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Clinical Microbiology and Infection, 2018. Automated time-lapse microscopy a novel method for screening of antibiotic combination effects against multidrug-resistant Gram-negative bacteria

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Clinical Microbiology and Infection, 2018. Semi-mechanistic pharmacokinetic–pharmacodynamic modelling of antibiotic drug combinations

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Clinical Microbiology and Infection, 2018. PK/PD characterization of combined antimicrobial agents: a real challenge and an urgent need

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication International Journal of Antimicrobial Agents, 2019. An alternative strategy for combination therapy: Interactions between polymyxin B and non-antibiotics

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Journal of Antimicrobial Chemotherapy, 2019. Population pharmacokinetics of piperacillin in febrile children receiving cancer chemotherapy: the impact of body weight and target on an optimal dosing regimen

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Antimicrobial Agents and Chemotherapy, 2020, Extension of Pharmacokinetic/Pharmacodynamic Time-Kill Studies To Include Lipopolysaccharide/Endotoxin Release from Escherichia coli Exposed to Cefuroxime

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Molecular Pharmaceutics, 2020, Model-Informed Drug Development in Pulmonary Delivery: Semimechanistic Pharmacokinetic–Pharmacodynamic Modeling for Evaluation of Treatments against Chronic Pseudomonas aeruginosa Lung Infections

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Antimicrobial Agents and Chemotherapy, 2020. Efficacy of Antibiotic Combinations against MultidrugResistant Pseudomonas aeruginosa in Automated Time-Lapse

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Clinical Microbiology and Infection, 2020. Evaluation of polymyxin B in combination with 13 other antibiotics against carbapenemase-producing Klebsiella pneumoniae in time-lapse microscopy and time-kill experiments

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication International Journal of Antimicrobial Agents, 2020. Combination of polymyxin B and minocycline against multidrug-resistant Klebsiella pneumoniae: interaction quantified by pharmacokinetic/pharmacodynamic modelling from in vitro data

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Clinical Microbiology and Infection, 2020. Semi-mechanistic PK/PD modelling of combined polymyxin B and minocycline against a polymyxin-resistant strain of Acinetobacter baumannii

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Clinical Microbiology and Infection, 2020. Population pharmacokinetics of colistin and the relation to survival in critically ill patients infected with colistin susceptible and carbapenem-resistant bacteria

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication International Journal of Antimicrobial Agents, 2020. Pharmacodynamics of immune response biomarkers of interest for evSaluation of treatment effects in bacterial infections

Project Acronym CO-ACTION

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication European Journal of Pharmaceutical Sciences, 2019. High voriconazole target-site exposure after approved sequence dosing due to nonlinear pharmacokinetics assessed by long-term microdialysis

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Frontiers in Immunology, 2019. Therapeutic Synergy Between Antibiotics and Pulmonary Toll-Like Receptor 5 Stimulation in Antibiotic-Sensitive or -Resistant Pneumonia

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Drug Metabolism Reviews, 2019. Novel insights into the complex pharmacokinetics of voriconazole: a review of its metabolism

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Journal of Clinical Medicine, 2020. Linezolid Concentrations in Plasma and Subcutaneous Tissue are Reduced in Obese Patients, Resulting in a Higher Risk of Underdosing in Critically Ill Patients: A Controlled Clinical Pharmacokinetic Study

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Talanta, 2019. A rapid, simple and sensitive liquid chromatography tandem mass spectrometry assay to determine amoxicillin concentrations in biological matrix of little volume

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication bioRxiv, 2020. Boosting Toll-like receptor 4 signaling enhances the therapeutic outcome of antibiotic therapy in pneumococcal pneumonia

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Mucosal Immunology, 2021. mTOR-driven glycolysis governs induction of innate immune responses by bronchial epithelial cells exposed to the bacterial component flagellin

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Pharmaceutical Research, 2021. Which Analysis Approach Is Adequate to Leverage Clinical Microdialysis Data? A Quantitative Comparison to Investigate Exposure and Reponse Exemplified by Levofloxacin.

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication Respiratory Research, 2021. Post-treatment with the PPAR-g agonist pioglitazone inhibits inflammation and bacterial growth during Klebsiella pneumonia

Project Acronym ABIMMUNE

Call Name 2015 - Antimicrobial Resistance through the JPIAMR

Publication BBA - Molecular Basis of Disease, 2022. Human alveolar macrophages do not rely on glucose metabolism upon activation by lipopolysaccharide

Project Acronym ABIMMUNE

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Virology Journal, 2015. Glycoside hydrolase family 32 is present in Bacillus subtilis phages

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Drug Discovery Today: Technologies, 2018. Automated assays for thermodynamic (equilibrium) solubility determination

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Molecules, 2018. In Silico and in Vitro-Guided Identification of Inhibitors of Alkylquinolone-Dependent Quorum Sensing in Pseudomonas aeruginosa

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Journal of Medicinal Chemistry, 2018. Pseudomonas aeruginosa Quorum Sensing Systems as Drug Discovery Targets: Current Position and Future Perspectives

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Annals of the New York Academy of Sciences, 2019. Genomics of antibiotic‐resistance prediction in Pseudomonas aeruginosa

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Journal of Pharmaceutical Sciences, 2019. Model-based drug development in pulmonary delivery: Pharmacokinetic analysis of novel drug candidates for treatment of Pseudomonas aeruginosa lung infection

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication International Journal of Pharmaceutics, 2021. Rapid microwave-based method for the preparation of antimicrobial lignin-capped silver nanoparticles active against multidrug-resistant bacteria.

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication ACS Infectious Diseases, 2022. Antisense Peptide Nucleic Acid–Diaminobutanoic Acid Dendron Conjugates with SbmA-Independent Antimicrobial Activity against Gram-Negative Bacteria.

Project Acronym SENBIOTAR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication PLOS ONE, 2017. Effective Control of Molds Using a Combination of Nanoparticles

Project Acronym NPERDMDR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Journal of Nanobiotechnology, 2017. Metal nanoparticles: understanding the mechanisms behind antibacterial activity

Project Acronym NPERDMDR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Journal of Materials Chemistry B, 2016. A one-step sonochemical synthesis of stable ZnO–PVA nanocolloid as a potential biocidal agent

Project Acronym NPERDMDR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication International Journal of Nanomedicine, 2016. GaaC-dots as an antibacterial agent for the eradication of Pseudomonas aeruginosa

Project Acronym NPERDMDR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Chemistry and Physics of Lipids, 2019. Physical states and thermodynamic properties of model gram-negative bacterial inner membranes

Project Acronym NPERDMDR

Call Name 2014 - InnovaResistance: Innovative approaches to address antibacterial resistance

Publication Current Topics in Medicinal Chemistry, 2017. Innovative Approaches for Controlling Clinically Relevant Biofilms: Current Trends and Future Prospects