Scientific Calendar Event

An ICTP Virtual meeting

Antimicrobial Resistance (AMR) represents a major challenge to public health worldwide. Mobile elements such as plasmids play a crucial role in Horizontal Gene Transfer (HGT) and AMR spread. Understanding plasmid evolution and mobility is fundamental to unravel the population genetics of plasmid-encoded genes, especially antibiotic genes.

The combination of breakthroughs in sequencing and computational approaches has led to a new vision of the eco-evolutionary processes involved in HGT dynamics of pathogens. The Workshop will focus on modelling efforts to integrate genomic, experimental and computational results, to build a unified framework to tackle the expansion of plasmid borne AMR. Special focus will be put in the discussion on methods to go beyond point mutation- and tree- based phylogenetics in cases such as plasmids where HGT is the main evolutionary mechanism.

The Workshop is aimed both at researchers working on plasmids and modellers with no previous experience on plasmids and/or AMR. Introductory lectures on bacterial evolution, population genetics and epidemiology and their applications to AMR and plasmids will be provided on the website.

J. ALDERLIESTEN, Utrecht University, Netherlands
M. BROCKHURST, University of Manchester, UK
M. COSENTINO LAGOMARSINO, IFOM and University of Milan, Italy
T. DAGAN, Christian-Albrechts University of Kiel, Germany
T. DIMITRIU, University of Exeter, UK
S. DUXBURY, University of Warwick, UK
J. P. HALL, University of Liverpool, UK
J. HAWKEY, Monash University, Australia
J. HUISMAN, ETH Zurich, Switzerland
E. JAUNEIKAITE, Imperial College London, UK
O. KOSTERLIZ, University of Washington, USA
J. KRUG, University of Cologne, Germany
S. LEHTINEN, ETH Zurich, Switzerland
W. MATLOCK, University of Oxford, UK
J.O. MCINERNEY, University of Nottingham, UK
M. MOLARI, University of Basel, Switzerland
R. MORAN, University of Birmingham, UK
C. POLETTO, INSERM - Sorbonne University, France
A. ROBERTS, Liverpool School of Tropical Medicine, UK
L. SHAW, University of Oxford, UK
K. SMALLA, Julius Kühn-Institut (JKI), Germany
W. VAN SCHAIK, University of Birmingham, UK

Registration: There is no registration fee.

Go to day
  • Monday, 21 March 2022
    • 15:00 - 19:00
      Time zone: You can choose your time zone (in place of Europe/Rome) on the top right of the page and the programme time will be modified accordingly.
      • 15:00 Bioinformatics Background: Going from Raw Data to Plasmid Genomes 30'
        Speaker: Iqbal ZAMIN (EBI Cambridge, UK)
        Material: Video
      • 15:30 Break 10'
      • 15:40 New Approaches to Understanding Gene Content in Prokaryotic Pangenomes 20'
        Speaker: James Oscar MCINERNEY (University of Nottingham, UK)
        Material: Video
      • 16:00 Plasmid Taxonomy 20'
        Speaker: Fernando DE LA CRUZ (University of Cantabria, Spain)
        Material: Video
      • 16:20 Characterization of Pipolins in Firmicutes Shows a Close Evolutionary Relationship between Primer Independent PolBs-coding Elements and Conjugative Mobile Genetic Elements 15'
        Contributed talk
        Speaker: Victor MATEO CACERES (Instituto de Investigaciones Biomedicas "Alberto Sols", Spain)
        Material: Video
      • 16:35 Discussion 25'
      • 17:00 Break 15'
      • 17:15 PanGraph: Scalable Bacterial Pan-genome Graph Construction 20'
        Speaker: Marco MOLARI (University of Basel, Switzerland)
        Material: Video
      • 17:50 An optimised short-read approach to predict and reconstruct antibiotic resistance plasmids in Escherichia Coli 15'
        Contributed talk
        Speaker: Julian PAGANINI (UMC Utrecht, The Netherlands)
        Material: Video
      • 18:05 Using Pangraph to Explore Plasmid Diversity 20'
        Speaker: Liam SHAW (University of Oxford, UK)
        Material: Video
      • 18:25 A Data-driven Method to Identify "Core Plasmidome" in a Very Diverse Plasmid Dataset 15'
        Speaker: Alice LEDDA (Imperial College London, MRC GIDA and UKHSA, UK)
        Material: Video
      • 18:40 Discussion 20'
        Material: Video
  • Tuesday, 22 March 2022
    • 15:00 - 19:00
      • 15:00 Plasmid Overlap and Evolution between Enterobacterales Isolates from Bloodstream Infections and Non-human Compartments 20'
        Speaker: Will MATLOCK (University of Oxford, UK)
        Material: Video
      • 15:20 Diversity and Transmission of ESBL Plasmids in Klebsiella Pneumoniae in the Hospital Setting 20'
        Speaker: Jane HAWKEY (Monash University, Australia)
        Material: Video
      • 15:40 High-resolution Sequence Annotation and Comparative Analyses as Foundations for Plasmid Surveillance 20'
        Speaker: Robert MORAN (University of Birmingham, UK)
        Material: Video
      • 16:00 Discussion 20'
      • 16:20 Break 10'
      • 16:30 Discussion 35'
      • 17:05 Plasmids in Plant and Soil Associated Bacteria 20'
        Speaker: Kornelia SMALLA (Julius Kühn-Institut (JKI), Germany)
        Material: Video
      • 17:25 Discussion 35'
  • Wednesday, 23 March 2022
    • 15:00 - 19:00
      • 15:00 Introduction to Plasmid Biology 30'
        Speaker: Fernando DE LA CRUZ (University of Cantabria, Spain)
        Material: Video
      • 15:30 Break 10'
      • 15:40 The Darwinian Fitness of Extrachromosomal Genetic Element 20'
        Speaker: Tal DAGAN (Christian-Albrechts University of Kiel, Germany)
        Material: Video
      • 16:00 Why Do Some Bacterial Genes Reside on the Chromosome and Others on Plasmids? 20'
        Speaker: Sonja LEHTINEN (ETH Zurich, Switzerland)
        Material: Video
      • 16:20 Modelling the Evolution of Plasmid Size 10'
        Speaker: Luca FERRETTI (Big Data Institute, UK)
        Material: Video
      • 16:30 *Characterising Intracellular Transposition Events from Plasmids to Other Replicons 20'
        Note: (*) Please note the talk is POSTPONED
        Speaker: Adam ROBERTS (Liverpool School of Tropical Medicine, UK)
      • 16:50 Discussion 30'
      • 17:20 Break 10'
      • 17:30 Plasmid-mediated Horizontal Gene Transfer in Microbiomes 20'
        Speaker: James P. HALL (University of Liverpool, UK)
        Material: Video
      • 17:50 Plasmid-mediated Horizontal Gene Transfer in Microbiomes 20'
        Speaker: Mike BROCKHURST (University of Manchester, UK)
        Material: Video
      • 18:10 Mobile Genetic Elements in Microbiomes 20'
        Speaker: Willem VAN SCHAIK (University of Birmingham, UK)
        Material: Video
      • 18:30 Discussion 30'
        Material: Video
  • Thursday, 24 March 2022
    • 15:00 - 19:15
      • 15:00 Role of Plasmids and Other Mobile Genetic Elements in the Broad-scale Propagation of Amino-glycoside Resistances 20'
        Speaker: Stephanie BEDHOMME, CEFE/CNRS, France (CEFE/CNRS, France)
        Material: Video
      • 15:20 Antibiotic Resistance on Multicopy Plasmids 15'
        Contributed talk
        Speaker: Mario SANTER (Max Planck Institute for Evolutionary Biology, Germany)
        Material: Video
      • 15:35 Discussion 10'
        Material: Video
      • 16:00 Break 10'
      • 16:10 Experimental Evolution of Highly Conjugative Plasmids and their Effects on AMR Spread 20'
        Speaker: Tatiana DIMITRIU (University of Exeter, UK)
        Material: Video
      • 16:30 Chicken Gut Microbiome Members Limit the Spread of an Antimicrobial Resistance Plasmid in Escherichia Coli 15'
        Speaker: Sarah DUXBURY (University of Warwick, UK)
        Material: Video
      • 16:45 The Rise of a Megaplasmid Family Driving Dissemination of Multidrug Resistance in Pseudomonas 15'
        Contributed talk
        Speaker: Adrian CAZARES LOPEZ (European Bioinformatics Institute (EMBL-EBI), Zamin Iqbal group, UK)
        Material: Video
      • 17:00 Discussion 25'
      • 17:25 Break 10'
      • 17:35 Population Size Mediates the Contribution of High-rate and Large-Benefit Mutations to the Evolution of Drug Resistance 20'
        Speaker: Joachim KRUG (University of Cologne, Germany)
        Material: Video
      • 17:55 Understanding the Impact of Host Contact Dynamics on Pathogen Diversity 20'
        Speaker: Chiara POLETTO (INSERM - Sorbonne University, France)
        Material: Video
      • 18:15 A Meta Population Model Preserves the Genomic Diversity in Presence of Gene Sweeps 20'
        Speaker: Marco COSENTINO LAGOMARSINO (IFOM and University of Milan, Italy)
        Material: Video
      • 18:35 Detecting Patterns of Coevolution of Gene Gains and Loss in Bacterial Species Using Data from Thousands of Bacterial Genomes 15'
        Speaker: Rohan MEHTA
        Material: Video
      • 18:50 Discussion 25'
  • Friday, 25 March 2022
    • 15:00 - 19:00
      • 15:00 Characterising Intracellular Transposition Events from Plasmids to Other Replicons 15'
        Speaker: Adam ROBERTS (Liverpool School of Tropical Medicine, UK)
      • 15:15 Introduction to Plasmid Genetic Epidemiology 20'
        Speaker: Alice LEDDA (Imperial College London, MRC GIDA and UKHSA, UK)
        Material: Video
      • 15:35 Break 5'
      • 15:40 Rapid Spread and Evolution of Plasmid-mediated Antibiotic Resistance in the Gut Microbiota of Hospitalized Patients 20'
        Speaker: Alvaro SAN MILLAN, IRYCIS, Spain (IRYCIS, Spain)
        Material: Video
      • 16:00 Genomic Plasmid Analysis Reveal a Multi-species Outbreak of Carbapenemase-producing Enterobacterales Carrying Both blaIMP and mcr-9 20'
        Speaker: Elita JAUNEIKAITE (Imperial College London, UK)
        Material: Video
      • 16:20 Klebsiella Genomic Epidemiology Revealed Potential Hospital Transmission and the Presence of Hybrid Resistance and Virulence Plasmid in Qatar 15'
        Contributed talk
        Speaker: Kin Ming TSUI (National Centre for Infectious Diseases, Tan Tock Seng Hospital, Singapore)
        Material: Video
      • 16:35 Discussion 30'
      • 17:05 Break 10'
      • 17:15 Estimating Plasmid Conjugation Rates 20'
        Speaker: Jana HUISMAN (ETH Zurich, Switzerland)
        Material: Video
      • 17:35 Estimating the Rate of Plasmid Transfer with an Adapted Luria-Delbrück Fluctuation Analysis 20'
        Speaker: Olivia KOSTERLIZ (University of Washington, USA)
        Material: Video
      • 17:55 TBA 20'
      • 18:15 Discussion 45'