Description |
An ICTP hybrid meeting
Antimicrobial resistance is a global threat to modern medicine, whereby bacteria evolve resistance to (i.e the ability to not be killed by) antibiotics. Since bacteria are able to pass chunks of DNA between unrelated individuals, this allows them to pass around genes encoding resistance mechanisms - in other words they can give each other an evolutionary head-start, directly donating the ability to survive an antibiotic in a process called Horizontal Gene Transfer.
Plasmids are key players in Horizontal Gene Transfer, acting as vehicles of antimicrobial resistance (AMR) spread, able to transfer tens of genes, and therefore multidrug resistance, in one event. It is therefore critical that we understand their biology, ecology and epidemiology. Recent technology developments (longread sequencing and targeted bioinformatic tools) have led to improved ability to observe these processes, making thorough investigation of plasmid-mediated AMR outbreaks possible. However, it has also highlighted how complex plasmid evolution is, the uniqueness of plasmid eco-evolutionary processes and the unsuitableness of many chromosome-based methods like point-mutation- and tree- based phylogenetics. New models are needed to be able to understand the processes that genomics allows us to observe and to appreciate their clinical and epidemiological implications in the light of plasmid evolution. Call for Contributed Abstracts: All applicants are encouraged to submit an abstract for a poster presentation and/or a contributed talk. Abstract templates are available below for download. Speakers: D. AANENSEN, University of Oxford, UK F. BENZ, Institut Pasteur Paris, France T. M. COQUE, IRYCIS, Spain T. DAGAN, Christian-Albrechts University of Kiel, Germany E. FEIL, University of Bath, UK P. J. HALL, University of Liverpool, UK J. HAWKEY, Monash University, Australia O. KOSTERLITZ, University of Washington, USA N. QUINONES-OLVERA, Harvard University, USA A. ROBERTS, Liverpool School of Tropical Medicine, UK E. ROCHA, Institut Pasteur Paris, France A. SAN MILLAN CRUZ, CSIC Madrid, Spain L. P. SHAW, University of Oxford, UK D. VAN TYNE, University of Pittsburgh, USA
Grants: A limited number of grants are available to support the attendance of selected participants, with priority given to participants from developing countries. There is no registration fee.
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Workshop on Plasmids as Vehicles of AMR Spread | (smr 3876)
Go to day
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09:00 - 10:00
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09:00
Registration formalities
1h0'
REGISTRATION: Upon arrival, Visitors not staying in the ICTP Guest Houses, are kindly requested to complete registration formalities at the Adriatico Guest House (Lower level). The Registration Desk will be open from 9.00 to 10.00.
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09:00
Registration formalities
1h0'
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10:00 - 14:00
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10:00
Welcome remarks
15'
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10:15
Speed-dating style introduction
1h45'
- 12:00 Working lunch and coffee 1h45' ( Adriatico Guesthouse Cafeteria )
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13:45
Posters
15'
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10:00
Welcome remarks
15'
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14:00 - 18:30
Session 1: What's in a plasmid?
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14:00
Unraveling the Taxonomic Diversity of Plasmids
20'
Speaker: Fernando DE LA CRUZ CALAHORRA (University of Cantabria, Spain) -
14:20
Phage-plasmids connect and generate phages and plasmids
20'
Speaker: Eduardo ROCHA (Institut Pasteur Paris, France) Material: Video -
14:40
Interaction between mobile genetic elements and plasmids drives the evolution of multidrug resistance plasmids
20'
Speaker: Tal DAGAN (Christian-Albrechts University of Kiel, Germany) -
15:00
Insights into intracellular transfer of AMR associated MGEs
20'
remotely
Speaker: Adam ROBERTS (Liverpool School of Tropical Medicine, UK) Material: Video -
15:20
Q&A
10'
- 15:30 Coffee break 30'
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16:00
Diverse and abundant bacteriophages exploit conjugative plasmids
20'
Speaker: Natalia QUINONES-OLVERA (Harvard University, USA) Material: Video -
16:20
Unmasking the Hidden Players: Unveiling the Conjugative Origins of Transfer
15'
Speaker: Manuel ARES ARROYO (Institut Pasteur, France) -
16:35
Efficiency of restriction-modification systems against AMR plasmid conjugation
15'
Speaker: Tatiana DIMITRIU (University of Exeter, UK) Material: Video -
16:50
Anti-Defense Systems on Plasmids
15'
Speaker: Bruria SAMUEL (Tel Aviv University, Israel) Material: Video -
17:05
The role of intracellular competition in the fixation of novel plasmids
15'
Speaker: Fernando WELKER SAPOJKIN ROSSINE (Harvard Medical School, USA) Material: Video -
17:20
Q&A
15'
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17:35
Presentation of the projects/discussion groups
55'
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14:00
Unraveling the Taxonomic Diversity of Plasmids
20'
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19:00 - 21:30
- 19:00 Campfire Session: interdisciplinary collaborations 2h30'
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19:00
Welcome reception
2h30'
(
Adriatico Guesthouse - lower level
)
All participants are cordially invited to the Welcome reception.
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09:00 - 10:00
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09:00 - 19:15
Session 2: How do plasmid evolve?
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09:00
How do plasmids evolve over epidemiological and evolutionary timescales
20'
Speaker: Zamin IQBAL (EBI Cambridge, UK) Material: Video -
09:20
Evolutionary "crowdsourcing": distributed adaptation of horizontally transferred genes within bacterial communities
20'
Speaker: Olivia KOSTERLITZ (University of Washington, USA) Material: Video -
09:40
Host-specific plasmid evolution explains the variable spread of clinical antibiotic-resistance
plasmids
20'
Speaker: Fabienne BENZ (Institut Pasteur Paris, France) Material: Video -
10:00
Megaplasmids as vehicles for resistance genes
20'
Speaker: Jamie HALL (University of Liverpool, UK) - 10:20 Coffee break 40'
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11:00
Plasmid evolution and defence systems
20'
Speaker: Liam SHAW (University of Oxford, UK) Material: Video -
11:20
Diverse evolutionary paths led plasmid adaptation to the antibiotic era
15'
Speaker: Adrian CAZARES LOPEZ (European Bioinformatics Institute (EMBL-EBI), UK) -
11:35
Evolutionary interplay of chromosomal and plasmid-borne compensatory mutations
15'
Speaker: Christopher WITZANY (ETH Zurich, Switzerland) Material: Video -
11:50
Q&A
25'
- 12:15 Lunch break and personal time 3h0'
- 15:15 Coffee and posters 30'
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15:45
Discussion/Projects
1h45'
- 17:30 Personal time 1h0'
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18:30
Conjugative-killer plasmids, a novel antimicrobial alternative
5'
Speaker: Luis Pedro DORADO-MORALES (Institut Pasteur Paris, France) -
18:35
Transference of antibiotic resistance genes through marine conjugative plasmids
5'
Speaker: Juan Manuel MEDINA MENDEZ (CSIC - University of Cantabria, Spain) Material: Video -
18:40
Capturing microbial genome diversity with pangenome graphs: the case of E. coli ST131
5'
Speaker: Marco MOLARI (University of Basel, Switzerland) Material: Video -
18:45
Improved detection and classification of plasmids from circularized and fragmented assemblies
5'
Speaker: Matias GIMENEZ MARTINEZ (Institut Pasteur Montevideo, Uruguay) Material: Video -
18:50
Can we use short-read data to monitor AMR markers in plasmids?
5'
Speaker: Julio Felix DIAZ CABALLERO (University of Oxford, UK) Material: Video -
18:55
PlasBin-flow: A flow-based MILP algorithm for plasmid contigs binning
5'
Speaker: Mahsa FAIZRAHNEMOON (Simon Fraser University, Canada) Material: Video -
19:00
Q&A
15'
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09:00
How do plasmids evolve over epidemiological and evolutionary timescales
20'
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19:15 - 21:15
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19:15
Aperitivo dinner
2h0'
(
Adriatico Guesthouse Cafeteria
)
All participants are cordially invited to the Aperitivo dinner.
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19:15
Aperitivo dinner
2h0'
(
Adriatico Guesthouse Cafeteria
)
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09:00 - 19:15
Session 2: How do plasmid evolve?
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09:00 - 16:30
Session 3: How do plasmid spread in natural communities?
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09:00
Plasmids: pragmatic challenges for public health surveillance of AMR
20'
Speaker: David AANENSEN (University of Oxford, UK) Material: Video -
09:20
Population genomics of Klebsiella pneumoniae plasmids
20'
Speaker: Edward FEIL (University of Bath, UK) Material: Video -
09:40
Challenges of plasmid transmission analysis at the Alfred Hospital
20'
Speaker: Jane HAWKEY (Monash University, Australia) Material: Video -
10:00
Q&A
15'
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10:15
Group photo
5'
in person and online
- 10:20 Coffee break 25'
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10:45
Antimicrobial resistance level and conjugation permissiveness shape plasmid distribution in clinical enterobacteria
20'
Speaker: Alvaro SAN MILLAN CRUZ (CSIC Madrid, Spain) Material: Video -
11:05
Phylogemics adapted to pasmid evolution
20'
Speaker: Alice LEDDA (UK Health Security Agency, UK) Material: Video -
11:25
Jaccard Index Network Analysis reveals the contribution of accessory genome to the recent diversification of Salmonella Typhi
15'
Speaker: Arancha PENIL CELIS (Institute of Biomedicine and Biotechnology of Cantabria, Spain) Material: Video -
11:40
RoundHound: detecting plasmid transmission from short-read datasets
15'
Speaker: Leah ROBERTS (Queensland University of Technology, Australia) Material: Video -
11:55
Approximating plasmid relatedness using Double Cut and Join Indel model
15'
Speaker: Daria FROLOVA (European Bioinformatics Institute, UK) Material: Video - 12:10 Lunch break 1h20'
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13:30
Integrons on plasmids: the global genomic epidemiology of blaGES-5
15'
Speaker: William MATLOCK (University Oxford, UK) Material: Video -
13:45
Detecting AMR plasmid variants in Shigella sonnei
15'
Speaker: Sally PARTRIDGE (The Westmead Institute for Medical Research (WIMR), Australia) Material: Video -
14:00
Exploiting Short-Reads Plasmid Signature for Phenotypic Resistance Analysis: a bioinformatic methodology approach
5'
Speaker: Federico DI MARCO (IRCCS San Raffaele Scientific Institute, Italy) Material: Video -
14:05
Accumulation of replicons carrying multiple copies of mcr and blaKPC-2 in Enterobacter kobei from Brazilian recreational coastal waters
5'
Speaker: Gabriela BERGIANTE KRAYCHETE (Linköping University, Sweden) -
14:10
Aeromonas as a major host of antimicrobial resistance in wastewater settings
5'
Speaker: David BALTRUS (University of Arizona, USA) Material: Video -
14:15
The emergence, context and impact of L3 lineage IncL plasmids on antimicrobial resistance dynamics
5'
Speaker: Jose DELGADO BLAS (Complutense University of Madrid, Spain) Material: Video -
14:20
Three major Neisseria gonorrhoeae beta-lactamase plasmid variants are associated with TEM alleles and lineages
5'
remotely
Speaker: Tabea ELSENER (Sir William Dunn School of Pathology, UK) Material: Video -
14:25
Integrated analysis of patient networks and plasmid genomes reveals a regional, multi-species outbreak of carbapenemase-producing Enterobacterales carrying both blaIMP and mcr-9 genes
5'
remotely
Speaker: Yu WAN (Imperial College London, UK) Material: Video - 14:30 Coffee and posters 30'
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15:00
Discussion/Projects
1h30'
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09:00
Plasmids: pragmatic challenges for public health surveillance of AMR
20'
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17:30 - 20:00
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17:30
Hike (optional) and Social Dinner
2h30'
All participants are cordially invited to the dinner.
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17:30
Hike (optional) and Social Dinner
2h30'
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09:00 - 16:30
Session 3: How do plasmid spread in natural communities?
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10:15 - 14:30
- 10:15 Coffee and posters 30'
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10:45
Discussion/Projects
1h45'
- 12:30 Lunch break and personal time 1h30'
- 14:00 Posters 30'
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14:30 - 18:15
Session 4: Plasmids and AMR - do we have a problem?
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14:30
Sharing is caring: Mobile genetic element spread among multidrug-resistant bacteria in the hospital
20'
Speaker: Daria VAN TYNE (University of Pittsburgh, USA) Material: Video -
14:50
The challenges of Plasmid Antibiotic Resistance Surveillance
20'
Speaker: Teresa COQUE (IRYCIS, Spain) - 15:10 Break 20'
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15:30
Experimentally exploring the role of codon usage in determining the immediate and evolutionary success of the horizontal transfer of an antibiotic resistance gene
15'
remotely
Speaker: Stephanie BEDHOMME (Centre for Evolutionary and Functional Ecology, France) Material: Video -
15:45
Using in vitro experimental epidemiology to compare the effectiveness of multi-drug treatment strategies to reduce plasmid-borne antibiotic resistance
15'
Speaker: Sebastian BONHOEFFER (ETH Zurich, Switzerland) Material: Video - 16:00 Coffee break 30'
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16:30
Identifying plasmid transconjugants in the rare biosphere of the barley rhizosphere using Hi-C and target enrichment
15'
Speaker: Thibault STALDER (University of Idaho, USA) Material: Video -
16:45
blaNDM-1-bearing plasmid transmission between Klebsiella pneumoniae strains in biofilm and planktonic lifestyle
15'
Speaker: Michelle BUCKNER (University of Birmingham, UK) Material: Video -
17:00
The invasion success by antibiotic-resistant plasmid-bacterium associations in human-associated communities is determined by the interplay between intrinsic and environmental factors
15'
Speaker: Ricardo LEON-SAMPEDRO (ETH Zurich, Switzerland) Material: Video -
17:15
Plasmid spread from carbapenemase producing Enterobacter hormaechei ST79 present on contaminated Dicillin capsules sold in Denmark
15'
Speaker: Henrik HASMAN (Henrik Statens Serum Institut, Denmark) Material: Video - 17:30 Break 15'
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17:45
Investigation of the extent of clonal and multiple acquisition in OXA-48 plasmids in UK hospitals
5'
remotely
Speaker: Toby NONNENMACHER (UK Health Security Agency, UK) Material: Video -
17:50
In silico investigation of the plasmid composition of over 400 Enterobacteriaceae strains held by the National Collection of Type Cultures
5'
Speaker: Jake TURNBULL (UKHSA, UK) Material: Video -
17:55
Genomic Epidemiologic Investigation of a Hospital Outbreak of NDM-5-Producing Gram-Negative Enterobacterales Infections
5'
Speaker: Nathan RAABE (University of Pittsburgh, USA) Material: Video -
18:00
IncC plasmids in the emergent genotype ST213 of Salmonella Typhimurium: Phenotypic analyses of plasmid-cured mutant strains and comparative genomics
5'
Speaker: Marco PEREZ (Universidad Nacional Autonoma de Mexico, Mexico) Material: Video -
18:05
Ecology & evolution of a clinical plasmid population
5'
Speaker: Celia SOUQUE (Harvard Medical School, USA) Material: Video -
18:10
Genomic dissection of plasmids driving AMR and hypervirulence convergence in Klebsiella pneumoniae
5'
Speaker: Margaret LAM (Monash University, Australia) Material: Video
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14:30
Sharing is caring: Mobile genetic element spread among multidrug-resistant bacteria in the hospital
20'
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19:15 - 20:15
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19:15
Get-together drink
1h0'
(
Adriatico Guesthouse Cafeteria
)
All participants are cordially invited to the Get-together drink.
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19:15
Get-together drink
1h0'
(
Adriatico Guesthouse Cafeteria
)
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20:15 - 21:15
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20:15
Campfire session: women in science
1h0'
Speaker: Tal DAGAN (Christian-Albrechts University of Kiel, Germany)
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20:15
Campfire session: women in science
1h0'
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10:15 - 14:30