There is a growing awareness among researchers for the current transition of science to open science. For the AMR community, this relates to resources such as biobanks harbouring collections of biological material such as samples from human, animal and environmental origin, and microbial strains and molecular components derived from them and their metadata.
JPIAMR, in collaboration with the IMI-consortium VALUE-Dx, has collected information on AMR specific collections of biological materials, databases and research infrastructure services through a survey on existing resources and services that are relevant for AMR research from all the One Health domains: human, animal and environment. This will contribute to improving findability, reusability and sustainability of resources and services for the AMR research community following the FAIR Guiding Principles for scientific data management and stewardship.
The overview on the AMR resources and services is further elaborated in the following categories:
- Biobank and its associated database: comprise of collections of biological materials and their associated databases.
- Non-sample-databases: comprise of collection of databases on medical records, registry and other relevant datasets.
- Research Infrastructure Services: comprise of services offered by research infrastructures for managing and using the collections and databases.
A comprehensive report on the results of the survey is available here: Antimicrobial Resistance Survey – A survey about collections of biological material, databases and services relevant for AMR research (pdf 2 MB). The report includes details of the classification of the categories and the definitions of various terminologies used in the dashboards.
Download and explore the data available here: AMR Research Infrastructure data (Excel)
Please contact secretariat.jpiamr@vr.se if you wish to provide and/or receive detailed information about the datasets.
Research infrastructure platform links
To date, a number of research infrastructure platforms are available, some of which provide information about biological and biomedical resources and service.
| Research Infrastructure | Short description | Focus |
|---|---|---|
| BCCM. | Belgian Coordinated Collections of Microorganisms (BCCM) provides services of quality in microbial and genetic resources for academia and industry. | Microbiology research |
| BBMRI | Biobanking and BioMolecular resources Research Infrastructure (BBMRI) is a European research infrastructure for biobanking that brings together all the main players from the biobanking field – researchers, biobankers, industry, and patients . They offer quality management services, support with ethical, legal and societal issues, and a number of online tools and software solutions. | Biomedical research |
| ARC | The antimicrobial resource centre (ARC) has been developed by the British Society for Antimicrobial Chemotherapy as a global repository of information for all people interested in the effective management of infectious diseases. | Microbiology research |
| EMBRC | The European Marine Biological Resource Centre (EMBRC) provides researchers and companies with access to marine organisms and the facilities to study them, including experimental facilities and technological platforms. | Biomedical research |
| eRARE | eRARe is a Research Programmes on Rare Diseases and provides link to European research infrastructures on rare diseases and other related initiatives. | Biomedical research |
| ARLG | The Antibacterial Resistance Leadership Group (ARLG) addresses antibacterial resistance through innovative clinical trial design, unique access to clinically well-characterized bacteria and provides clinical research expertise in antibacterial resistance. | Microbiology research |
| BacDive | The Bacterial Diversity Metadatabase (BacDive) is a database for standardized bacterial information that integrates research data on strain level from diverse sources and make it freely accessible. | Microbiology research |
| CARD | The Comprehensive Antibiotic Resistance Database (CARD) is a bioinformatic database of resistance genes, their products and associated phenotypes. The databse is a rigorously curated collection of characterized peer-reviewed resistance determinants and associated antibiotics. | Microbiology research |
| EATRIS | The European Infrastructure for Translational Medicine (EATRIS) provides access to the vast array of clinical expertise and high-end facilities that are available across Europé to help de-risk and add value to the drug, vaccine or diagnostic development programme. | Biomedical research |
| ELIXIR | European Distributed Infrastructure for life science information (ELIXIR) brings together life science resources from across Europe. These resources include databases, software tools, training materials, cloud storage and supercomputers. | Biomedical research |
| GenEpid-J. | Genomics + Epidemiology (GenEpid-J) is an integrated database of pathogen genomics and epidemiology focused on plasmids involving in the antimicrobial resistance. | Microbiology research |
| MERIL | The Mapping of the European Research Infrasturcture Landscape (MERIL) portal provides access to a database that stores information about openly accessible research infrastructures (RIs) in Europe, across all scientific domains, including the social sciences and humanities. | Biomedical research |
| SBP | The Swiss Biobanking Platform (SBP) is the research infrastructure of national importance supporting human and non-human biobanks. | Microbiology research |
| CABI | CABI Bioscience Services is a leading provider of microbial and molecular services manages a collection of over 30,000 living strains from 142 countries, of which 90% are unique to CABI. It is one of the world's largest Genetic Resource collections and holds the UK's National Collection of Fungus Cultures, which most notably includes Fleming's penicillin-producing isolate. | Microbiology research |
| CORBEL | Coordinated Research Infrastructures Building Enduring Life-science Services (CORBEL) is an initiative of thirteen new biological and medical research infrastructures (BMS RIs), which together will create a platform for harmonised user access to biological and medical technologies, biological samples and data services required by cutting-edge biomedical research. | Biomedical research |
| ECRIN | The European Clinical Research Infrastructure Network (ECRIN) links scientific partners and networks across Europe to facilitate multinational clinical research. They provide sponsors and investigators with advice, management services and tools to overcome hurdles to multinational trials and enhance collaboration. | Biomedical research |
| ERINHA | The European Research Infrastructure on Highly Pathogenic Agents (ERINHA) is a pan-European Research Infrastructure dedicated to the study of High-consequence pathogens of Risk Group 4 (RG4). As a distributed Research infrastructure, it brings together leading European Bio-Safety Level 4 (BSL4) facilities and national research institutes with longstanding experience of research in this field. | Microbiology research |
| ESFRI | The European Strategy Forum on Research Infrastructures (ESFRI) supports a strategy-led approach to policy-making on research infrastructures in Europe, and to facilitate multilateral initiatives leading to the better use and development of research infrastructures. | Biomedical research |
| EU-OPENSCREEN | The European Infrastructure of Open Screening Platforms for Chemical Biology (EU-OPENSCREEN) integrates high-capacity screening platforms throughout Europe, which jointly use a rationally selected compound collection, comprising up to 140.000 commercial and proprietary compounds collected from European chemists. EU-OPENSCREEN offers to researchers from academic institutions, SME's and industrial organisations open access to its shared resources. | Biomedical research |
| Euro-BioImaging | The European Research Infrastructure for Biological Imaging offers open access to imaging technologies, training and data services in biological and biomedical imaging. Euro-BioImaging consists of imaging facilities, called Nodes, that have opened their doors to all life science researchers. | Biomedical research |
| Infrafrontier | The Infrastructure for mouse disease models and phenotype data (Infrafrontier) provides access to mouse models, data, and scientific platforms and services to study the functional role of the genome in human health and disease. | Biomedical research |
| MIRRI | The Microbial Resource Research Infrastructure (MIRRI) hosts more than 50 public biorepositories and research institutes from different European countries on known and yet unknown microbial biodiversity. | Microbiology research |
| SPARK | The Shared Platform for Antibiotic Research and Knowledge (SPARK) is an interactive tool that provides data to help scientists to identify urgently needed new antibiotics. SPARK integrates chemical and biological data from published studies as well as previously unpublished data, and provides an opportunity for real-time collaboration among scientists in industry, academia, government, and the nonprofit sector. | Microbiology research |
| Instruct-ERIC | The Integrated Structural Biology unlocking the Secrets of Life (Instruct)-ERIC provides open access to high-end structural biology services and techniques. | Biomedical research |
