Research Project Database
Code: EMIDA12
Title: PathoFish - Control Flavobacteriaceae infections in European fish farms.
Country: Finland
Funding Organisation: French National Research Agency (ANR)
The Ministry of Food, Agriculture and Fisheries of Denmark
Finnish Ministry of Agriculture and Forestry
The Research Council of Norway
Italian Ministry of Health Department for Veterinary Public Health, Nutrition and Food Safety
Animal Group: Fish
Pathogen: Flavobacterium spp.
Tenacibaculum spp.
Disease: Rainbow Trout Fry Syndrome (RTFS)
Cold water disease (CWD)
Category: Epidemiology, Risk and Decision Support > Development, refinement, and evaluation of control strategies
Infection, immunity and biotechnology > Fundamental/basic and Applied studies, including molecular, cellular, pathogen population dynamics and ecology > Bacteriology
Infection, immunity and biotechnology > Fundamental/basic and Applied studies, including molecular, cellular, pathogen population dynamics and ecology > Molecular epidemiology
Research Organisation: Technical University of Denmark
Abo Akademi University
INRA - Institut National de la Recherche Agronomique
National Veterinary Institute of Norway
Istituto Zooprofilattico Sperimentale della Venezie
Centre for Fish and Wildlife Health, University of Bern (FIWI)
Number of Research Staff (FTE):  
Principal Investigator (PI): Dr Eric DUCHAUD, INRA, FRANCE
Cost (Euros): 2213193
End Date (dd/mm/yyyy): 31-12-2013
Duration (months): 36
Project objectives and deliverables with estimated delivery dates for each deliverable (if possible): Project aims:
To improve the control of Fp and Tm infections, data at both the epidemiological and molecular levels are urgently needed. This project aims at filling this scientific gap and immediately investing the acquired knowledge to provide the fish-farming community with new tools for diagnostic and prophylactic methods.
Expected results:
- A unified multi-locus sequence typing (MLST) scheme to characterize at the molecular level the relationships between large numbers of bacterial isolates of the most diverse origins possible;
- Whole genome sequence data to characterize the gene repertoire of selected strains focusing on virulence mechanisms and host-pathogen interactions. A set of genes/proteins relevant for the development of diagnostic tools and vaccines will then be selected.
The amount of genomic sequences generated in this project is estimated to about 110 Mbp of high-quality sequences (i.e., 5 to 10 Mbp for the genotyping of 1,000 isolates through MLST and 100 Mbp for the whole-genome sequencing of 32 isolates). These sequences will be deposited in the EMBL Nucleotide Sequence Database (also known as EMBL-Bank) that constitutes Europe's primary nucleotide sequence resource and made freely available to the scientific community.
This knowledge will serve:
- To understand the population structure and the epidemiology of Fp and Tm (persistance in the environment, dissemination through the global trade of fish and fish eggs, impact of vertical transmission, role of broodstocks as bacterial reservoirs, etc.) allowing risk assessment to prevent the propagation of epidemic clones with aggressive phenotypes;
- To develop sensitive, fast and specific diagnostic tests to identify Fp and Tm in fish (screening of broodstocks, eggs, ovarian fluid, etc.) and in the environment (biofilms, water and fish facilities);
- To identify one or several vaccine candidates that will be evaluated in the field.
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