Research Project Database
Code: EMIDA12
1: EMIDA12
Title: PathoFish - Control Flavobacteriaceae infections in European fish farms.
2: PathoFish - Control Flavobacteriaceae infections in European fish farms.
Country: Denmark
Finland
France
Italy
Norway
Switzerland
3: Denmark
Finland
France
Italy
Norway
Switzerland
Funding Organisation: Finnish Ministry of Agriculture and Forestry
French National Research Agency (ANR)
Italian Ministry of Health Department for Veterinary Public Health, Nutrition and Food Safety
The Ministry of Food, Agriculture and Fisheries of Denmark
The Research Council of Norway
4: Finnish Ministry of Agriculture and Forestry
French National Research Agency (ANR)
Italian Ministry of Health Department for Veterinary Public Health, Nutrition and Food Safety
The Ministry of Food, Agriculture and Fisheries of Denmark
The Research Council of Norway
Animal Group: Fish
5: Fish
Pathogen: Flavobacterium spp.
Tenacibaculum spp.
6: Flavobacterium spp.
Tenacibaculum spp.
Disease: Cold water disease (CWD)
Rainbow Trout Fry Syndrome (RTFS)
7: Cold water disease (CWD)
Rainbow Trout Fry Syndrome (RTFS)
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
8: Bacteriology
Development, refinement, and evaluation of control strategies
Molecular epidemiology
9: 21,56,58
Research Organisation: Abo Akademi University
Centre for Fish and Wildlife Health, University of Bern (FIWI)
INRA - Institut National de la Recherche Agronomique
Istituto Zooprofilattico Sperimentale della Venezie
National Veterinary Institute of Norway
PHARMAQ AS
Phylogene
Technical University of Denmark
10: Abo Akademi University
Centre for Fish and Wildlife Health, University of Bern (FIWI)
INRA - Institut National de la Recherche Agronomique
Istituto Zooprofilattico Sperimentale della Venezie
National Veterinary Institute of Norway
PHARMAQ AS
Phylogene
Technical University of Denmark
Number of Research Staff (FTE):  
11:  
Principal Investigator (PI): Dr Eric DUCHAUD, INRA, FRANCE
12: Dr Eric DUCHAUD, INRA, FRANCE
Cost (Euros): 2213193
13: 2213193
End Date (dd/mm/yyyy): 31-12-2013
14: 1388448000
Duration (months): 36
15: 36
Link: https://www6.inra.fr/pathofish/The-Project
16: https://www6.inra.fr/pathofish/The-Project
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.
Exploitation:
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.
17: 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.
Exploitation:
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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