Researcher (M/F) in Barcoding/Metabarcoding of Emerging Aquatic Pathogens – CRBE Toulouse
New
- Researcher in FTC
- 24 mounth
- Doctorate
This offer is available in English version
This offer is open to people with a document recognizing their status as a disabled worker.
Offer at a glance
The Unit
Centre de Recherche sur la Biodiversité et l'Environnement
Contract Type
Researcher in FTC
Working hHours
Full Time
Workplace
31062 TOULOUSE
Contract Duration
24 mounth
Date of Hire
02/05/2026
Remuneration
between 3041€ and 3467€ per month
Apply Application Deadline : 03 April 2026 23:59
Job Description
Missions
The selected candidate will play a central role in the AQUAPAT project. This project aims to develop operational tools based on new molecular technologies to enable simultaneous and accurate monitoring of pathogens and their competent hosts. It also includes the production of high-resolution maps identifying critical areas where local environmental conditions favor pathogen emergence. By adopting a proactive and holistic approach, the project seeks to improve the surveillance, diagnosis, and management of infectious diseases, providing concrete and effective solutions to address the challenges posed by pathogens in aquatic ecosystems.
The project is structured around two main components:
i) Development of new tools based on eDNA and dPCR to improve the monitoring of freshwater pathogens
ii) Study of the emerging pathogen Tetracapsuloides bryosalmonae, the causative agent of PKD, including the development of molecular markers and the use of metabarcoding to characterize the bryozoan host species complex
Within this project, the recruited researcher will use molecular resources and develop bioinformatics tools to describe the taxonomic diversity of pathogen communities. In addition, using metabarcoding approaches based on environmental DNA (eDNA) samples, the work will aim to characterize the diversity of communities of the definitive host of the PKD pathogen, namely bryozoans.
Collaborations will be established with several local stakeholders involved in the project, including OFB, the Fishing Federation, UFBAG, the Adour-Garonne Water Agency, CEN, PNP, SHF, ASPS, FNE, and ANSES.
Activity
- Molecular method development (eDNA/eRNA dPCR, metabarcoding)
- Bioinformatics analyses
- Environmental data synthesis
- Statistical analysis of data
- Fieldwork participation (eDNA/eRNA sampling)
- Scientific writing and communication
- Supervision of interns
Your Profil
Skills
Strong skills in dPCR, primer design, multiplexing, metabarcoding, and bioinformatics.
Prior knowledge of pathogen community structure in aquatic environments and environmental DNA (eDNA) is required. More generally, we are looking for an open-minded candidate with an interest in the ecology and evolution of emerging pathogens.
Your Work Environment
The recruited candidate will be based at the Centre de Recherche sur la Biodiversité et l'Environnement (CRBE) in Toulouse, located on the Université de Toulouse – Paul Sabatier campus.
Compensation and benefits
Compensation
between 3041€ and 3467€ per month
Annual leave and RTT
44 jours
Remote Working practice and compensation
Pratique et indemnisation du TT
Transport
Prise en charge à 75% du coût et forfait mobilité durable jusqu’à 300€
About the offer
| Offer reference | UMR5300-GERLOO-006 |
|---|---|
| CN Section(s) / Research Area | Biodiversity, evolution and biological adaptations: from macromolecules to communities |
About the CNRS
The CNRS is a major player in fundamental research on a global scale. The CNRS is the only French organization active in all scientific fields. Its unique position as a multi-specialist allows it to bring together different disciplines to address the most important challenges of the contemporary world, in connection with the actors of change.
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