PhD: Integrated surveillance strategies of highly pathogenic avian influenza viruses H/F H/F
Référence : 2024-1551378
- Fonction publique : Fonction publique de l'État
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Employeur :
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (INRAE)
The French National Research Institute for Agriculture, Food, and Environment (INRAE) - Localisation : INRAE (ENVT campus, Toulouse, France)
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- Nature de l’emploi Emploi ouvert uniquement aux contractuels
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Nature du contrat
CDD de 3 ans
- Expérience souhaitée Non renseigné
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Rémunération (fourchette indicative pour les contractuels) Non renseigné
- Catégorie Catégorie A (cadre)
- Management Non renseigné
- Télétravail possible Non renseigné
Vos missions en quelques mots
PhD project: Integrated surveillance strategies of highly pathogenic avian influenza viruses in complex ecosystems
Highly pathogenic avian influenza (HPAI) viruses are rapidly crossing geographical boundaries, threatening poultry, wildlife and potentially evolving into global pandemics1,2. In South-East Asia, particularly in Cambodia, the ecosystem of live bird markets (LBMs) plays a crucial role in the emergence and spread of novel avian influenza viruses (AIV), increasing the risk of cross-species transmission and amplification within both domestic poultry and wild bird populations. Surveillance studies in Cambodian LBMs have revealed alarming high AIV detection rates in poultry3, often coupled with co-infections with different strains4 and sporadic human cases5. Effective surveillance strategies are imperative to promptly detect and mitigate the spread of these viruses in poultry and prevent human infections. This PhD project aims to generate crucial knowledge to design novel and powerful surveillance strategies to complement existing surveillance systems in the country, contributing to protecting animal and human health. Employing a multidisciplinary approach encompassing field work (interviews of traders about trading and biosecurity practices, bird and environment sampling), lab work (samples testing) and epidemiological analyses (spatial risk modelling, risk factor analysis, latent class modelling), this project aims to address the following specific objectives:
- Investigate anthropogenic, ecological and environmental factors contributing to HPAI infection and delineate high-risk areas for targeted surveillance and control
- Assess biosecurity and trading factors contributing to HPAI infection of poultry within LBMs and identify high-risk LBMs for focused surveillance and control
- Evaluate the effectiveness of sampling strategies in LBMs and determine the most optimized to enhance detection of HPAI viruses
This PhD project is part of the ERC Starting Grant project (No. 101116387) TrackFLU and will be pivotal for further studies in phylodynamics, aiming to understand the emergence, maintenance and transmission factors of HPAI viruses in LBM networks. Joining the ERC team offers a unique opportunity for the PhD student to be part of an innovative and dynamic research environment, collaborating closely with two postdoctoral researchers. The student will receive comprehensive training combining field and lab work, data analysis, setting them up for a successful career in infectious disease research. The project will involve interdisciplinary collaboration with INRAE and Institut Pasteur du Cambodge (IPC), as well as key local stakeholders, including National Animal Health and Production Research Institute (NAPHRI), Wildlife Conservation Society (WCS).
Profil recherché
Academic qualifications and experience
Candidates should hold a postgraduate Master’s degree in epidemiology, ecology, or a related field. Prior experience with epidemiological data and/or statistical modelling would be advantageous. An enthusiasm for field and lab work related to infectious diseases is desirable.
Mobility is required, as the project involves spending time in France and Cambodia. Proficiency
in English writing and willingness to present research work at international conferences are
essential. Proficiency in French is not necessarily required.
Gained skills
The candidate will have a unique opportunity to acquire practical experience in field and labwork, develop analytical skills, and gain proficiency in epidemiology, particularly in the context of animal infectious diseases. Through interdisciplinary collaboration with IPC and INRAE and participation in the ERC Starting Grant project, the student will benefit from a dynamic scientific
environment for their career growth.
For further information, please contact Dr Claire Guinat (claire.guinat@envt.fr).
Niveau d'études minimum requis
- Niveau Niveau 7 Master/diplômes équivalents
Localisation
Éléments de candidature
Personne à contacter
Claire GUINAT
Qui sommes-nous ?
NOTRE AMBITION : AGIR POUR LA VIE, L’HUMAIN, LA TERRE
Premier organisme de recherche spécialisé au monde en agriculture, alimentation et environnement, INRAE est né le 1er janvier 2020 de de la fusion entre l’INRA et IRSTEA. Nous sommes une communauté de travail de 12 000 personnes, avec plus de 200 unités de recherche et une quarantaine d’unités expérimentales implantées dans 18 centres sur toute la France.
Notre Mission ?
Face à l’augmentation de la population, au changement climatique, à la raréfaction des ressources et au déclin de la biodiversité, INRAE construit des solutions pour des agricultures multi-performantes, une alimentation de qualité et une gestion durable des ressources.
Pour répondre à ces grands enjeux mondiaux, nous avons besoin de renfort dans nos équipes. Des métiers de la recherche aux métiers de l’appui, l’INRAE recrute à tout niveau de diplôme (du CAP/BEP à Bac+8) !
Rejoignez une communauté engagée et agissez pour l’intérêt général !
Descriptif du service
Supervisors
Dr Claire Guinat (INRAE, Toulouse, France) primary research focuses on the drivers shaping the transmission dynamics of animal infectious diseases, including avian influenza. She has a strong background in quantitative and phylodynamic approaches.
Dr Mathilde Paul (ENVT, Toulouse, France) focuses on understanding farmers’ behavior and anthropogenic factors influencing the spread of animal infectious diseases, particularly avian influenza. She has extensive experience in epidemiological tools and spatial statistics.
Dr Erik Karlsson (IPC, Phnom Penh, Cambodia) specializes in virology, surveillance, and diagnostics, with a particular emphasis on respiratory viruses, especially avian influenza viruses. His expertise lies in the detection and surveillance of endemic and emerging viruses at high-risk interfaces, especially in LMICs.
À propos de l'offre
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The PhD candidate will be affiliated with the epidesa group, a dynamic international team of
researchers involved in epidemiology and decision-making in animal health, with the Host-
Pathogens Interactions (IHAP) mixed research unit INRAE-ENVT. In the first year of the PhD,
the student will spend 12 months at the Institut Pasteur du Cambodge (IPC) in Cambodia,
engaging in extensive fieldwork. For the remainder of the PhD, the candidate will be mainly
based at the INRAE-ENVT campus (Toulouse, France) to focus on data analysis, with
occasional short missions to Cambodia for research dissemination purposes. -
Vacant à partir du 02/09/2024
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Chercheuse / Chercheur
