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Site: La Bouloie (office -112M) Besançon

Research interests

My research focuses on wildlife ecology and ecosystem health [1]. It aims at understanding how and on which scales, the spatial structure of ecological systems determines the population dynamics of small mammals, their predators, their pathogens and toxicants, and their impacts on socio-ecosystems. Since 2012, they expand to other types of wildlife – human conflicts: snub-nosed monkeys and wild Asian elephants in China.

It explores the consequences of land use changes: agricultural and pastoral practices, deforestation, reforestation, etc.. Questions are based on the conceptual framework of landscape ecology and on the multi-scale analysis of the disturbances of regional ecosystems, with implications in agriculture, health and conservation. They take place at the interface between several disciplines: ecology and health sciences, ecology and agronomy, ecology and ecotoxicology, ecology and conservation biology, etc..

My research is grounded on empirical field studies and mobilises networks of professionals in agriculture, conservation and health. It integrates methods of epidemiology and of population ecology, in a systems approach, in order to understand population interactions, wildlife - humans conflicts, and the processes by which pathogen organisms and chemical toxicants are transmitted/transferred at various spatial and temporal scales. It focuses on long term monitoring of wildlife and pathogen population dynamics at regional scale (e.g. > 10000 km2). Advanced methods of statistical and spatial modelling are combined with remote sensing, GIS and molecular genetics in order to characterize host and pathogen populations.

My study fields are mostly in mountainous areas of Europe (Jura, Alps), of Central Asia ([loess plateaus in south Gansu and Ningxia, Tibetan plateau, Tian Shan, Pamir, etc.) and of south-western China (Three parallel rivers, Yunnan). I have also collaborative works on the high plateaus of northern Mexico, in Indonesia (Sumatra, Bali) and in Africa.

Professional curriculum


  • Professor of ecology at the University of Franche-Comté since 1998, emeritus from the 1st of november 2019 onwards.

  • 50% delegation at the CNRS 2017-2019

Associate-professor at the University of Burgundy from 1992 to 1998, biology-geology teacher in high schools and educational colleges in France (1980-1991) and Niger (1977-1979).

Founder and coordinator of the CNRS-INEE International Research Network (GDRI) "Ecosystem health and environmental disease ecology", since 2013; Co-founder and coordinator of the Long term socio-ecological research (LTSER) site "Jurassian Arc" 2013-2016 ; Co-founder and vice-head of the research department Chrono-environment (UMR UFC/CNRS 6249) 2008-2011 ; Head of the Department of Environmental Biology EA3184 usc INRA 2004-2007; Vice-head 2000-2003 ; Co-founder and coordinator of the Master of Science "Ecosystems, contaminants, health" (ECoS) 2004-2014; Co-founder and vice-coordinator of the Master of Science "Environment, health and society", 2000-2003; Member of the board of the WHO Collaborating center for the Prevention and treatment of human echinococoses since 1995 (year of first designation).

Course design, lectures and practical training in population biology, community ecology, landscape ecology, eco-epidemiology, data mining and analysis, bio and geo-statistics and modelling based on modern statistics with R, GRASS-QGIS, etc. at undergraduate and postgraduate levels.

Research funding:
Principal Investigator or co-PI: from the European Union in 1998-2001, 1998, 1997, 1996-98, 1998-2001, 2001-2003; from the French-Chinese Programme of Advanced Research (Agency of the Ministry of Foreign Affairs) in 1995, 1997; from the Research agency of the Ministry of Environment in 1996-98, 1993-97; from the Regional Council of Franche-Comté and the Ministry of Environment (1992-1996, 1997-98, 2000-2006), from the US National Institutes of Health – Fogarty Institute (2001-2005, 2005-2008); from the French-Algerian programme TASSILI (2004-2007); from the Ministry of Agriculture and Fisheries since 2008. Partner of research programmes of the French Environment and Energy Management Agency (ADEME), the French National Research Agency (ANR) 2009-2013, the Japanese society for the promotion of science 2009-2013; 2011-2014, Co-App: Welcome Trust grant "Multi-species transmission of Echinococcus in Central Asia and on the Tibetan Plateau"; 2014-2019 from a consortium including the FREDON/Ministry of Agriculture and the Region of Franche-Comté "Determinants of the decline phase of cyclic Arvicola terrestris populations". 2016, Yunnan Province supported programme about wild elephant - human conflicts; 2018-2020, UTIQUE programme: MEGAPOP ‒ Spatial simulation of rodent mega-populations for assessing their impact in Tunisia and in France.

International consultancy:
in Algeria (ecology: Badji Mokhtar University, Annaba), 1989-1993 & 2003-2010;Japan (eco-epidemiology in Sichuan, China and in Bali, Indonesia: Asahikawa Medical College) and Indonesia (landscape ecology: CIRAD - SMART Research Institute) 2007-2015; in Mexico (landscape ecology: University of Guadalajara & Centro de Investigación Científica y de Educación Superior de Ensenada) since 2008 (see also last mission here); member of the Echinococcus expert group of the DISCONTOOLS project, FP7 EU, since 2011; 2011-2015 project CHOLTIC: "Cholera outbreaks at lake Tanganyika induced by climate change?", Royal Museum of Central Africa, Belgium; in Ningxia, China 2011-2013, "Does environmental changes drive the spatiotemporal transmission dynamics of Echinococcus spp.?" (grant APP1009539 of the Australian National Health and Medical Research Council). University of Kinshasa, Master ECOM-ALGER since 2013.

Referee for Alauda, Acta Oecologica, Acta Theriologica, Acta tropica, Agriculture ecosystems & environment, Annals of Tropical Medecine and Parasitology, Biological letters, Biological Reviews, BMC Public Health, Chemosphere, Conservation Biology, Emerging infectious diseases, European Journal of Wildlife Research, Folia Primatologica, Folia Zoologica, Helminthologia, Integrative Zoology, International Journal for Parasitology, Journal of Mammalogy, Landscape Ecology, Mammalia, Parasite, Parasite & vectors, Parasitology, Pathogens and Global Health, Pest Management Science, PLoS NTD, PLoS One, PLOS Pathogens, Population Ecology, Transactions of the Royal Society for Tropical Medicine and Hygien, Trends in Parasitology, Revue d’écologie - Terre et Vie, Vector-Borne and Zoonotic Diseases, Zoonoses and Public Health, etc.; Editorial board of Parasite and Zoological research


For a full list access researchID/WoS or ResearchGate)

I signed the #ScientistsWarningtoHumanity

Article selection of the last three years


Craig PS, Giraudoux P, Wang ZH, Wang Q 2019. Echinococcosis transmission on the Tibetan Plateau. Advances in parasitology, Epub ahead of print.

Marston C, Giraudoux P 2019 On the synergistic use of optical and SAR time-series satellite data for small mammal disease host mapping. Remote Sensing 11(1), 39. Available here.

Zhang Y., Clauzel C, Li J, Xue YD, Zhang YG, Wu GS, Giraudoux P, Li L, Li DQ, 2019. Identifying refugia and corridors under climate change conditions for the Sichuan snub-nosed monkey (Rhinopithecus roxellana) in Hubei Province, China. Ecology and Evolution, 9 (4): 1680-1690 Available here.

Fernandez-de-Simon J, Coeurdassier M, Couval G, Fourel I, Giraudoux P 2019 Do bromadiolone treatments to control grassland water voles (Arvicola scherman) affect small mustelid abundance? Pest Management Science. 75 (4): 900-907. Available here.


Giraudoux P., Lebreton J.D. 2018 La notion de santé des écosystèmes, ou ‘Zombies écologiques : comment des idées mortes vivent encore parmi nous’. Regards et débats sur la biodiversité. Société française d’écologie et d’évolution. Available here

Marilleau N, Lang C, Giraudoux P. 2018 Coupling agent-based with equation-based models to study spatially explicit megapopulation dynamics. Ecological Modelling. 384: 34-42. Available here.

Knapp J, Giraudoux P, Combes B, Umhang G, Boué F, Said-Ali Z, Aknouchea S, Garciaa C, Vacheyrou M, Laboissière A, Raton V, Comte S, Favier S, Demersone JM, Caillote C, Millon L, Raoul F 2018. Rural and urban distribution of wild and domestic carnivore stools in the context of Echinococcus multilocularis environmental exposure. International Journal for Parasitology. Available here.

Wang X, Liu JY, Zuo QQ, Mu ZQ, Weng XD, Sun XH, Wang JY, Boufana B, Craig PS, Giraudoux P, Raoul P, Wang ZH 2018 Echinococcus multilocularis and Echinococcus shiquicus in the small mammal community on the eastern Tibetan plateau: host species composition, molecular prevalence, and epidemiological implications. Parasite and Vectors. 11:302 Available here

Fu R, Li L, Yu ZH, Afonso E, Giraudoux P 2018. Spatial and temporal distribution of Yunnan snub-nosed monkey, Rhinopithecus bieti, indices. Mammalia. 83 (2) Available here and Science Discoveries presentation here

Destoumieux-Garzón D, Mavingui P, Boetch G, Boissier J, Darriet F, Duboz P, Fritsch C, Giraudoux P, Le Roux F, Morand S, Paillard C, Pontier D, Sueur C, Voituron Y 2018 The One Health concept: 10 years old and a long road ahead. Frontiers in Veterinary Sciences. Epub. See also...

Coeurdassier, M., Fritsch, C., Jacquot, M., Van Den Brink, N., Giraudoux, P., 2018. Spatial Dimensions of the Risks of Rodenticide Use to Non-target Small Mammals and Applications in Spatially Explicit Risk Modeling, in Anticoagulant Rodenticides and Wildlife. Springer.


Vuitton, D., Zhang, W. and Giraudoux, P. 2017. Echinococcus spp. In: J.B. Rose and B. Jiménez-Cisneros, (eds) Global Water Pathogens Project. (Robertson, L (eds) Part 4 Helminths) Michigan State University, E. Lansing, MI, UNESCO.

Comte S, Umhang G, Raton V, Raoul F, Giraudoux P, Combes B, Boué F 2017. Echinococcus multilocularis management by fox culling: an inappropriate paradigm. Preventive Veterinary Medicine. 147:178-185.

Fritsch, C., Coeurdassier, M., Giraudoux, P., Raoul, F., Scheifler, R., 2017. Vertébrés terrestres et écotoxicologie du paysage. in Ecotoxicologie, des communautés au fonctionnement des écosystèmes. ISTE Editions , Paris.

Villette P, Afonso E, Couval G, Levret A, Galan G, Tatard C, Cosson JF, Giraudoux P 2017 Consequences of organ choice in describing bacterial assemblages in a rodent population. Epidemiology and Infection. 145 (14): 3070-3075.

Bessou, C., Verwilghen, A., Beaudoin-Ollivier, L., Marichal, R., Ollivier, J., Baron, V., Bonneau, X., Carron, M.-P., Snoeck, D., Naim, M., Ketuk Aryawan, A.A., Raoul, F., Giraudoux, P., Surya, E., Sihombing, E., Caliman, J.-P., 2017. Agroecological practices in oil palm plantations: examples from the field. OCL Epub available here.

Li WW, Clauzel C, Dai YC, Wu GS, Giraudoux P, Li L 2017 Improving landscape connectivity for the Yunnan snub-nosed monkey through cropland reforestation using graph theory. Journal for Nature Conservation. 38, 46–55. Available here.

Wu, C., Zhang, W., Ran, B., Fan, H., Wang, H., Guo, B., Zhou, C., Shao, Y., Zhang, W., Giraudoux, P., Knapp, J., Wen, H., Kuang, L., Li, J., 2017. Genetic variation of mitochondrial genes among Echinococcus multilocularis isolates collected in western China. Parasites & Vectors 10, 265. Available here.

Giraudoux P, Couval G, Levret A, Mougin D, Delavelle A 2017 Suivi à long terme d’une zone de pullulation cyclique de campagnols terrestres : le contrôle raisonné des populations est possible ! Fourrages, 230: 169-176.

Giraudoux P. Couval G, Coeurdassier M, Villette P 2017 Agriculture et campagnols : quels impacts sur les écosystèmes franguignons ? Bourgogne-Nature, 25: 253-261.

Shenbrot G, Bannikova A, Giraudoux P, Quéré JP, Raoul F, Lebedev V. 2017 A new recent genus and species of three-toed jerboas (Rodentia: Dipodinae) from China: Alive fossil? Journal of Zoological Systematics and Evolutionary Research. 55 (4): 356–368.

Romig T, Deplazes P, Jenkins D, Giraudoux P, Massolo A, Craig PS, Wassermann M, Takahashi K, de la Rue M 2017 Ecology and Life Cycle Patterns of Echinococcus Species, Advances in Parasitology. Academic Press. Available on line.

Afonso E, Goydadin AC, Giraudoux P, Farny G 2017 Investigating hybridization between the two sibling bat species Myotis myotis and M. blythii from guano in a natural mixed maternity colony. PLOS One. 2017 Feb 15;12(2):e0170534. Available here.

Prat-Mairet Y, Fourel I, Barrat J, Sage M, Giraudoux P, Coeurdassier M 2017. Non-invasive monitoring of Red fox exposure to rodenticides from scats. Ecological Indicators, 72: 777–783. Available here


Frossard, V., Verneaux, V., Giraudoux, P., 2016. Quantitative assessment of the reliability of chironomid remains in paleoecology: effects of count density and sample size. Journal of Paleolimnology, 1-8. Epub, ahead of print.

Umhang G, Comte S, Hormaz V, Boucher JM, Raton V, Favier S, Raoul F, Giraudoux P, Combes B, Boué F 2016 Retrospective analyses of fox feces by real-time PCR to identify new endemic areas of Echinococcus multilocularis in France. Parasitology Research, 115,(11): 4437-4441.

Swastika K, Dharmawan NS, Suardita IK, Kepeng IN, Wandra T, Sako Y, Okamoto M, Yanagida T, Sasaki M, Giraudoux P, Nakao M. Yoshida T, Eka Diarthini LP, Sudarmaja IM, Purba IE, Budke CM, Ito A, 2016. Swine cysticercosis in the Karangasem district of Bali, Indonesia: an evaluation of serological screening methods. Acta Tropica, 163: 46–53

Afonso E, Tournant P, Foltete JC, Giraudoux P, Baurand PM, Roue S, Canella V, Vey D, Scheifler R 2016 Is the lesser horseshoe bat (Rhinolophus hipposideros) exposed to causes that may have contributed to its decline? A non-invasive approach. Global Ecology and Conservation. 8: 123–137. Available here.

Foltête JC, Couval G, Fontanier M, Vuidel G, Giraudoux P 2016 A graph-based approach to support agro-ecological systems against water vole outbreaks. Ecological Indicators, 71: 87–98. Available here.

Wang, Q., Yu, W.-J., Zhong, B., Shang, J.-Y., Huang, L., Mastin, A., Renqingpengcuo, Huang, Y., Zhang, G.-J., He, W., Giraudoux, P., Wu, W.-P., Craig, P.S., 2016. Seasonal pattern of Echinococcus re-infection in owned dogs in Tibetan communities of Sichuan, China and its implications for control. Infectious Diseases of Poverty 5, 1-8.
Available here

Baudrot V, Perasso A, Fritsch C, Giraudoux P, Raoul F 2016 The adaptation of generalist predators’ diet in a multi-prey context: insights from new functional responses. Ecology, 97: 1832–1841. Available here

Marston C.G., Giraudoux P., Danson F.M., Armitage R.P., Reynolds S.C., Wang Q. Qiu J., Craig P.S. 2016 Vegetation phenology and habitat discrimination: impacts for E.multilocularis transmission host modelling. Remote Sensing of Environment. 176 (2016) 320–327. Available here.

Cadavid Restrepo A.M., Yang Y.R., McManus D.P., Gray D.J., Giraudoux P., Barnes T.S., Williams G.M., Soares Magalhães R.J., Hamm N.A.S., Clements A.C.A. 2016 The Landscape Epidemiology of Echinococcoses. Infectious disease of powerty. 5 (1), pp.13. Available here

Mellink E, Riojas-Lopez M, Giraudoux P 2016 A Neglected Opportunity for Bird Conservation: the Value of a Perennial, Semiarid Agroecosystem in the Llanos de Ojuelos, Central Mexico. Journal of Arid Environments, 124: 1-9. Available here.

Importing POI or waypoints in a navigation system on smartphone: road side counts are often made along road segments, whose tops are georeferenced, but to navigate from one segment end to the beginning of the other needs navigation on road. Some GPS can easily import waypoints but do not permit road navigation, and those who permit navigation generally do not permit waypoints importation (Waze, Mappy, ViaMichelin, etc.) except some sharewares. You’ll find in the pdf below a workaround based on combining two Google sofwares [2], My Maps and Maps, on a smartphone.

Download the pdf "Road-side counts and navigation"

Dealing with Chinese characters in Quantum GIS and importing/exporting Excel/text files with Chinese characters in R on Western MS Windows platform

Download the pdf "Dealing with Chinese characters in R"

Sustainable control of grassland small mammals

Internship application (training through research)

Applications (from the license/bachelor level and above) will be evaluated on the following criteria, to be justified in the application:

Knowledge, know-how:
- Specific knowledge proven in scientific ecology: marks of the current year, marks and mentions of previous years, personal commitments outside university (e.g. associations, jobs, etc.), special knowledge of a taxonomic group, an ecosystem,...
- quality of the professional project justifying the application
- skills and motivations in numerical ecology (R) and GIS (QGIS)
- fluency in reading and writing English
- good writing skill and ability to carry out an international bibliography

- motivation, dynamism, enthusiasm, be innovative
- rigor, perseverance, autonomy
- anticipation, rigor in the management of time
- openness, relational qualities
- ability to work in a team and in the field, punctuality, respect for others and their time
- scientific and technical curiosity, ability to evolve and learn

[1EcoHealth is a domain of science committed to fostering the health of humans, animals and ecosystems and to conducting research which recognizes the inextricable linkages between the health of all species and their environments. A basic tenet held is that health and wellbeing cannot be sustained in a resource depleted, polluted and socially unstable planet. This is why EcoHealth scholars and practitioners engage in integrated systemic approaches to health that sustain ecosystem health services, foster social stability and promote the peaceful interdependence, coexistence and evolution of humans, animals, plants and their environments.

[2I would have prefered to provide a workaround based on a system that is not based on personal information trafficking, but did not find one relevant yet. Usual awareness about the use of private/personal infos by GAFAM and similar companies must be considered