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Multiple data integration (linked data), the experience from CEROPATH & BiodivHealthSEA projects Serge Morand
C o m A c r o s s K i c k - O f f 3 0 A p r i l – 2 M a y 2 0 1 4 B a n g k o k
Objectives
• Infectious diseases: socio-environmental change, climate change, biodiversity loss
• Southeast Asia – Hot spot of biodiversity (at threat), of cultural
diversity (at threat), climate change (monsoon, ENSO), zoonotic diseases (Ro-Bo)
• Local impacts and perceptions of global change
C o m A c r o s s K i c k - O f f 3 0 A p r i l – 2 M a y 2 0 1 4 B a n g k o k
Biological diversity Cultural diversity Historical diversity Socio-economic diversity
See more at www.ceropath.org
Rodents and rodent-borne diseases : - Biodiversity changes - Rodent-borne diseases - Agricultural pests - Local perception: hunting, health, environment
Project CERoPath 2008-2012 - Tools, database - Trainings
Viruses Hantaviruses (HPS,
HFRS, epidemic nephropathy)
Borna disease Congo-Crimean HF TBE & Powassan Kyasanur Forest Lassa fever LCM Virus Arenaviruses (Junin,
Machupo, etc.) Colorado tick fever Western EE Venezuelan EE Cowpox & monkeypox Hepatitis E
Bacteria Plague Tularemia Leptospirosis Bartonellosis Lyme disease TB-relapsing fever Murine typhus RM spotted fever Scrub typhus Sylvatic Epi typhus Ehrlichiosis Anaplasmosis Rickettsialpox Coxiella Salmonellosis Rat-bite fever Listeriosis
Protozoa Toxoplasmosis Babesiosis Cryptosporidiosis Chagas diseases Leishmaniosis Giardia Trypanosomiasis
Helminths
Echinococcus Schistosomiasis Rodentolepis Trichinosis Toxascariasis Neosporosis Capillariasis
Some Rodent-borne (RoBo) diseases
Micrommals and macroparasites: from evolutionary ecology to management Morand S, Krasnov BR, Poulin R 2006 Springer
Rodents are the most diversified group of mammals
> 4, 000 individuals 22 species of Rattini
Helminths (30 species)
Viruses Hantaviruses, LCMV Arenaviruses Cowpox virus
Prions Bacteria Leptospira Orientia Bartonella
Arthropods Fleas lice, mites ticks
Protists Trypanosoma Cryptosporidium Toxoplasma Babesia
Bandicota savilei
Lesson from CERoPath - Voucher collection - Tissue collection - Data quality, traceability - Open access
• Scale : Local/global • Pluridisciplinar & multi stakeholders : One Health / EcoHealth
• Data base – Texts, documents (laws…) – Socio-economics, – diseases, – biodiversity – Pathogens, parasites – Remote sensing images, – land uses – questionnaires – interviews
S é m i n a i r e A N R C h a n g e m e n t s E n v i r o n n e m e n t a u x 1 9 - 2 0 - 2 1 m a r s 2 0 1 4
Regional networks South East Asia
Human cases
RoBo diseases
Leptospirosis incidence in 200 villages 2003-2012 (Nan Province)
Climate variability and leptospirosis incidence (2000-2010) in Thailand
National
Local
Leptospirosis incidence in Maha Sarakham Province
One Health/Ecohealth studies
The villages
Ban Huay Muang (Nan) Ban Lak Sip (Luang Prabang)
Infection and diversity of helminths/protists
Interviews houses
Individual questionnaires
Analysis-diagnostic of an agrarian system
Interactions between communities and their social and natural
environment
(Belchi 2013)
Participatory cartography
Health care schemes choosed by villagers
Administrative boundaries
Conceptual maps
Land covers
Epidemiological maps
Landscape genetics
Towards mapping of ecosystem services
1. To simplify with no “a priori” NoSQL (Schemaless) database (graph theory)
2. To link internal/external data (interoperability)
“Linked data” Triplestore
3. To easily export data: GIS, R stat
C o m A c r o s s K i c k - O f f 3 0 A p r i l – 2 M a y 2 0 1 4 B a n g k o k
Lesson from CERoPath & BiodivHealthSEA
- Data quality, traceability - Open access - Interoperability (Linked Data) - “Friendly” and no “a priori” (NoSQL)
Questions: - depository - ethics
C o m A c r o s s K i c k - O f f 3 0 A p r i l – 2 M a y 2 0 1 4 B a n g k o k
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