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