The need to integrate insights from both natural and social sciences, to deal with complex interactions from the global to the local level has been affirmed in different arenas from the Millenium Ecosystem Assessment (2005) to the IPBES (2013). The need for integrative studies seems particularly relevant when it comes to understand the numerous and intertwined relationships between health and the environment. The insights of the local communities for daily local observations or to point sudden changes can be precious both for scientists and policy-makers. In Southeast Asia, hotspot of biodiversity and of emerging infectious diseases, policies having an impact on the environment could have unpredicted effects on the dynamic of zoonotic diseases. Community Health Impact Assessment in Thailand and participatory approaches appear appropriate tools for the elaboration of policies considering the indirect effects on zoonotic diseases.