The classical holism-reductionism debate, which has been of major importance to the development of ecological theory and methodology, is an epistemological patchwork. At any moment, there is a risk of it slipping into an incoherent, chaotic Tower of Babel. Yet philosophy, like the sciences, requires that words and their correlative concepts be used rigorously and univocally. The prevalent use of everyday language in the holism-reductionism issue may give a false impression regarding its underlying clarity and coherence. In reality, the conceptual categories underlying the debate have yet to be accurately defined and consistently used. There is a need to map out a clear conceptual, logical and epistemological framework. To this end, we propose a minimalist epistemological foundation. The issue is easier to grasp if we keep in mind that holism generally represents the ontological background of emergentism, but does not necessarily coincide with it. We therefore speak in very loose terms of the "holism-reductionism" debate, although it would really be better characterised by the terms emergentism and reductionism. The confrontation between these antagonistic paradigms unfolds at various semantic and operational levels. In definitional terms, there is not just emergentism and reductionism, but various kinds of emergentisms and reductionisms.In fact, Ayala (1974; see also Ruse 1988;Mayr 1988;Beckermann et al. 1992;Jones 2000) have proposed a now classic trilogy among various semantic domains -ontology, methodology and epistemology. This trilogy has been used as a kind of epistemological screen to interpret the reductionist field. It is just as meaningful and useful, however, to apply the same trilogy to the emergentist field. By revealing the basic assumptions of each, we should be better able to understand the points that are similar and shared, as well as the incommensurable ones.The first question regarding the emergentism and reductionism debate concerns the type of explanation the sciences are seeking. At present in the sciences -from physics to the human sciences -the ontological and epistemological foundation is essentially naturalistic and materialistic, meaning that all natural (or social) objects, events and processes can be understood without reference to extra-or supernatural (vitalistic or theological) entities,