The development of breeding strategies that link biodiversity and crop production and regulation services is compulsory when it comes to promoting a low-input agriculture (which includes organic farming). In low-input agricultural systems, yield production should rely on the tools provided by the diversity within and between crops, using local resources and including landraces as a source of useful genes and genotypes, to develop new varieties or landraces to evolve as new populations. Low-input systems require decentralized and farmer participatory breeding methods designed to incorporate the "know-how" of farmers and consumer end-user perspective. Similarly, characters that allow the reduction of inputs, such as competitiveness against weeds, resistance to pests and diseases or the efficiency of association with beneficial species such as pollinators will increase in importance. This article describes approaches aimed to improve the implementation of a synergy between production and regulation services provided by the agriculture in the context of low-input systems.