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The international and European literature and institutional contexts are fostering agrobiodiversity as the foundation of a new paradigm for localized agri-food system development and sustainability. Accordingly, new systemic and holistic theoretical approaches and conceptual models are needed. This paper aims to identify and apply a new conceptual framework contributing to the understanding of how the restoring and valorization of underutilized or neglected landraces can act as a trigger for sustainable territorial development. A new holistic model was designed for the characterization and analysis of agrobiodiversity-oriented food systems. We consider the model innovative in enhancing the conceptualization of the adoption of a socio-ecological systems approach. We applied the model to a representative case study involving the localized agri-food system of the Valtiberina Red Onion, a threatened plant landrace cultivated in Tuscany, Italy. A participatory action–research approach was followed, involving both public and private stakeholders. As the main outcome of the paper, we demonstrated the capability of our new SES model by identifying and describing the assets, drivers, human action processes and generated beneficial effects concerning the development and reproduction of landrace-based quality valorization virtuous circles. Our research findings highlighted the model as an innovative tool for the analysis of agrobiodiversity-oriented food systems sustainability. Significantly, the model was designed to identify the combined role of public policy and private action in supporting the implementation of coherent management mechanisms and effective governance settings. Full article