Livestock conservation is changing rapidly in light of policy developments, climate change and diversifying market demands. The last decade has seen a step change in technology and analytical approaches available to define and manage Farm Animal Genetic Resources (FAnGR). However, these rapid changes pose challenges for FAnGR management in terms of technological continuity, analytical capacity and integrative methodologies. Indeed, high-throughput single-nucleotide polymorphism genotyping is available for all major farm animal species and beyond the technological challenge to deal with these large molecular datasets, their integration with geo-environmental and socio-economic information is key to making sense of the data in practical conditions.