Background and aims – Climatic fluctuations during the Pleistocene altered the distribution of many species and even entire biomes, allowing some species to increase their range while others underwent reductions. Recent and ongoing anthropogenic climate change is altering climatic patterns very rapidly and is likely to impact species’ distributions over shorter timescales than previous natural fluctuations. Therefore, we aimed to understand how Pleistocene and Holocene climatic fluctuations might have shaped the current distribution of Holoregmia and explore its expected distribution under future climate scenarios. Material and methods – We modelled the potential distribution of Holoregmia viscida (Martyniaceae), a monospecific plant genus endemic to the semi-arid Caatinga Domain in Brazil. We used an ensemble approach to model suitable areas for Holoregmia under present conditions, Paleoclimatic scenarios, and global warming scenarios in 2050 and 2090. Key results – Holocene climates in most Caatinga were too humid for Holoregmia, which restricted its suitable areas to the southern Caatinga, similar to its current distribution. However, under global warming scenarios, the Caatinga is expected to become too dry for this lineage, resulting in a steady decline in the area suitable for Holoregmia and even its possible extinction under the most pessimistic scenario modelled. Conclusion – The predicted extinction of the ancient and highly specialized Holoregmia viscida highlights the possible consequences of climate change for some species of endemic Caatinga flora. Invaluable phylogenetic diversity may be lost in the coming decades, representing millions of years of unique evolutionary history and consequent loss of evolutionary potential to adapt to future environmental changes in semi-arid environments.