Dolines are depressions in karst landscapes that are of high value for conservation, providing habitats and supporting species not found in the surrounding landscape. This is due to their high microhabitat diversity and ability to decouple microclimate from regional climate changes, making them potential refugia for biodiversity. Nevertheless, local anthropogenic disturbances have had considerable impact on the species composition and vegetation structure of many dolines. Here we investigate the conservation value of dolines in three European karst areas, where different levels and types of anthropogenic disturbances have been shaping the vegetation for centuries, using the number of plant species that are cool-adapted, moist-adapted and of high conservation importance (i.e. vulnerable species) as indicators. We found that anthropogenic disturbances generally have a negative impact, reducing the number of vulnerable species supported by dolines. However, more cooladapted and moist-adapted species were found in some dolines planted with non-native Picea abies than in less disturbed dolines, indicating that anthropogenic disturbances can also have positive consequences for biodiversity. We conclude that anthropogenic disturbances alter the capacity of dolines to support vulnerable species, and that this will impact survival of species in landscapes under global warming. In this context, the effects of various disturbances on species composition and diversity need to carefully considered to determine the best conservation and/or management options.