It may be possible to avert threatened species declines by protecting refuges that promote species persistence during times of stress. To do this, we need to know where refuges are located, and when and which management actions are required to preserve, enhance or replicate them. Here we use a niche-based perspective to characterise refuges that are either fixed or shifting in location over ecological time scales (hours to centuries). We synthesise current knowledge of the role of fixed and shifting refuges, using threatened species examples where possible, and examine their relationships with stressors including drought, fire, introduced species, disease, and their interactions. Refuges often provide greater cover, water, food availability or protection from predators than other areas within the same landscapes. In many cases, landscape features provide refuge, but refuges can also arise through dynamic and shifting species interactions (e.g., mesopredator suppression). Elucidating the mechanisms by which species benefit from refuges can help guide the creation of new or artificial refuges. Importantly, we also need to recognise when refuges alone are insufficient to halt the decline of species, and where more intensive conservation intervention may be required. We argue that understanding the role of ecological refuges is an important part of strategies to stem further global biodiversity loss.