Uncovering the population genetic histories of non-model organisms is increasingly possible through advances in next generation sequencing and DNA sampling of museum specimens. This new information can inform conservation of threatened species, particularly those for which historical and contemporary population data are unavailable or challenging to obtain. The critically endangered, nomadic regent honeyeater Anthochaera phrygia was abundant and widespread throughout south-eastern Australia prior to a rapid population decline and range contraction since the 1970s. A current estimated population of 250–400 individuals is distributed sparsely across 600,000 km² from northern Victoria to southern Queensland. Using hybridization RAD (hyRAD) techniques, we obtained a SNP dataset from 64 museum specimens (date 1879–1960), 102 ‘recent’ (1989–2012) and 52 ‘current’ (2015–2016) wild birds sampled throughout the historical and contemporary range. We aimed to estimate population genetic structure, genetic diversity and population size of the regent honeyeater prior to its rapid decline. We then assessed the impact of the decline on recent and current population size, structure and genetic diversity. Museum sampling showed population structure in regent honeyeaters was historically low, which remains the case despite a severe fragmentation of the breeding range. Population decline has led to minimal loss of genetic diversity since the 1980’s. Capacity to quantify the overall magnitude of both genetic diversity loss and population decline was limited by the poorer quality of genomic data derived from museum specimens. A rapid population decline, coupled with the regent honeyeater’s high mobility, means a detectable genomic impact of this decline has not yet manifested. Extinction may occur in this nomadic species before a detectable genomic impact of small population size is realised. We discuss the implications for genetic management of endangered mobile species and enhancing the value of museum specimens in population genomic studies.

Australia, New Zealand, New Guinea, Wallacea, and the islands of the Pacific Ocean collectively possess 42% of the world’s parrot species, including half of all Critically Endangered species. We used comparative methods to review the factors related to extinction risk of 167 extant and 5 extinct parrot species from this region, subsequently referred to as ‘Oceania’. We tested a range of ecological and socio-economic variables as predictors of extinction risk for parrots in the region while controlling for phylogeny. Parrot species were most likely to be threatened if they had small historical ranges, large bodies, or a high dependency on forest, or if they were endemic to a single country, or native to a country with high unemployment. Our analysis identifies invasive species as an especially severe threat to the parrots of Oceania. We present maps of parrot species’ diversity and draw attention to regions of conservation concern. Our comparative analysis presents an important overview of the factors contributing to the decline of parrots in Oceania, and provides a strong basis for comparison with other parts of the world.