Leveraging genomics to understand threats to migratory birds.

Understanding how risk factors affect populations across their annual cycle is a major challenge for conserving migratory birds. For example, disease outbreaks may happen on the breeding grounds, the wintering grounds, or during migration and are expected to accelerate under climate change. The ability to identify the geographic origins of impacted individuals, especially outside of breeding areas, might make it possible to predict demographic trends and inform conservation decision-making. However, such an effort is made more challenging by the degraded state of carcasses and resulting low quality of DNA available. Here, we describe a rapid and low-cost approach for identifying the origins of birds sampled across their annual cycle that is robust even when DNA quality is poor. We illustrate the approach in the common loon (Gavia immer), an iconic migratory aquatic bird that is under increasing threat on both its breeding and wintering areas. Using 300 samples collected from across the breeding range, we develop a panel of 158 single-nucleotide polymorphisms (SNP) loci with divergent allele frequencies across six genetic subpopulations. We use this SNP panel to identify the breeding grounds for 142 live nonbreeding individuals and carcasses. For example, genetic assignment of loons sampled during botulism outbreaks in parts of the Great Lakes provides evidence for the significant role the lakes play as migratory stopover areas for loons that breed across wide swaths of Canada, and highlights the vulnerability of a large segment of the breeding population to botulism outbreaks that are occurring in the Great Lakes with increasing frequency. Our results illustrate that the use of SNP panels to identify breeding origins of carcasses collected during the nonbreeding season can improve our understanding of the population-specific impacts of mortality from disease and anthropogenic stressors, ultimately allowing more effective management.

Mercury and other contaminants in common loons breeding in Atlantic Canada.

Common loons (Gavia immer) were studied to assess the biomagnification of persistent contaminants in lake ecosystems in Atlantic Canada. Forty-two breeding adults and 20 juvenile loons were captured in August, 1995-1997 on lakes in four areas of southern New Brunswick (Lepreau and Fundy National Park) and Nova Scotia (Halifax and Kejimkujik National Park). Blood samples were collected for analysis of mercury, methylmercury, lead, and selenium. Plasma samples from adult loons were analyzed for PCB congeners and organochlorine pesticides. Secondary flight feathers were collected from adult loons for mercury analysis. Kejimkujik loons had significantly higher geometric mean concentrations of mercury in blood (adults: 5.5 microg/g, wet wt) and feathers (adults: 15 microg/g, fresh wt), and higher levels of PCBs, DDE, oxychlordane, trans-nonachlor, mirex and hexachlorobenzene than loons at Halifax or Lepreau. Blood selenium levels were lowest in Kejimkujik loons. Selenium and mercury concentrations were negatively related in blood of adults across all sites. Adult males had higher concentrations of mercury in blood and feathers and PCBs, DDE, and oxychlordane in plasma, and lower levels of selenium in blood, than adult females. Juvenile loons had lower blood mercury and selenium concentrations than adults. Several contaminants showed significant inter-lake variation within the study sites. Mean blood mercury concentrations in Kejimkujik loons are the highest found in breeding common loons across North America. Of adult loons at Kejimkujik, 92% had blood mercury levels > 4 microg/g (wet wt), which have been associated with impaired reproduction, elevated corticosterone levels, asymmetry in plumage development, and altered breeding behavior in loons there and elsewhere.