Characterization of 18 SNP markers for sperm whale (Physeter macrocephalus)

We report the characterization of 18 new single nucleotide polymorphism (SNP) markers for an endangered species, the sperm whale (Physeter macrocephalus), developed using a targeted gene approach. SNP markers were derived from autosomal regions of the genome using primers originally characterized for genome mapping in other mammals. These SNP markers are the first to be designed for genotyping sperm whale populations and will provide a necessary addition to the genetic tools employed for understanding population structure on a global scale and for developing a conservation management strategy for this endangered species.     

Comparative mitochondrial and nuclear quantitative PCR of historical marine mammal tissue,bone, baleen,and tooth samples

The use of historical and ancient tissue samples for genetic analysis is increasing, with ever greater numbers of samples proving to contain sufficient mitochondrial and even nuclear DNA for multilocus analysis. DNA yield, however, remains highly variable and largely unpredictable based solely on sample morphology or age. Quantification of DNA from historical and degraded samples can greatly improve efficiency of screening DNA extracts prior to attempting sequencing or genotyping, but requires sequence‐specific quantitative polymerase chain reaction (qPCR) based assays to detect such minute quantities of degraded DNA. We present two qPCR assays for marine mammal DNA quantification, and results from analysis of DNA extracted from preserved soft tissues, bone, baleen, and tooth from several cetacean species. These two assays have been shown to amplify DNA from 26 marine mammal species representing 12 families of pinnipeds and cetaceans. Our results indicate that different tissues retain different ratios of mitochondrial to nuclear DNA, and may be more or less suitable for analysis of nuclear loci. Specifically, historical bone and tooth samples average 60‐fold higher ratio of mitochondrial DNA to nuclear DNA than preserved fresh soft tissue, and the ratio is almost 8000‐fold higher in baleen.     

Unsuitability of introduced tiles for sampling blackfly larvae (Diptera: Simuliidae)*

SUMMARY. 1. Blackfly larvae were collected from twenty-one stations in five lake outlets in Southern Quebec. Tiles (total area=500cm²) were introduced in early March, and collected 4 weeks later: randomly selected rocks (30–500cm) from the surrounding area were collected at the same time. 2. Larval densities on tiles were significantly less variable than on rocks. The variance of density estimates on tiles averaged 36% of the observed variance on natural rocks, or 67% when variance on rocks was corrected for average rock size. 3. Tiles significantly overestimated densities on rocks in some streams, and significantly underestimated them in others. These differences could not be explained by microhabitat differences (distance from the lake, depth, current velocity) between rock and tile samples. The bias that tiles introduce in density estimates precludes their use in comparisons among sites.