PumaPlex 1.0: Data generated during the development of the SNP markers and SNP genotypes of pumas

Pumas are one of the most studied terrestrial mammals because of their widespread distribution, substantial ecological impacts, and conflicts with humans. Extensive efforts, often employing genetic methods, are undertaken to manage this species. However, the comparison of population genetic data is difficult because few of the microsatellite loci chosen are shared across research programs. Here, we describe the development of PumaPlex, a high-throughput assay to genotype 25 single nucleotide polymorphisms in pumas. We validated PumaPlex in more than 700 North American pumas (Puma concolor couguar), and demonstrated its ability to generate reproducible genotypes and accurately identify individuals. Furthermore, we compared PumaPlex with traditional genotyping of 12 microsatellite loci in fecal DNA samples and found that PumaPlex produced significantly more genotypes with fewer false alleles. PumaPlex promotes the cross-laboratory comparison of genotypes, is easily expandable in the future, and is a valuable tool for the genetic monitoring and management of North American puma populations.

Upper Cretaceous sediments of ODP Hole 122-762C

Well-developed Campanian to Maestrichtian pelagic cyclic sediments were recovered from Hole 762C on the Exmouth Plateau, off northwest Australia, during Ocean Drilling Program Leg 122. The cycles consist of nannofossil chalk (light beds) and clayey nannofossil chalk (dark beds). Both light and dark beds are strongly to moderately bioturbated, alternate on a decimeter scale, and exhibit gradual boundaries. Bioturbation introduces materials from a bed of one color into an underlying bed of another color, indicating that diagenesis is not responsible for the cyclicity. Differences in composition between the light and dark beds, revealed by calcium carbonate measurement and X-ray diffraction analysis, together with trace fossil evidence, indicate that the cycles in the sediments are a depositional feature. Diagenetic processes may have intensified the appearance of the cycles. Spectral analysis was applied to the upper Campanian to lower Maestrichtian cyclic sediments to examine the regularity of the cycles. Power spectra were calculated from time series using Walsh spectral analysis. The most predominant wavelengths of the color cycles are 34-41 cm and 71-84 cm. With an average sedimentation rate of 1.82 cm/k.y. in this interval, we found the time durations of the cycles to be around 41 k.y. and 21 k.y., respectively, comparable to the obliquity and precession periods of the Earth's rotation, which strongly suggests an orbital origin for the cycles. On the basis of sedimentological evidence and plate tectonic reconstruction, we propose the following mechanism for the formation of the cyclic sediments from Hole 762C. During the Late Cretaceous, when there was no large-scale continental glaciation, the cyclic variations in insolation, in response to cyclic orbital changes, controlled the alternation of two prevailing climates in the area. During the wetter, equable, and warmer climatic phases under high insolation, more clay minerals and other terrestrial materials were produced on land and supplied by higher runoff to a low bioproductivity ocean, and the dark clayey beds were deposited. During the drier and colder climatic phases under low insolation, fewer clay minerals were produced and put into the ocean, where bioproductivity was increased and the light beds were deposited.