De Novo SNP Discovery in the Scandinavian Brown Bear (Ursus arctos)

Information about relatedness between individuals in wild populations is advantageous when studying evolutionary, behavioural and ecological processes. Genomic data can be used to determine relatedness between individuals either when no prior knowledge exists or to confirm suspected relatedness. Here we present a set of 96 SNPs suitable for inferring relatedness for brown bears (Ursus arctos) within Scandinavia. We sequenced reduced representation libraries from nine individuals throughout the geographic range. With consensus reads containing putative SNPs, we applied strict filtering criteria with the aim of finding only high-quality, highly-informative SNPs. We tested 150 putative SNPs of which 96% were validated on a panel of 68 individuals. Ninety-six of the validated SNPs with the highest minor allele frequency were selected. The final SNP panel includes four mitochondrial markers, two monomorphic Y-chromosome sex-determination markers, three X-chromosome SNPs and 87 autosomal SNPs. From our validation sample panel, we identified two previously known parent-offspring dyads with reasonable accuracy. This panel of SNPs is a promising tool for inferring relatedness in the brown bear population in Scandinavia

From Grain to Floodplain: Evaluating heterogeneity of floodplain hydrostatigraphy using sedimentology, geophysics, and remote sensing

Stratigraphy is a fundamental component of floodplain heterogeneity and hydraulic conductivity and connectivity of alluvial aquifers, which affect hydrologic processes such as groundwater flow and hyporheic exchange. Watershed-scale hydrological models commonly simplify the sedimentology and stratigraphy of floodplains, neglecting natural floodplain heterogeneity and anisotropy. This study, conducted in the upper reach of the East River in the East River Basin, Colorado, USA, combines point-, meander-, and floodplain-scale data to determine key features of alluvial aquifers important for estimating hydrologic processes. We compare stratigraphy of two meanders with disparate geometries to explore floodplain heterogeneity and connectivity controls on flow and transport. Meander shape, orientation, and internal stratigraphy affected residence time estimates of laterally exchanged hyporheic water. Although the two meanders share a sediment source, vegetation, and climate, their divergent river migration histories resulted in contrasting meander hydrofacies. In turn, the extent and orientation of these elements controlled the effective hydraulic conductivity and, ultimately, estimates of groundwater transport and hyporheic residence times. Additionally, the meanders’ orientation relative to the valley gradient impacted the hydraulic gradient across the meanders—a key control of groundwater velocity. Lastly, we combine our field data with remotely sensed data and introduce a potential approach to estimate key hydrostratigraphic packages across floodplains. Prospective applications include contaminant transport studies, hyporheic models, and watershed models. © 2019 John Wiley & Sons, Ltd