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Reconstruction of historical relationships between geographic regions within a species' range can indicate dispersal patterns and help predict future responses to shifts in climate. Ascaphus truei (coastal tailed frog) is an indicator species of the health of forests and perennial streams in the Coastal and Cascade Mountains of the Pacific Northwest of North America. We used two genetic techniques—microsatellite and genotype‐by‐sequencing (GBS)—to compare the within‐region genetic diversity of populations near the northern extent of the species' range (British Columbia, Canada) to two geographic regions in British Columbia and two in Washington, USA, moving toward the core of the range. Allelic richness and heterozygosity declined substantially as latitude increased. The northernmost region had the lowest mean expected heterozygosities for both techniques (microsatellite, M = 0.20, SE = 0.080; GBS, M = 0.025, SE = 0.0010) and the southernmost region had the highest (microsatellite, M = 0.88, SE = 0.054; GBS, M = 0.20, SE = 0.0029). The northernmost regions (NC and MC) clustered together in population structure models for both genetic techniques. Our discovery of reduced diversity may have important conservation and management implications for population connectivity and the response of A. truei to climate change. [ABSTRACT FROM AUTHOR]

Complex environmental factors influence the distribution of species within lotic systems. This is especially apparent for amphibian species that have a multi-year larval stage. Pre-metamorphic Coastal Tailed Frogs (Ascaphus truei) are found in fast-flowing headwater streams for up to four years. Although there is considerable opportunity for the spatial redistribution of larval frogs, there is relatively little known of the habitat ecology of the various growth stages. We compared the abundance of larvae near the northern extent of the species range to a collection of environmental factors hypothesized to influence population density. We also assessed spatial segregation at various developmental stages where relatively short summers and cool climates result in a long residence for larvae. The top ranked model for larvae abundance included covariates representing the wetted width and wetted depth of the stream. Capture rates decreased in a nonlinear fashion as wetted width increased, and rates increased in streams wider than 6 m. Capture rates nonlinearly increased when stream depth exceeded 20 cm. Older larvae were associated with greater slopes than younger larvae. Our results suggest little evidence for a relationship between elevation and cohort distribution. We recommend considering micro-scale influences on the presence and movement patterns of Coastal Tailed Frog larvae within streams. [ABSTRACT FROM AUTHOR]

The mountain pine beetle, Dendroctonus ponderosae (Coleoptera: Curculionidae) is a major forest pest of pines in western North America. Beetles typically undergo a one-year life cycle with larval cold hardening in preparation for overwintering. Two-year life cycle beetles have been observed but not closely studied. This study tracks cold-hardening and preparation for overwintering by adult mountain pine beetles in their natal galleries. Adults were collected in situ between September and December 2016 for a total of nine time points during 91 days. Concentrations of 41 metabolites in these pooled samples were assessed using quantitative nuclear magnetic resonance (NMR). Levels of glycerol and proline increased significantly with lowering temperature during the autumn. Newly eclosed mountain pine beetles appear to prepare for winter by generating the same cold-tolerance compounds found in other insect larvae including mountain pine beetle, but high on-site mortality suggested that two-year life cycle adults have a less efficacious acclimation process. This is the first documentation of cold acclimation metabolite production in overwintering new adult beetles and is evidence of physiological plasticity that would allow evolution by natural selection of alternate life cycles (shortened or lengthened) under a changing climate or during expansion into new geoclimatic areas. [ABSTRACT FROM AUTHOR]

When the reproductive value of sons vs. daughters differs, sex allocation theory predicts females should bias the sex ratio of their broods towards the higher-value sex. Females in numerous bird species appear to bias offspring sex in response to self and mate condition, and breeding habitat quality. Over three breeding seasons, we monitored mountain chickadees breeding along a rural to urban habitat gradient. We did not find female condition or the condition of the putative father or true genetic father to influence offspring sex. We found marginal evidence for sex allocation in relation to habitat urbanization, though opposite to our predictions. In urban habitat, offspring were more likely to be female as the degree of habitat urbanization increased. We suggest habitat quality may be influential in mountain chickadee reproductive decisions; however, the ecology of mountain chickadees may not fulfill the assumptions of sex allocation theory. [ABSTRACT FROM AUTHOR]

Inferences made from molecular data support regional stock assessment goals by providing insights into the genetic population dynamics of enigmatic species. Population genomics metrics, such as genetic diversity and population connectivity, serve as useful proxies for species health and stability. Sleeper sharks (genus Somniosus) are ecologically important deep-sea predators, estimated to reach ages of 250 to 300 yr and taking decades to reach sexual maturity. The subgenus Somniosus (Somniosus) is comprised of 3 species: S. pacificus , S. microcephalus , and S. antarcticus. Given the life history strategy of somniosids, they are vulnerable to overfishing and population declines. Further, data to assess the stocks of these species are limited. To address this deficiency, we used the reduced representation library method Restriction-site Associated DNA sequencing (RADseq) to conduct phylogenomic and population genomics analyses, providing novel information for use in stock assessments. Our results strongly support the species status of S. microcephalus (N = 79), but recover S. antarcticus (N = 2) intermixed within the S. pacificus (N = 170) clade. Population genomics analyses reveal genetic homogeneity within S. pacificus and S. microcephalus , and estimates of effective population size were in the hundreds for both species. Kinship analysis identified 2 first-degree relative pairs within our dataset (1 within each species). Our results contribute new information for stock assessments of these uniquely long-lived species by providing the strongest molecular evidence to date for the synonymization of S. antarcticus and S. pacificus , as well as estimating population genomic metrics for each supported species within the Somniosus (Somniosus) subgenus. [ABSTRACT FROM AUTHOR]

Environmental change is altering forest insect dynamics worldwide. As these systems change, they pose significant ecological, social, and economic risk through, for example, the loss of valuable habitat, green space, and timber. Our understanding of such systems is often limited by the complexity of multiple interacting taxa. As a consequence, studies assessing the ecology, physiology, and genomics of each key organism in such systems are increasingly important for developing appropriate management strategies. Here we summarize the genetic and genomic contributions made by the TRIA project — a long-term study of the mountain pine beetle (Dendroctonus ponderosae Hopkins) system encompassing beetle, fungi, and pine. Contributions include genetic and genomic resources for species identification, sex determination, detection of selection, functional genetic analysis, mating system confirmation, hybrid stability tests, and integrated genetic studies of multiple taxa. These resources and subsequent findings have accelerated our understanding of the mountain pine beetle system, facilitating improved management strategies (e.g., enhancements to stand susceptibility indices and predictive models) and highlighting mechanisms for promoting resilient forests. Further, work from the TRIA project serves as a model for the increasing number and severity of invasive and native forest insect outbreaks globally (e.g., Dutch elm disease and thousand cankers disease). [ABSTRACT FROM AUTHOR]

Abstract: The mountain pine beetle (Dendroctonus ponderosae) is an insect native to western North America; however, its geographical range has recently expanded north in BC and east into Alberta. To understand the population structure in the areas of expansion, 16 gene‐linked microsatellites were screened and compared to neutral microsatellites using outlier analyses of Fst and Fct values. One sex‐linked gene, inhibitor of apoptosis (IAP), showed a strong signature of positive selection for neo‐X alleles and was analyzed for evidence of adaptive variation. Alleles of IAP were sequenced, and differences between the neo‐X and neo‐Y alleles were consistent with neutral evolution suggesting that the neo‐Y allele may not be under functional constraints. Neo‐Y alleles were amplified from gDNA, but not effectively from cDNA, suggesting that there was little IAP expression from neo‐Y alleles. There were no differences in overall IAP expression between males and females with the common northern neo‐X allele suggesting that the neo‐X allele in males compensates for the reduced expression of neo‐Y alleles. However, males lacking the most common northern neo‐X allele thought to be selected for in northern populations had reduced overall IAP expression in early October—at a time when beetles are preparing for overwintering. This suggests that the most common allele may have more rapid upregulation. The reduced function of neo‐Y alleles of IAP suggested by both sequence differences and lower levels of expression may foster a highly selective environment for neo‐X alleles such as the common northern allele with more efficient upregulation. [ABSTRACT FROM AUTHOR]

We investigated the emergence over time of a novel song variant (doublet-ending song) in a western Canadian sub-population of white-throated sparrows; this variant differs from the species-typical, triplet-ending song. By analysing recent (1999-2014) and historic (1950/1960s) recordings, we show that populations west (British Columbia) and immediately east (Alberta) of the Rockies, and from central Canada (Ontario) initially all had triplet-ending songs. The shift to doublet-ending songs first arose west of the Rockies, and has increased immediately east of the Rockies in the last decade. The Ontario population retained predominantly triplet-ending songs. Note lengths have increased over time in all populations, while inter-strophe interval has decreased, allowing doubletending birds the ability to have greater strophe repeats for a given song length. We explore whether the emergence and apparent spread of the doublet-ending songs can be explained by cultural drift, or may be under selection by conveying an advantage during counter-singing. [ABSTRACT FROM AUTHOR]

Assessments of population genetic structure and demographic history have traditionally been based on neutral markers while explicitly excluding adaptive markers. In this study, we compared the utility of putatively adaptive and neutral single-nucleotide polymorphisms ( SNPs) for inferring mountain pine beetle population structure across its geographic range. Both adaptive and neutral SNPs, and their combination, allowed range-wide structure to be distinguished and delimited a population that has recently undergone range expansion across northern British Columbia and Alberta. Using an equal number of both adaptive and neutral SNPs revealed that adaptive SNPs resulted in a stronger correlation between sampled populations and inferred clustering. Our results suggest that adaptive SNPs should not be excluded prior to analysis from neutral SNPs as a combination of both marker sets resulted in better resolution of genetic differentiation between populations than either marker set alone. These results demonstrate the utility of adaptive loci for resolving population genetic structure in a nonmodel organism. [ABSTRACT FROM AUTHOR]