197463 research outputs found
Sort by
Data from: Population structure, genetic connectivity, and adaptation in the Olympia oyster (Ostrea lurida) along the west coast of North America
No full textEffective management of threatened and exploited species requires an understanding of both the genetic connectivity among populations and local adaptation. The Olympia oyster (Ostrea lurida), patchily distributed from Baja California to the central coast of Canada, has a long history of population declines due to anthropogenic stressors. For such coastal marine species, population structure could follow a continuous isolation-by-distance model, contain regional blocks of genetic similarity separated by barriers to gene flow, or be consistent with a null model of no population structure. To distinguish between these hypotheses in O. lurida, 13,424 single-nucleotide polymorphisms (SNPs) were used to characterize rangewide population structure, genetic connectivity, and adaptive divergence. Samples were collected across the species range on the west coast of North America, from southern California to Vancouver Island. A conservative approach for detecting putative loci under selection identified 235 SNPs across 129 GBS loci, which were functionally annotated and analyzed separately from the remaining neutral loci. While strong population structure was observed on a regional scale in both neutral and outlier markers, neutral markers had greater power to detect fine-scale structure. Geographic regions of reduced gene flow aligned with known marine biogeographic barriers, such as Cape Mendocino, Monterey Bay, and the currents around Cape Flattery. The outlier loci identified as under putative selection included genes involved in developmental regulation, sensory information processing, energy metabolism, immune response, and muscle contraction. These loci are excellent candidates for future research and may provide targets for genetic monitoring programs. Beyond specific applications for restoration and management of the Olympia oyster, this study lends to the growing body of evidence for both population structure and adaptive differentiation across a range of marine species exhibiting the potential for panmixia. Computational notebooks are available to facilitate reproducibility and future open-sourced research on the population structure of Ostrea lurida
species_diet_pcoa_scores_meta
No full textMetadata for file 'species_diet_pcoa_scores.csv' as CSV file with first column describing original column names and second column a description of the columns
ML tree (morphology data)
No full textTree file resulting from ML analysis with a dataset that includes morphology data from De-Silva et al. 2017
Data from: Home ground advantage: local Atlantic salmon have higher reproductive fitness than dispersers in the wild
No full textA long-held, but poorly tested, assumption in natural populations is that individuals that disperse into new areas for reproduction are at a disadvantage compared to individuals that reproduce in their natal habitat, underpinning the eco-evolutionary processes of local adaptation and ecological speciation. Here, we capitalize on fine-scale population structure and natural dispersal events to compare the reproductive success of local and dispersing individuals captured on the same spawning ground in four consecutive parent-offspring cohorts of wild Atlantic salmon (Salmo salar). Parentage analysis conducted on adults and juvenile fish showed that local females and males had 9.6 and 2.9 times higher reproductive success than dispersers, respectively. Our results reveal how higher reproductive success in local spawners compared to dispersers may act in natural populations to drive population divergence and promote local adaptation over microgeographic spatial scales without clear morphological differences between populations
relative benefits of mutualists data for submission
No full textThis data file comprises four parts: (1) data for the analyses concerning the characters of figs and fig wasp communities and the effects of NPFWs on the relative benefits of the mutualists; (2) pedicel length data for the analyses concerning the oviposition preferences of pollinators; (3) ovipositor length data of adult female pollinators; (4) number of pollinator foundresses from unmatured figs
Data from: Betweenness centrality as predictor for forces in granular packings
No full textA load applied to a jammed frictional granular system will be localized into a network of force chains making inter-particle connections throughout the system. Because such systems are typically under-constrained, the observed force network is not unique to a given particle configuration, but instead varies upon repeated formation. In this paper, we examine the ensemble of force chain configurations created under repeated assembly in order to develop tools to statistically forecast the observed force network. In experiments on a gently suspended 2D layer of photoelastic particles, we subject the assembly to hundreds of repeated cyclic compressions. As expected, we observe the non-unique nature of the force network, which differs for each compression cycle, by measuring all vector inter-particle contact forces using our open source PeGS software. We find that total pressure on each particle in the system correlates to its betweenness centrality value extracted from the geometric contact network. Thus, the mesoscale network structure is a key control on individual particle pressures
