14 Works

Data from: The relative importance of modeling site pattern heterogeneity versus partition-wise heterotachy in phylogenomic inference

Huaichun Wang, Edward Susko & Andrew J. Roger
Large taxa-rich genome-scale data sets are often necessary for resolving ancient phylogenetic relationships. But accurate phylogenetic inference requires that they are analyzed with realistic models that account for the heterogeneity in substitution patterns amongst the sites, genes and lineages. Two kinds of adjustments are frequently used: models that account for heterogeneity in amino acid frequencies at sites in proteins, and partitioned models that accommodate the heterogeneity in rates (branch lengths) among different proteins in different...

Data from: Raising the bar: recovery ambition for species at risk in canada and the US

Kylee A. Pawluk, Caroline H. Fox, Christina N. Service, Eva H. Stredulinsky & Heather Bryan
Routinely crossing international borders and/or persisting in populations across multiple countries, species are commonly subject to a patchwork of endangered species legislation. Canada and the United States share numerous endangered species; their respective acts, the Species at Risk Act (SARA) and the Endangered Species Act (ESA), require documents that outline requirements for species recovery. Although there are many priorities for improving endangered species legislation effectiveness, species recovery goals are a crucial component. We compared recovery...

Data from: The role of fish life histories in allometrically scaled food-web dynamics

Stephanie Bland, Fernanda Valdovinos, Jeffrey Hutchings & Anna Kuparinen
1. Body size determines key ecological and evolutionary processes of organisms. Therefore, organisms undergo extensive shifts in resources, competitors and predators as they grow in body size. While empirical and theoretical evidence show that these size-dependent ontogenetic shifts vastly influence the structure and dynamics of populations, theory on how those ontogenetic shifts affect the structure and dynamics of ecological networks is still virtually absent. 2. Here, we expand the Allometric Trophic Network (ATN) theory in...

Data from: The importance of using topographic features to predict climate-resilient habitat for migratory forest landbirds: an example for the Rusty Blackbird, Olive-sided Flycatcher, and Canada Warbler

Shannon Bale, Karen Beazley, Alana Westwood & Peter Bush
Maintaining a functionally-connected network of high-quality habitat is one of the most effective responses to biodiversity loss. However, the spatial distribution of suitable habitat may shift over time in response to climate change. Taxa such as migratory forest landbirds are already undergoing climate-driven range shifts. Therefore, patches of climate-resilient habitat (also known as “climate refugia”) are especially valuable from a conservation perspective. Here, we performed maximum entropy (Maxent) species distribution modeling to predict suitable and...

Data from: Invasive species and postglacial colonization: their effects on the genetic diversity of a Patagonian fish

Iván Vera-Escalona, Evelyn Habit & Daniel E. Ruzzante
The present distribution of Patagonian species is the result of a complex history involving Quaternary refugial populations, Holocene range expansions, and demographic changes occurring during the Anthropocene. Invasive salmonids were introduced in Patagonia during the last century, occupying most rivers and lakes, preying on, and competing with native species, including the fish Galaxias platei. Here we used G. platei as a case study to understand how long-term (i.e. population differentiation during the Holocene) and short-term...

Human-induced habitat fragmentation effects on connectivity, diversity and population persistence of an endemic fish, Percilia irwini, in the Biobío river basin (Chile)

Francisca Valenzuela-Aguayo, Gregory McCracken, Aliro Manosalva, Evelyn Habit & Daniel Ruzzante
An understanding of how genetic variability is distributed in space is fundamental for the conservation and maintenance of diversity in spatially fragmented and vulnerable populations. While fragmentation can occur from natural barriers it can also be exacerbated by anthropogenic activities such as hydroelectric power plant development. Whatever the source, fragmentation can have significant ecological effects, including the disruptions of migratory processes and gene flow among populations. In Chile, the Biobío river basin exhibits a high...

Data from: A phenotype-genotype codon model for detecting adaptive evolution

Chris Jones, Noor Youssef, Edward Susko & Joseph Bielawski
A central objective in biology is to link adaptive evolution in a gene to structural and/or functional phenotypic novelties. Yet most analytic methods make inferences mainly from either phenotypic data or genetic data alone. A small number of models have been developed to infer correlations between the rate of molecular evolution and changes in a discrete or continuous life history trait. But such correlations are not necessarily evidence of adaptation. Here we present a novel...

Data from: Evidence for contemporary and historical gene flow between guppy populations in different watersheds, with a test for associations with adaptive traits

Léa Blondel, Lyndsey Baillie, Jessica Quinton, Jahson B. Alemu, Ian Paterson, Andrew P. Hendry & Paul Bentzen
In dendritic river systems, gene flow is expected to occur primarily within watersheds. Yet, rare cross‐watershed transfers can also occur, whether mediated by (often historical) geological events or (often contemporary) human activities. We explored these events and their potential evolutionary consequences by analyzing patterns of neutral genetic variation (microsatellites) and adaptive phenotypic variation (male color) in wild guppies (Poecilia reticulata) distributed across two watersheds in northern Trinidad. We found the expected signatures of within‐watershed gene...

Data from: Thermal variability and plasticity drive the outcome of a host-pathogen interaction

Laura Ferguson & Brent Sinclair
Variable, changing, climates may affect each participant in a biotic interaction differently. We explored the effects of temperature and plasticity on the outcome of a host-pathogen interaction to try to predict the outcomes of infection under fluctuating temperatures. We infected Gryllus veletis crickets with the entomopathogenic fungus Metarhizium brunneum under constant (6 °C, 12 °C, 18 °C or 25 °C) or fluctuating temperatures (6 °C to 18 °C or 6 °C to 25 °C). We...

Modular chromosome rearrangements reveal parallel and nonparallel adaptation in a marine fish

Tony Kess, Paul Bentzen, Sarah Lehnert, Emma Sylvester, Sigbjørn Lien, Matthew Kent, Marion Sinclair-Waters, Corey Morris, Brendan Wringe, Robert Fairweather & Ian Bradbury
Genomic architecture and standing variation can play a key role in ecological adaptation, and contribute to the predictability of evolution. In Atlantic cod (Gadus morhua), four large chromosomal rearrangements have been associated with ecological gradients and migratory behaviour in regional analyses. However, the degree of parallelism , the extent of independent inheritance, and functional distinctiveness of these rearrangements remains poorly understood. Here, we use a 12K single nucleotide polymorphism (SNP) array to demonstrate extensive individual...

Integrating climate adaptation and biodiversity conservation in the global ocean

Derek Tittensor, Maria Beger, Kristina Boerder, Daniel Boyce, Rachel Cavanagh, Aurelie Cosandey-Godin, Guillermo Crespo, Daniel Dunn, Wildan Ghiffary, Susie Grant, Lee Hannah, Pat Halpin, Mike Harfoot, Susan Heaslip, Nicholas Jeffery, Naomi Kingston, Heike Lotze, Jennifer McGowan, Elizabeth McLeod, Chris McOwen, Bethan O'Leary, Laurenne Schiller, Ryan Stanley, Maxine Westhead, Kristen Wilson … & Boris Worm
The impacts of climate change and the socioecological challenges they present are ubiquitous and increasingly severe. Practical efforts to operationalize climate-responsive design and management in the global network of marine protected areas (MPAs) are required to ensure long-term effectiveness for safeguarding marine biodiversity and ecosystem services. Here, we review progress in integrating climate change adaptation into MPA design and management and provide eight recommendations to expedite this process. Climate-smart management objectives should become the default...

Data from: Chromosome polymorphisms track trans‐Atlantic divergence and secondary contact in Atlantic salmon

Sarah J. Lehnert, Paul Bentzen, Tony Kess, Sigbjorn Lien, John B. Horne, Marie Clément & Ian R. Bradbury
Pleistocene glaciations drove repeated range contractions and expansions shaping contemporary intraspecific diversity. Atlantic salmon (Salmo salar) in the western and eastern Atlantic diverged >600,000 YBP, with the two lineages isolated in different southern refugia during glacial maxima, driving trans-Atlantic genomic and karyotypic divergence. Here, we investigate genomic consequences of glacial isolation and trans-Atlantic secondary contact using 108,870 single nucleotide polymorphisms (SNPs) genotyped in 80 North American and European populations. Throughout North America, we identified extensive...

Data from: A comprehensive large-scale assessment of fisheries bycatch risk to threatened seabird populations

Thomas A. Clay, Cleo Small, Geoffrey N. Tuck, Deborah Pardo, Ana P.B. Carneiro, Andrew G. Wood, John P. Croxall, Glenn T. Crossin & Richard A. Phillips
1. Incidental mortality (bycatch) in fisheries remains the greatest threat to many large marine vertebrates and is a major barrier to fisheries sustainability. Robust assessments of bycatch risk are crucial for informing effective mitigation strategies, but are hampered by missing information on the distributions of key life-history stages (adult breeders and non-breeders, immatures and juveniles). 2. Using a uniquely comprehensive biologging dataset (1697 tracks, 790 individuals), we assessed spatial overlap of four threatened seabird populations...

Data from: A human impact metric for coastal ecosystems with application to seagrass beds in Atlantic Canada

Grace E.P. Murphy, Melisa C. Wong & Heike K. Lotze
Coastal biogenic habitats are vulnerable to human impacts from both terrestrial and marine realms. Yet the broad spatial scale used in current approaches of quantifying anthropogenic stressors is not relevant to the finer scales affecting most coastal habitats. We developed a standardized human impact metric that includes five bay-scale and four local-scale (0–1 km) terrestrial and marine-based impacts to quantify the magnitude of anthropogenic impacts to coastal bays and nearshore biogenic habitats. We applied this...

Registration Year

  • 2019

Resource Types

  • Dataset


  • Dalhousie University
  • Fisheries and Oceans Canada
  • University of Concepción
  • Norwegian University of Life Sciences
  • University of the West Indies
  • The Nature Conservancy
  • University of Michigan-Ann Arbor
  • Duke University
  • University of Queensland
  • Royal Society for the Protection of Birds