76 Works

Supplementary information for integrating sequence capture and restriction-site associated DNA sequencing to resolve recent radiations of Pelagic seabirds

Joan Ferrer-Obiol, Helen F. James, R. Terry Chesser, Vincent Bretagnolle, Jacob González-Solís, Julio Rozas, Marta Riutort & Andreanna J. Welch
The diversification of modern birds has been shaped by a number of radiations. Rapid diversification events make reconstructing the evolutionary relationships among taxa challenging due to the convoluted effects of incomplete lineage sorting (ILS) and introgression. Phylogenomic datasets have the potential to detect patterns of phylogenetic incongruence, and to address their causes. However, the footprints of ILS and introgression on sequence data can vary between different phylogenomic markers at different phylogenetic scales depending on factors...

Data from: A food web including parasites for kelp forests of the Santa Barbara Channel, California

Dana Morton, Cristiana Antonino, Farallon Broughton, Dykman Lauren, Armand Kuris & Kevin Lafferty
We built a high-resolution topological food web for the kelp forests of the Santa Barbara Channel, California, USA that includes parasites and significantly improves resolution compared to previous webs. The 1,098 nodes and 21,956 links in the web describe an economically, socially, and ecologically vital system. Nodes are broken into life-stages. There are 549 free-living life-stages (comprising 492 species from 21 Phyla) and 549 parasitic life-stages (comprising 450 species from 10 Phyla). Links represent three...

Data for behavioral state-dependent habitat selection analysis of translocated female greater sage-grouse, North Dakota 2018-2020

Simona Picardi, Peter Coates, Jesse Kolar, Shawn O'Neil, Steven Mathews & David Dahlgren
This dataset is associated with the article, "Behavioral state-dependent habitat selection and implications for animal translocations" (Picardi et al., 2021, Journal of Applied Ecology). Post-release monitoring of translocated animals can be used to inform future translocation protocols. In particular, quantifying habitat selection of translocated individuals may help identify features that characterize suitable settlement habitat and inform the choice of future release sites; however, because translocated animals undergo post-release behavioral modification, the underlying behavioral state needs...

Demographic responses to climate change in a threatened Arctic species

Kylee D. Dunham, Anna M. Tucker, David N. Koons, Asheber Abebe, F. Stephen Dobson & James B. Grand
The Arctic is undergoing rapid and accelerating change in response to global warming, altering biodiversity patterns and ecosystem function across the region. For Arctic endemic species, our understanding of the consequences of such change remains limited. Spectacled eiders (Somateria fischeri), a large Arctic sea duck, use remote regions in the Bering Sea, Arctic Russia, and Alaska throughout the annual cycle making it difficult to conduct comprehensive surveys or demographic studies. Listed as Threatened under the...

Widespread Ranavirus and Perkinsea infections in Cuban Treefrogs (Osteopilus septentrionalis) invading New Orleans, USA

Anna Savage, Net Galt, Matthew Atkinson, Brad Glorioso, Hardin Waddle & Melanie Litton
Invasive species can negatively impact ecosystems in numerous ways, including vectoring pathogenic organisms. In amphibians, a lineage globally threatened by multiple pathogens, this spread of disease via invasive species could contribute to declines in native populations. The Cuban Treefrog (Osteopilus septentrionalis) is invasive in the southeastern USA. To assess whether O. septentrionalis is a potential reservoir host for the pathogens Batrachochytrium dendrobatidis (Bd), Ranavirus (Rv), and Perkinsea (Pr), we sampled 82 individuals from a recently...

Across borders: external factors and prior behavior influence North Pacific albatross associations with fishing vessels

Rachael Orben, Josh Adams, Michelle Hester, Scott Shaffer, Robert Suryan, Tomohiro Deguchi, Kiyoaki Ozaki, Fumio Sato, Lindsay Young, Corey Clatterbuck, Melinda Conners, David Kroodsma & Leigh Torres
1. Understanding encounters between marine predators and fisheries across national borders and outside national jurisdictions offers new perspectives on unwanted interactions to inform ocean management and predator conservation. Although seabird-fisheries overlap has been documented at many scales, remote identification of vessel encounters has lagged because vessel movement data often is lacking. 2. Here, we reveal albatross-fisheries associations throughout the North Pacific Ocean. We identified commercial fishing operations using Global Fishing Watch data and algorithms to...

Dietary composition and fatty acid content of giant salmonflies (Pteronarcys californica) in two Rocky Mountain rivers

Michelle Briggs, Lindsey Albertson, Zach Maguire, Sophia Swart, Wyatt Cross, Cornelia Twining, Jeff Wesner, Colden Baxter & David Walters
Many aquatic invertebrates are declining or facing extinction from stressors that compromise physiology, resource consumption, reproduction, and phenology. However, the influence of these common stressors specifically on consumer-resource interactions for aquatic invertebrate consumers is only beginning to be understood. We conducted a field study to investigate Pteronarcys californica (i.e., the ‘giant salmonfly’), a large-bodied insect that is ecologically and culturally significant to rivers throughout the western U.S. We sampled gut contents and polyunsaturated fatty acid...

Genetic variation in sea otters (Enhydra lutris) from the North Pacific with relevance to the threatened Southwest Alaska distinct population segment

Blair Flannery, Ora Russ, Michelle St. Martin, William Beatty, Kristin Worman, Joel Garlich-Miller, Varena Gill, Patrick Lemons, Daniel Monson, Kimberly Kloecker, Daniel Esler & John Wenburg
For the sea otter (Enhydra lutris), genetic population structure is an area of research that has not received significant attention, especially in Southwest Alaska where that distinct population segment has been listed as threatened since 2005 pursuant to the U.S. Endangered Species Act. In this study, 501 samples from 14 locations from Prince William Sound, Alaska to the Commander Islands in Russia were analyzed for variation at 13 microsatellite loci. Our results indicate a high...

Habitat diversity influences puma (Puma concolor) diet in the Chihuahuan Desert

James Cain & Charles Prude
Habitat heterogeneity and corresponding diversity in potential prey species should increase the diet breadth of generalist predators. Many previous studies describing puma Puma concolor diets in the arid regions of the southwestern United States were focused within largely xeric locations, overlooking the influence of heterogeneity created by riparian forests. Such habitat heterogeneity and corresponding prey diversity could influence prey availability and puma diet composition. We examined seasonal prey composition of pumas occupying areas with different...

Data from: Intraspecific variation mediates density dependence in a genetically diverse plant species

Andrii Zaiats, Matthew J. Germino, Marcelo D. Serpe, Bryce A. Richardson & Trevor Caughlin
Interactions between neighboring plants are critical for biodiversity maintenance in plant populations and communities. Intraspecific trait variation and genome duplication are common in plant species and can drive eco-evolutionary dynamics through genotype-mediated plant-plant interactions. However, few studies have examined how species-wide intraspecific variation may alter interactions between neighboring plants. We investigate how subspecies and ploidy variation in a genetically diverse species, big sagebrush (Artemisia tridentata), can alter the demographic outcomes of plant interactions. Using a...

Data from: Integrating tracking and resight data enables unbiased inferences about migratory connectivity and winter range survival from archival tags

Clark Rushing, Aimee Van Tatenhove, Andrew Sharp, Viviana Ruiz-Gutierrez, Mary Freeman, Paul Sykes, Aaron Given & Scott Sillett
Archival geolocators have transformed the study of small, migratory organisms but analysis of data from these devices requires bias correction because tags are only recovered from individuals that survive and are re-captured at their tagging location. Data and code provided in this repository can be used to replicate the simulation and Painted Bunting case study results presented by Rushing et al. (2021) showing that integrating geolocator recovery data and mark–resight data enables unbiased estimates of...

Plasma metabolite indices are robust to extrinsic variation and useful indicators of foraging habitat quality in Lesser Scaup (Aythya affinis)

Eric Smith, Michael Anteau, Heath Hagy & Christopher Jacques
This dataset contains plasma lipid metabolite values collected from Lesser Scaup (Aythya affinis) during spring migration (March 2016 and 2017) as described in the paper "Smith, E.J., M.J. Anteau, H. M. Hagy and C.N. Jacques (2021). Plasma metabolite indices are robust to extrinsic variation and useful indicators of foraging habitat quality in Lesser Scaup (Aythya affinis). Ornithology. In press." The experiment investigates the use of plasma metabolites beta-hydroxybutyrate (BOHB) and triglyceride (TRIG) as predictors of...

Relationships of climate, human activity, and fire history to spatiotemporal variation in annual fire probability across California: Source Code and Core Data

Isaac Park, Michael Mann, Lorraine Flint, Alan Flint & Max Moritz
In the face of recent wildfires across the Western United States, it is essential that we understand both the dynamics that drive the spatial distribution of wildfire, and the major obstacles to modeling the probability of wildfire over space and time. However, it is well documented that the precise relationships of local vegetation, climate, and ignitions, and how they influence fire dynamics, may vary over space and among local climate, vegetation, and land use regimes....

Collins Pine and FIA Comparison

Alexis Bernal, Brandon Collins & Jens Stevens
The overwhelming majority of information on historical forest conditions in the western North America comes from public lands, which may provide an incomplete description of historical landscapes. Historical data from privately-owned lands could help inform large-scale forest restoration efforts across ownerships. In this study we made use of an archive containing extensive timber survey data collected in the early 1920’s from privately owned forestland. We then used contemporary FIA data to compare changes in tree...

INTERMAGNET Technical Reference Manual, Version 5.0.0

Benoit St-Louis, &

DataCite Metadata Schema Documentation for the Publication and Citation of Research Data and Other Research Outputs v4.4

1 Introduction 1.1 The DataCite Consortium 1.2 DataCite Community Participation 1.3 The Metadata Schema 1.4 Version 4.4 Update 2 DataCite Metadata Properties 2.1 Overview 2.2 Citation 2.3 DataCite Properties 3 XML Example 4 XML Schema 5 Other DataCite Services Appendices Appendix 1: Controlled List Definitions Appendix 2: Earlier Version Update Notes Appendix 3: Standard values for unknown information Appendix 4: Version 4.1 Changes in support of software citation Appendix 5: FORCE11 Software Citation Principles Mapping

Gene flow influences the genomic architecture of local adaptation in six riverine fish species

Yue Shi, Kristen Bouska, Garrett Mckinney, William Dokai, Andrew Bartels, Megan McPhee & Wes Larson
Understanding how gene flow influences adaptive divergence is important for predicting adaptive responses. Theoretical studies suggest that when gene flow is high, clustering of adaptive genes in fewer genomic regions would protect adaptive alleles from recombination and thus be selected for, but few studies have tested it with empirical data. Here, we used RADseq to generate genomic data for six fish species with contrasting life histories from six reaches of the Upper Mississippi River System,...

The effects of ENSO and the North American monsoon on mast seeding in two Rocky Mountain conifer species

Andreas Wion, Ian Pearse, Kyle Rodman, Thomas Veblen & Miranda Redmond
We aimed to disentangle the patterns of synchronous and variable cone production (i.e., masting) and its relationship to climate in two conifer species native to dry forests of western North America. We used cone abscission scars to reconstruct ca. 15 years of recent cone production in Pinus edulis and Pinus ponderosa, and used redundancy analysis to relate time series of annual cone production to climate indices describing the North American monsoon and the El Niño...

Causes of delayed outbreak responses and their impacts on epidemic spread

Yun Tao, Matthew Ferrari, Katriona Shea, William Probeert, Michael Runge, Kevin Lafferty & Michael Tildesley
Livestock diseases have devastating consequences economically, socially, and politically across the globe. In certain systems, pathogens remain viable after host death, which enables residual transmissions from infected carcasses. Rapid culling and carcass disposal are well-established strategies for stamping out an outbreak and limiting its impact, however, wait-times for these procedures, i.e., response delays, are typically farm-specific and time-varying due to logistical constraints. Failing to incorporate variable response delays in epidemiological models may understate outbreak projections...

Short-term responses to a human-altered landscape do not affect fat dynamics of a migratory ungulate

Samantha Dwinnell, Hall Sawyer, , Jill Randall, Rusty Kaiser, Mark Thonhoff, Gary Fralick & Kevin Monteith
According to risk-sensitive foraging theory, animals should make foraging decisions that balance nutritional costs and gains to promote fitness. Human disturbance is a form of perceived risk that can prompt avoidance of risky habitat over the acquisition of food. Consequently, behavioral responses to perceived risk could induce nutritional costs. Population declines often coincide with increases in human disturbance, which likely is associated with direct and indirect habitat loss. Nevertheless, behavioral and physiological responses to perceived...

Species mixture effects and climate influence growth, recruitment and mortality in Interior West U.S.A. Populus tremuloides - conifer communities

Christopher Looney, Wilfred Previant, John Bradford & Linda Nagel
Tree-species mixture effects (e.g., complementarity and facilitation) have been found to increase individual-tree productivity, lessen mortality, and improve recruitment in forests worldwide. By promoting more efficient and complete resource use, mixture effects may also lessen individual-tree-level water stress, thus improving drought-resistance. We investigated the influence of mixture effects on tree productivity, mortality, and recruitment across broad compositional and moisture gradients in high-elevation Interior West US mixed-conifer communities, where Populus tremuloides (trembling aspen) is the major...

Data from: Hybridization alters growth and migratory life history expression of native trout

Jeffrey T. Strait, Lisa A. Eby, Ryan P. Kovach, Clint C. Muhlfeld, Matthew C. Boyer, Stephen J. Amish, Seth Smith, Winsor H. Lowe & Gordon Luikart
Human-mediated hybridization threatens many native species, but the effects of introgressive hybridization on life history expression are rarely quantified, especially in vertebrates. We quantified the effects of non-native rainbow trout admixture on important life history traits including growth and partial migration behavior in three populations of westslope cutthroat trout over five years. Rainbow trout admixture was associated with increased summer growth rates in all populations, and decreased spring growth rates in two populations with cooler...

Conspecific and congeneric interactions shape increasing rates of breeding dispersal of northern spotted owls

Julianna Jenkins, Damon Lesmeister, Eric Forsman, Katie Dugger, Steven Ackers, Lawrence Andrews, Scott Gremel, Bruce Hollen, Chris McCafferty, M. Shane Pruett, Janice Reid, Stan Sovern & J. David Wiens
Breeding dispersal, the movement from one breeding territory to another, is rare for philopatric species that evolved within relatively stable environments, such as the old-growth coniferous forests of the Pacific Northwest. While dispersal is not inherently maladaptive, the consequences of increased dispersal on population dynamics in populations whose historical dispersal rates are low could be significant, particularly for a declining species. We examined rates and possible causes of breeding dispersal based on a sample of...

Disease or drought: Environmental fluctuations release zebra from a potential pathogen-triggered ecological trap

Yen-Hua Huang, Hendrina Joel, Martina Küsters, Zoe Barandongo, Claudine Cloete, Axel Hartmann, Pauline Kamath, Werner Kilian, John Mfune, Gabriel Shatumbu, Royi Zidon, Wayne Getz & Wendy Turner
When a transmission hotspot for an environmentally persistent pathogen establishes in otherwise high-quality habitat, the disease may exert a strong impact on a host population. However, fluctuating environmental conditions lead to heterogeneity in habitat quality and animal habitat preference, which may interrupt the overlap between selected and risky habitats. We evaluated spatiotemporal patterns in anthrax mortalities in a plains zebra (Equus quagga) population in Etosha National Park, Namibia, incorporating remote-sensing and host telemetry data. A...

Registration Year

  • 2021
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Affiliations

  • United States Geological Survey
    76
  • Colorado State University
    6
  • Columbia University
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  • University of California, Santa Barbara
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  • Utah State University
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  • Centre d'Etudes Biologiques de Chizé
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  • Oregon State University
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  • University of Wyoming
    3
  • University of Maine
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  • University of California, Berkeley
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