71 Works

Comparative morphology of shark pectoral fins

Sarah Hoffmann, Thaddaeus Buser & Marianne Porter
Sharks vary greatly in morphology, physiology, and ecology. Differences in whole body shape, swimming style, and physiological parameters have previously been linked to varied habitat uses. Along with whole body morphology, shark pectoral fins are also previously described to vary in both shape and skeleton; however, there are limited comparative data on external and skeletal morphology. Further, fins were previously categorized into two discrete groups based on the amount of skeletal support present: (1) aplesodic,...

Searching down the fisheries information web: An initial reflection

Janet Webster, Jean Collins & Patricia Merrikin
Co-authored together with Patricia Merrikin and Jean Collins, Food and Agriculture Organization of the United Nations. - The complex web of information ranges from pure science to applied techniques to management policies. All are important, yet have varying levels of accessibility and authority. Often the apex of the peer reviewed journal article is considered the most important level discouraging scientists and managers, especially those in developing countries, from populating the other layers of the web...

Data from: Introduced beaver improve growth of non–native trout in Tierra del Fuego, South America

Ivan Arismendi, Brooke Penaluna & Carlos Jara
Species introductions threaten ecosystem function worldwide and interactions among introduced species may amplify their impacts. Effects of multiple invasions are still poorly studied and often the mechanisms underlying potential interactions among invaders are unknown. Despite being a remote and well–conserved area, the southern portion of South America has been greatly impacted by invasions of both the American Beaver (Castor canadensis) and Brown Trout (Salmo trutta fario). Here, we compared growth, condition, diet, and stable isotopes...

Novelty and emergent patterns in sperm: morphological diversity and evolution of spermatozoa and sperm conjugation in ground beetles (Coleoptera: Carabidae)

R Antonio Gomez & David Maddison
The beetle family Carabidae, with about 40,000 species, exhibits enough diversity in sperm structure and behavior to be an excellent model system for studying patterns and processes of sperm evolution. We explore their potential, documenting sperm form in 177 species of ground beetles using light microscopy and collecting data on 1 qualitative and 7 quantitative sperm phenotypic traits. Our sampling captures 61% of the tribal-level diversity of ground beetles. These data highlight the notable morphological...

Alsea Watershed Study 1959-1972

Jon Souder
To investigate the effects of logging, three small watersheds in the Alsea River basin on the west slope of the Oregon Coast Range were selected for study. This was an interdisciplinary investigation to evaluate the influence of specific logging methods on stream regimen and on aquatic resources. The study plan involved (1) clear-cut logging one watershed [Needle Branch Creek]; (2) a second watershed with smaller, more spaced clear cuts and a riparian stream buffer left...

2019 NSF Workshop on Connecting Large Facilities and Cyberinfrastructure

Ewa Deelman, Ilya Baldin, Brian Bockelman, Adam Bolton, Patrick Brady, Tom Cheatham, Laura Christopherson, Rafael Ferreira da Silva, Tom Gulbransen, Kate Keahey, Marina Kogan, Anirban Mandal, Angela Murillo, Jarek Nabrzyski, Valerio Pascucci, Steve Petruzza, Mats Rynge, Susan Sons, Dan Stanzione, Chaudhuri Surajit, Daryl Swensen, Alexander Szalay, Douglas Thain, John Towns, Charles Vardeman … & Jane Wyngaard

Age of first infection across a range of parasite taxa in a wild mammalian population

Caroline Glidden, Leigh Combrink, Brianna Beechler, Bryan Charleston, Anson Koehler, Danielle Sisson, Gasser Robin, Abdul Jabbar & Anna Jolles
Newborn mammals have an immature immune system that cannot sufficiently protect them against infectious diseases. However, variation in the effectiveness of maternal immunity against different parasites may couple with temporal trends in parasite exposure to influence disparities in timing of infection risk. Determining the relationship between age and infection risk is critical in identifying the portion of a host population that contributes to parasite dynamics, as well as the parasites that regulate host recruitment. While...

Independent losses of the Hypoxia-Inducible Factor (HIF) pathway within Crustacea

Allie Graham & Felipe Barreto
Metazoans respond to hypoxic stress via the Hypoxia Inducible Factor (HIF) pathway, a mechanism thought to be extremely conserved due to its importance in monitoring cellular oxygen levels and regulating responses to hypoxia. However, recent work revealed that key members of the HIF pathway have been lost in specific lineages (a tardigrade and a copepod), suggesting alternative mechanisms have evolved but are still undescribed. Using genomic and transcriptomic data from 70 different species across 12...

Data for Runups of unusual size: rogueness and variability of swash

Gabriel García-Medina, H. Tuba Ozkan-Haller, Peter Ruggiero, Robert A. Homan & Chuan Li
This repository item contains the files needed to reproduce the results reported in the published work entitled "Runups of unusual size: rogueness and variability of swash" in the Journal of Geophysical Research. As described in the publication, the results described within it pertain to simulations of wave runup for various configurations of beaches using various idealized surface gravity wave conditions. All discussed results pertain to a model-generated data set using the publically-available code "funwavec" for...

Genetic diversity and connectivity of southern right whales (Eubalaena australis) found in the Brazil and Chile–Peru wintering grounds and the South Georgia (Islas Georgias del Sur) feeding ground

Emma L Carroll, Paulo Ott, Louise McMillan, Bárbara Galletti Vernazzani, Petra Neveceralova, Els Vermeulen, Oscar Gaggiotti, Artur Andriolo, C. Scott Baker, Connor Bamford, Peter Best, Elsa Cabrera, Susannah Calderan, Andrea Chirife, Rachel M. Fewster, Paulo A. C. Flores, Timothy Frasier, Thales R. O. Freitas, Karina Groch, Pavel Hulva, Amy Kennedy, Russell Leaper, Mathew S. Leslie, Michael Moore, Larissa Oliviera … & Jennifer A Jackson
As species recover from exploitation, continued assessments of connectivity and population structure are warranted to provide information for conservation and management. This is particularly true in species with high dispersal capacity, such as migratory whales, where patterns of connectivity could change rapidly. Here we build on a previous long-term, large-scale collaboration on southern right whales (Eubalaena australis) to combine new (nnew) and published (npub) mitochondrial (mtDNA) and microsatellite genetic data from all major wintering grounds...

Endocrine disruptors cause multigenerational and transgenerational epigenetic changes in fish exposed during early life

Susanne Brander, Kaley Major, Bethany DeCourten, Jie Li, Monica Britton, Alvine Mehinto, Richard Connon & Matthew Settles
The inland silverside, Menidia beryllina, is a euryhaline fish and a model organism in ecotoxicology. We previously showed that exposure to picomolar (ng/L) levels of endocrine disrupting chemicals (EDCs) can cause a variety of effects in M. beryllina, from changes in gene expression to phenotypic alterations. Here we explore the potential for early life exposure to EDCs to modify the epigenome in silversides, with a focus on multi- and transgenerational effects. EDCs included contaminants of...

Invertebrates (except family Carabidae) caught by pitfall and refuge trap sampling in Linn Co March 2018-June 2019

Inga Reich, Casi Jessie, Mike Gormally & Rory Mc Donnell

Long-term effects of forest harvesting on summer low flow deficiets in the Coast Range of Oregon

Catalina Segura, Kevin Bladon, Jeff Hatten, Julia Jones, Cody Hale, George G. Ice & Jon Souder
We examined long-term changes in daily streamflow associated with forestry practices with two datasets (this one and the original Alsea Streamflow dataset(1972)) over a 60-year period (1959–2017) in the Alsea Watershed Study, Oregon Coast Range, Pacific Northwest, USA. In this contemporary period, 2006 to 2017 (12 water years), data were collected at 10-minute intervals, including three to eight years of pre-harvest data rating curves were developed. Based 40 to 55 stage-discharge data points collected for...

Co-infection best predicts respiratory viral infection in a wild host

Caroline Glidden, Courtney Coon, Brianna Beechler, Chase McNulty, Vanessa Ezenwa & Anna Jolles
1) The dynamics of directly transmitted pathogens in natural populations are likely to result from the combined effects of host traits, pathogen biology and interactions among pathogens within a host. Discovering how these factors work in concert to shape variation in pathogen dynamics in natural host – multi‐pathogen systems is fundamental to understanding population health. 2) Here, we describe temporal variation in incidence and then elucidate the effect of hosts trait, season, and pathogen co‐occurrence...

Transcriptome-wide comparisons and virulence gene polymorphisms of host-associated genotypes of the cnidarian parasite Ceratonova shasta in salmonids

Gema Alama Bermejo, Eli Meyer, Stephen Douglas Atkinson, Astrid Sibylle Holzer, Monika Wiśniewska, Martin Kolisko & Jerri Lee Bartholomew
Ceratonova shasta is an important myxozoan pathogen affecting the health of salmonid fishes in the Pacific Northwest of North America. C. shasta exists as a complex of host-specific genotypes, some with low to moderate virulence, and one that causes a profound, lethal infection in susceptible hosts. High throughput sequencing methods are powerful tools for discovering the genetic basis of these host/virulence differences, but deep sequencing of myxozoans has been challenging due to extremely fast molecular...

Hyperspectral imagery of Pinus strobiformis infected with fungal pathogen

Marja Haagsma, Gerald F. M. Page & Jeremy S. Johnson
Hyperspectral images were taken from March till October, 2018, of southwestern white pine (Pinus strobiformis), SWWP, seedlings of ten different seed-source families. Half of the seedlings were inoculated with white pine blister rust (Cronartium ribicola). Visual assessments of vigor coincided with hyperspectral data acquisition. The aim of the experiment was to use hyperspectral data to automaticaly and objectively identify infection and degree of infection in SWWP seedlings. Moreover, we developed and evaluated a feature importance...

Sitticine jumping spiders: phylogeny, classification and chromosomes (Araneae: Salticidae: Sitticini)

Wayne Maddison, David Maddison, Shahan Derkarabetian & Marshal Hedin
We review the systematics of sitticine jumping spiders, with a focus on the Palearctic and Nearctic regions, in order to revise their generic classification, clarify the species of one region (Canada), and study their chromosomes. A genome-wide molecular phylogeny of 23 sitticine species, using more than 700 loci from the arachnid Ultra-Conserved Element (UCE) probeset, confirms the Neotropical origins of sitticines, whose basal divergence separates the new subtribe Aillutticina (a group of 5 Neotropical genera)...

Data from: Repetitive DNA profiles reveal evidence of rapid genome evolution and reflect species boundaries in ground beetles

John Sproul, Lindsey Barton & David Maddison
Genome architecture is a complex, multidimensional property of an organism defined by the content and spatial organization of the genome’s component parts. Comparative study of entire genome architecture in model organisms is shedding light on mechanisms underlying genome regulation, evolution, and diversification; but such studies require costly analytical approaches which make extensive comparative study impractical for most groups. However, lower-cost methods that measure a single architectural component (e.g., distribution of one class of repeats) have...

Genetic diversity and population structure in Chrysolepis chrysophylla (golden chinquapin; Fagaceae): SSRs vs SNPs

Ann Willyard, Andrew Bower, Valerie Hipkins, Jacob Snelling & Jennifer DeWoody
Simple sequence repeat (SSR) and single nucleotide polymorphism (SNP) genotypes on the same plant samples of Chrysolepis chrysophylla (Fagaceae; golden chinquapin) from 22 sites were used to determine genetic diversity and population structure. One site of C. sempervirens allowed interspecific vs. intraspecific comparison. SSRs and SNPs yielded many similar results. Among-site variation contributed 13% to 17% of the genetic variation and Fst estimates of 0.14 to 0.17 were in the range expected among Fagaceae species...

Multiscale analysis of canopy arthropod diversity in a volcanically fragmented landscape

Elske K. Tielens, Maile N. Neel, Devin R. Leopold, Christian P. Giardina & Daniel S. Gruner
Dataset and code associated with the article "Multiscale analysis of canopy arthropod diversity in a volcanically fragmented landscape" (Tielens et al 2019, Ecosphere). Article abstract: Habitat fragmentation resulting in habitat loss and increased isolation is a dominant driver of global species declines. Habitat isolation and connectivity vary across scales, and understanding how con- nectivity affects biodiversity can be challenging because the relevant scale depends on the taxa involved. A multiscale analysis can provide insight in...

Isotopic and Geochemical Signatures of Mantle and Crustal Contributions in Rhyolites from Okataina and Taupo volcanoes, New Zealand

Nicole Rocco
Silicic caldera-forming eruptions are some of the largest and most destructive volcanic eruptions known, and present significant local and global hazards. The underlying processes within crustal magma plumbing systems that lead to the accumulation and eruption of large volumes of evolved magma remain enigmatic, yet there is broad consensus that interaction between mantle-derived magmas and surrounding crust is crucial to the generation of many silicic magmas. Constraining these processes are key to understanding the evolution...

Greater Sage-grouse nest bowls buffer microclimate in a post-megafire landscape although effects on nest survival are marginal

Christopher Anthony
Temperature at fine spatial scales is an important driver of nest site selection for many avian species during the breeding season and can influence nest success. Sagebrush (Artemisia spp.) communities have areas with high levels of vegetation heterogeneity and high thermal variation; however, fire removes vegetation that provides protection from predators and extreme environmental conditions. To examine the influence of microclimates on Greater Sage-Grouse (Centrocercus urophasianus) nest site selection and nest success in a fire...

Shards, sequences, and shorelines: two new species of Bembidion from North America (Coleoptera: Carabidae)

David Maddison
Two new species of Bembidion are described from river shores in North America. One, Bembidion mimbres sp. nov., from the Gila River watershed in the lands of the Mimbres culture in New Mexico and Arizona, is closely related to the widespread Bembidion levigatum. DNA sequences from several linkage groups provide evidence of the distinctiveness of B. mimbres. The second, Bembidion corgenoma sp. nov., has been the subject of recent genomic and transcriptomic studies. It belongs...

Dataset for the analyses of the effect of wildfire and juniper phase on mule deer habitat selection

Elizabeth Schuyler
These data were obtained from GPS radio collared mule deer from 2015-2017. The data includes used vs available predictor variable information for time since fire, juniper canopy cover, NDVI, and vegetation community for winter, summer:migratory, summer:resident seasonal ranges.

Registration Year

  • 2020

Resource Types

  • Dataset
  • Output Management Plan
  • Text
  • Other
  • Software


  • Oregon State University
  • University of Washington
  • Stanford University
  • University of California, Davis
  • United States Department of Agriculture
  • University of Pretoria
  • University of Georgia
  • Agricultural Research Service
  • Ohio Wesleyan University
  • Pacific Northwest Research Station