366 Works

Assessing the impact of diffusion model on the turbulent transport and flame structure of premixed lean hydrogen flames: hydrogen data

Aaron Fillo, PETER HAMLINGTON & Kyle Niemeyer
This dataset contains results from direct numerical simulations of premixed, three-dimensional, turbulent hydrogen/air flames, using the multicomponent and mixture-averaged diffusion models. In particular, this dataset contains information about the enstrophy budget and flame structure. We performed the simulations using the finite-difference code NGA; simulation details are described completely in the associated article.

Stream metabolism and suspended sediment concentration data from two streams in the Oregon Coast Range

Catalina Segura, Samantha Cargill & Dana Warren

Land-use in the Willamette Valley from 2004-2017

Bogdan Strimbu, George Mueller-Warrant & Kristin Trippe
The Willamette Valley, bounded on the west by the Coast Range and on the east by the Cascade Mountains, is the largest river valley completely confined to Oregon. The fertile valley soils combined with a temperate, marine climate create ideal agronomic conditions for seed production. Historically, seed cropping systems in the Willamette Valley have focused on the production of grass and forage seeds. In addition to growing over two-thirds of the nation’s cool-season grass seed,...

A program for finding some reduced spherical pictures

Matthias C. Merzenich

Modeling of an Urban Radiocesium Pathway from Catchment to Wastewater Treatment Sludge - Dataset

George MH NG
This archive is a compilation of SWMM input files and STELLA models, augmented by R scripts to perform various processing for sensitivity analysis, data import / export, plot generation and computation of various summary outputs. Part I is the sensitivity analysis of a SWMM model representative of the case study in Urso et al (2013). An extended Fourier Amplitude Sensitivity Testing (eFAST) work flow for this SWMM model is implemented in R script. Part II...

River restoration practitioner survey on engineering design for climate change

Desirée Tullos
An online survey of river restoration practitioners, engineers, and researchers was conducted to examine current practices and perspectives on how climate change is integrated into engineering designs for river restoration. Seventy-six responses were submitted to the survey. While the responses came from a wide range of demographies, respondents were most commonly men, age 35-44, with professional degrees working as practitioners in consulting firms. The most frequent respondents work in engineering or engineering geomorphology in the...

Private Prison News Project: Article Data from New York Times, Los Angeles Times, Chicago Tribune, and Houston Chronicle, 1985-2008

Pamela Oliver & Brett C. Burkhardt

Hinkle Creek Benthic Invertebrate Dataset

William Gerth, Judith L. Li, Richard Van Driesche, Janel Sobota, Christina Murphy, Lisa Ganio & Arne Skaugset
This dataset contains records of identified benthic and aquatic emergent invertebrates from pre-timber harvest, post-timber harvest, and reference (no harvest) collection sites in the Hinkle Creek watershed. A variety of fish-bearing tributaries, fishless tributaries, and mainstem creek sites were sampled. Benthic invertebrates were collected using Serber nets and emergent adults were collected with emergence traps. Invertebrates were identified to the lowest practical taxonomic level.

Discharge and suspended sediment a paired watershed study examining the effects of contemporary forest harvesting in the Oregon Coast Range

Jeff Hatten, Catalina Segura, Kevin Bladon, Cody Hale, George G. Ice & John Stednick
Forest harvesting practices can expose mineral soils, decrease infiltration capacities of soils, disturb the stream bank and channel, and increase erosion and fine sediment supply to stream channels. To reduce nonpoint source sediment pollution associated with forest management activities and to maintain the high water quality typically provided from forests, best management practices (BMPs) were developed and implemented. The Alsea Watershed Study was an important early research site that lead to the development of contemporary...

Describing Grey Literature Again: A Survey of Collection Policies

Heather Lehman & Janet Webster
At Oregon State University, we are exploring the differences between collections formed by digitizing existing materials on our shelves and those created by identifying and acquiring digital objects beyond our library. One example is the proposed Tsunami Digital Library (TDL) that would support a growing research program with users needing access to diverse information, much of it grey. The TDL is conceptualized as an information portal designed to coordinate the access and distribution of Internet...

Benthic macroinvertebrates sampled above and below Cougar Dam

Christina Murphy, Sherri Johnson, William Gerth, Todd Pierce & Gregory Taylor
This dataset accompanies the manuscript Unintended consequences of selective water withdrawals from reservoirs alter downstream macroinvertebrate communities in Water Resources Research. Benthic macroinvertebrates were collected from samples taken annually during the first two weeks of August from 2002-2007 and again in 2017 at six sites in the South Fork McKenzie River. Taxonomy of samples collected prior to 2017 have been updated to be consistent with 2017 taxa designations.

Bean CAP Snap Bean Diversity Panel Passport Data

James R. Myers
The accessions used to create the Snap Bean Diversity Panel were 149 snap bean cultivars and germplasm lines selected from North American and European germplasm. This panel was developed with support from the Common Bean Coordinated Agriculture Project (USDA-NIFA grant no. 2009-85606-05964). The accompanying data set contains information, where known, about pod traits and plant growth habit, USDA-NPGS Plant Introduction (PI) number, who bred the cultivar, market class and pod sieve size, plant variety protection...

Heat shock improves random spore analysis in diverse strains of Saccharomyces cerevisiae

Molly Burke, Kaitlin McHugh & Ian Kutch
Random spore analysis (RSA) is a classic method in yeast genetics that allows high-throughput purification of recombinant haploid spores following specific crosses. RSA typically involves a number of steps to induce sporulation, purge vegetative cells that fail to sporulate, and disrupt the ascus walls of sporulated cells to release haploid spores. These steps generally require expensive chemicals and/or enzymes that kill diploid cells but have few effects on spores. In the fission yeast Schizosaccharomcyes pombe,...

Data from: Depth dependent dive kinematics suggest cost-efficient foraging strategies by tiger sharks

Samantha Andrzejaczek, Adrian Gleiss, Karissa Lear, Charitha Pattiaratchi, Taylor Chapple & Mark Meekan
Tiger sharks Galeocerdo cuvier are a keystone, top-order predator that are assumed to engage in cost-efficient movement and foraging patterns. To investigate the extent to which patterns of oscillatory diving by these animals conform to these patterns, we used a biologging approach to model their cost of transport. High-resolution biologging tags with tri-axial sensors were deployed on 21 tiger sharks at Ningaloo Reef for durations of 5-48 hours. Using overall dynamic body acceleration (ODBA) as...

Data from: Addressing incomplete lineage sorting and paralogy in the inference of uncertain salmonid phylogenetic relationships

Matthew Campbell, Thaddaeus Buser, Michael Alfaro & J. Andres Lopez
Recent and continued progress in the scale and sophistication of phylogenetic research has yielded substantial advances in knowledge of the tree of life; however, segments of that tree remain unresolved and continue to produce contradicting or unstable results. These poorly resolved relationships may be the product of methodological shortcomings or of an evolutionary history that did not generate the signal traits needed for its eventual reconstruction. Relationships within the euteleost fish family Salmonidae have proven...

Patterns of annual and seasonal immune investment in a temporal reproductive opportunist

Elizabeth Schultz, Christian Gunning, Jamie Cornelius, Dustin Reichard, Kirk Klasing & Thomas Hahn
Historically, investigations of how organismal investments in immunity fluctuate in response to environmental and physiological changes have focused on seasonally breeding organisms that confine reproduction to seasons with relatively unchallenging environmental conditions and abundant resources. The red crossbill, Loxia curvirostra, is a songbird that can breed opportunistically if conifer seeds are abundant, on both short, cold, and long, warm days, providing an ideal system to investigate environmental and reproductive effects on immunity. In this study,...

Data from: Passive acoustic monitoring effectively detects Northern Spotted Owls and Barred Owls over a range of forest conditions

Leila S. Duchac, Damon B. Lesmeister, Katie M. Dugger, Zachary J. Ruff & Raymond J. Davis
Passive acoustic monitoring using autonomous recording units (ARUs) is a fast-growing area of wildlife research especially for rare, cryptic species that vocalize. Northern Spotted Owl (Strix occidentalis caurina) populations have been monitored since the mid-1980s using mark-recapture methods. To evaluate an alternative survey method, we used ARUs to detect calls of Northern Spotted Owls and Barred Owls (S. varia), a congener that has expanded its range into the Pacific Northwest and threatens Northern Spotted Owl...

Data from: Natural resistance to worms exacerbates bovine tuberculosis severity independently of worm coinfection

Vanessa Ezenwa, Sarah Budischak, Peter Buss, Mauricio Seguel, Gordon Luikart, Anna Jolles & Kaori Sakamoto
Pathogen interactions arising during coinfection can exacerbate disease severity, for example, when the immune response mounted against one pathogen negatively affects defense of another. It is also possible that host immune responses to a pathogen, shaped by historical evolutionary interactions between host and pathogen, may modify host immune defenses in ways that have repercussions for other pathogens. In this case, negative interactions between two pathogens could emerge even in the absence of concurrent infection. Parasitic...

Quantifying temporal variation in dietary niche to reveal drivers of past population declines; stable isotope, harvest trends, and land use

Amanda Cheeseman, Brian Tanis & Elmer Finck
1. Given the long and dynamic history of anthropogenic disturbances to ecosystems, it is difficult to determine the drivers of past population declines. These uncertainties dilute the efficacy of conservation efforts and might hinder species and ecosystem recovery. 2. Niche quantification can be a useful tool for understanding drivers of past population declines. Niche parameters reflect key resources used, providing insight into the conditions needed to achieve population stability. By reconstructing a population’s niche position...

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...

Raw data from: Experimental evolution can enhance benefits of rhizobia to novel legume hosts

Kenjiro Quides, Alexandra Weisberg, Jerry Trinh, Fathi Salaheldine, Paola Cardenas, Hsu-Han Lee, Ruchi Jariwala, Jeff Chang & Joel Sachs
Legumes preferentially associate with and reward beneficial rhizobia in root nodules, but the processes by which rhizobia evolve to provide benefits to novel hosts remain poorly understood. Using cycles of in planta and in vitro evolution, we experimentally simulated lifestyles where rhizobia repeatedly interact with novel plant genotypes with which they initially provide negligible benefits. Using a fullfactorial replicated design, we independently evolved two rhizobia strains in associations with each of two Lotus japonicus genotypes...

Data and scripts from: Total evidence phylogenetic analysis reveals polyphyly of Anostomoides and uncovers an unexpectedly ancient genus of anostomid fishes

Brian Sidlauskas, Fernando Assega, Bruno Melo, Claudio Oliveira & José Birindelli
The nearly 150 species of Anostomidae comprise one of the most diverse and taxonomically dynamic families of Neotropical freshwater fishes. A recent revision of the enigmatic and poorly diagnosed genus Anostomoides demonstrated that it contains two valid species, each with complicated taxonomic histories; however, that study did not address their phylogenetic placement. Herein, we provide the integrated molecular and morphological data and scripts used to demonstrate their distant evolutionary relationship, and thus the polyphyly of...

A method to evaluate body length of live aquatic vertebrates using digital images

Ivan Arismendi, Gwen Bury, Lauren Zatkos & Jeff Snyder
Traditional methods to measure body lengths of aquatic vertebrates rely on anesthetics, and extended handling times. These procedures can increase stress, potentially affecting the animal’s welfare after its release. We developed a simple procedure using digital images to estimate body lengths of coastal cutthroat trout (Oncorhynchus clarkii clarkii) and larval coastal giant salamander (Dicamptodon tenebrosus). Images were post-processed using ImageJ2. We measured more than 1,800 individuals of these two species from 200 pool habitats along...

Data from: Landscape Context Mediates Avian Habitat Choice in Tropical Forest Restoration

J. Leighton Reid, Chase D. Mendenhall, J. Abel Rosales, Rakan A. Zahawi & Karen D. Holl
Birds both promote and prosper from forest restoration. The ecosystem functions birds perform can increase the pace of forest regeneration and, correspondingly, increase the available habitat for birds and other forest-dependent species. The aim of this study was to learn how tropical forest restoration treatments interact with landscape tree cover to affect the structure and composition of a diverse bird assemblage. We sampled bird communities over two years in 13 restoration sites and two old-growth...

Data from: Fungi ahoy! Diversity on marine wooden substrata in the high North

Teppo Rämä, Jenni Nordén, Marie L. Davey, Geir H. Mathiassen, Joseph W. Spatafora & Håvard Kauserud
Marine fungi are severely understudied in the polar regions. We used molecularly identified cultures to study fungi inhabiting 50 intertidal and sea-floor logs along the North Norwegian coast. The aim was to explore the taxonomic and ecological diversity and to examine factors shaping the marine wood-inhabiting fungal communities. The 577 pure cultures analyzed clustered into 147 operational taxonomic units (OTUs) based on 97 % ITS sequence similarity. Ascomycota dominated, but OTUs belonging to Basidiomycota, Mucoromycotina...

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