Understanding controls over the distribution of soil bacteria is a fundamental Understanding controls over the distribution of soil bacteria is a fundamental step toward describing soil ecosystems, understanding their functional capabilities, and predicting their responses to environmental change. This study investigated the controls on the biomass, species richness, and community...
Senate Bill 100 (1973) and the Oregon Land Conservation and Development
Commission’s (LCDC) goals (1975) required:
- Cities to adopt urban growth boundaries (UGBs) to contain sprawl, and
- Counties to use zoning to limit 15.6 million acres of farmland to farm use, and 8.0
million acres of forest land...
The purpose of this study was to determine if feeding dogs medium-chain triglycerides (MCT), fish oil, and L-carnitine enriched foods offsets age-associated changes in serum fatty acids (FA) and carnitine metabolites. Forty-one healthy Beagles, mean age 9.9 years (range 3.1 to 14.8), were fed control or one of two treatment...
A new weevil species (urn:lsid:zoobank.org: act:2D5E9E4A-A250-4D0A-AF69-CF4753436686), Pseudopilolabus othnius Poinar, Brown and Legalov, sp. nov. (Coleoptera: Attelabidae), is described from Dominican amber. The new species is close to the extant P. viridanus (Gyllenhal, 1839) and P. splendens (Gyllenhal, 1839) but differs by having a bronzed body, narrower and more convex elytral...
Several taxonomic issues in the moth families Erebidae and Noctuidae are addressed for Northwestern North America. Drasteria parallela Crabo & Mustelin and Cycnia oregonensis tristis Crabo in the Erebidae and Eudryas brevipennis bonneville Shepard & Crabo, Resapamea diluvius Crabo, Resapamea angelika Crabo, Resapamea mammuthus Crabo, Fishia nigrescens Hammond & Crabo,...
In the rabbit model of syphilis, infection phenotypes associated with the Nichols and Chicago strains of Treponema pallidum (T. pallidum), though similar, are not identical. Between these strains, significant differences are found in expression of, and antibody responses to some candidate virulence factors, suggesting the existence of functional genetic differences...
Broadband absorption spectroscopy, by way of FTIR, was used to investigate the vapor cloud of a single millimeter sized liquid droplet suspended by a syringe as it evaporates at standard conditions. Single beam data were collected every 8 seconds resulting in a time-resolved record. Species concentrations were tracked using their...
Sporadic canine colorectal cancers (CRCs) should make excellent models for studying the corresponding human cancers. To molecularly characterize canine CRC, we investigated exonic sequence mutations of adenomatous polyposis coli (APC), the best known tumor suppressor gene of human CRC, in 23 sporadic canine colorectal tumors, including 8 adenomas and 15...
Air was sampled from the porous firn layer at the NEEM site in Northern Greenland. We use an ensemble of ten reference tracers of known atmospheric history to characterise the transport properties of the site. By analysing uncertainties in both data and the reference gas atmospheric histories, we can objectively...
Since the preindustrial era, the average surface ocean pH has declined by 0.1 pH units and is predicted to decline by an additional 0.3 units by the year 2100. Although subtle, this decreasing pH has profound effects on the seawater saturation state of carbonate minerals and is thus predicted to...
All existing sea otter, Enhydra lutris, populations have suffered at least one historic population bottleneck stemming from the fur trade extirpations of the eighteenth and nineteenth centuries. We examined genetic variation, gene flow, and population structure at five microsatellite loci in samples from five pre-fur trade populations throughout the sea...
We used microsatellite DNA data and genetic stock identification methods to delineate the temporal and spatial distributions of juvenile Chinook Salmon Oncorhynchus tshawytscha occupying coastal habitats extending from central Oregon to northern Washington. Juveniles were collected in trawl surveys conducted during spring, summer, and autumn over 15 years. Distributions (mean...
Abstract: Background: Chronic exposure to arsenic in drinking water is associated with increased risk of type 2 diabetes mellitus (T2DM) but the underlying molecular mechanism remains unclear.
Objectives: This study evaluated the interaction between single nucleotide polymorphisms (SNPs) in genes associated with diabetes and arsenic exposure in drinking water on...
We characterize how regional watersheds function as simple, dynamic systems through a series of hysteresis loops using measurements from NASA's Gravity Recovery and Climate Experiment (GRACE) satellites. These loops illustrate the temporal relationship between runoff and terrestrial water storage in three regional-scale watersheds (> 150 000 km²) of the Columbia...
We characterize how regional watersheds function as simple, dynamic systems through a series of hysteresis loops. These loops illustrate the temporal relationship between runoff and terrestrial water storage using measurements from NASA's Gravity Recovery and Climate Experiment (GRACE) satellites in three regional-scale watersheds (>150 000 km² ) of the Columbia...
As long-standing keepers of democracy and information stewardship, library professionals are a natural fit for advocating and promoting sustainability within their communities. From seed libraries to Occupy Wall Street libraries, their view of sustainability extends beyond environmental concerns to include community activism, economic development, and social equity. Empowering people, facilitating...
It has been hypothesized that horizontal gene/chromosome transfer and parasexual recombination following hyphal fusion between different strains may contribute to the emergence of wide genetic variability in plant pathogenic and other fungi. However, the significance of vegetative (heterokaryon) incompatibility responses, which commonly result in cell death, in preventing these processes...
We present high-resolution measurements of carbon monoxide (CO) concentrations from a shallow ice core of the North Greenland Eemian Ice Drilling project (NEEM-2011-S1). An optical-feedback cavity-enhanced absorption spectrometer (OF-CEAS) coupled to a continuous melter system performed continuous, online analysis during a four-week measurement campaign. This analytical setup generated stable measurements...
The effects of selection on genome variation were investigated and visualized in tomato using a high-density single nucleotide polymorphism (SNP) array. 7,720 SNPs were genotyped on a collection of 426 tomato accessions (410 inbreds and 16 hybrids) and over 97% of the markers were polymorphic in the entire collection. Principal...
The Greenland NEEM (North Greenland Eemian Ice Drilling) operation in 2010 provided the first opportunity to combine trace-gas measurements by laser spectroscopic instruments and continuous-flow analysis along a freshly drilled ice core in a field-based setting. We present the resulting atmospheric methane (CH₄) record covering the time period from 107.7...
Truffles have evolved from epigeous (aboveground) ancestors in nearly every major lineage of fleshy fungi. Because accelerated rates of morphological evolution accompany the transition to the truffle form, closely related epigeous ancestors remain unknown for most truffle lineages. This is the case for the quintessential truffle genus Tuber, which includes...
Background: DNA barcoding of rain forest trees could potentially help biologists identify species and discover new ones. However, DNA barcodes cannot always distinguish between closely related species, and the size and completeness of barcode databases are key parameters for their successful application. We test the ability of rbcL, matK and...
Mediterranean populations of loggerhead Caretta caretta and green sea turtles Chelonia mydas are subject to several anthropogenic threats, with documented mortality from incidental capture in fishing gear. However, how such mortalities actually affect the populations is uncertain without an estimate of population size. We derived a theoretical demographic structure for...
Nanotechnology is of increasing significance. Curation of nanomaterial data into electronic databases offers opportunities to better understand and predict nanomaterials’ behaviour. This supports innovation in, and regulation of, nanotechnology. It is commonly understood that curated data need to be sufficiently complete and of sufficient quality to serve their intended purpose....
Ammonia oxidation is the first and rate-limiting step in nitrification and is dominated by two distinct groups of microorganisms in soil: ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB). AOA are often more abundant than AOB and dominate activity in acid soils. The mechanism of ammonia oxidation under acidic conditions has...
In We have analyzed natural variation in mitochondrial form and function among a set of Caenorhabditis briggsae isolates known to harbor mitochondrial DNA structural variation in the form of a heteroplasmic nad5 gene deletion (nad5 Delta) that correlates negatively with organismal fitness. We performed in vivo quantification of 24 mitochondrial...
The diurnal fluctuations in solar irradiance impose a fundamental frequency on ocean biogeochemistry. Observations of the ocean carbon cycle at these frequencies are rare, but could be considerably expanded by measuring and interpreting the inherent optical properties. A method is presented to analyze diel cycles in particulate beam-attenuation coefficient (c[subscript...
Genomic instability drives tumorigenesis, but how it is initiated in sporadic neoplasias is unknown. In early preneoplasias, alterations at chromosome fragile sites arise due to DNA replication stress. A frequent, perhaps earliest, genetic alteration in preneoplasias is deletion within the fragile FRA3B/FHIT locus, leading to loss of Fhit protein expression....
We reconstructed oxygenation changes in the Oxygen Minimum Zone of the upwelling ecosystem off Concepción (36° S), Chile, using inorganic and organic proxies in a sediment core covering the last ca. 110 years of sedimentation in this area. Authigenic enrichments of Mo, U and Cd were observed between ca. 1935–1971...
The study of time-dependent, many-body transport phenomena is increasingly within reach of ultra-cold atom experiments. We show that the introduction of spatially inhomogeneous interactions, e.g., generated by optically controlled collisions, induce negative differential conductance in the transport of atoms in one-dimensional optical lattices. Specifically, we simulate the dynamics of interacting...
Long-term ecological data are crucial in helping ecologists understand ecosystem function and environmental change. Nevertheless, these kinds of data sets are difficult to analyze because they are usually large, multivariate, and spatiotemporal. Although existing analysis tools such as statistical methods and spreadsheet software permit rigorous tests of pre-conceived hypotheses and...
We reconstructed oxygenation changes in the upwelling ecosystem off Concepción (36° S), Chile, using inorganic and organic proxies in a sediment core covering the last ca. 110 years of sedimentation in this area. Authigenic enrichments of Mo, U and Cd were observed between ca. 1935 and 1971 CE, implying a...
This is the PowerPoint (PDF) file for a 60-minute workshop for graduate students covering data management best practices. Topics covered include general recommendations for data management in terms of planning, data description (metadata), file formats and naming conventions, ethics and consent, copyright, and sharing and archiving of data. The workshop...
As tail docking bans are sweeping Europe, Australia, and South Africa, the United States is facing increased scrutiny on whether or not the procedure should be permitted. Many European countries are reestablishing breed standards to allow dogs of natural composition to be shown, unlike most major U.S. shows. The American...
The size of the bioavailable (i.e., “fixed”) nitrogen inventory in the ocean influences global marine productivity and the biological carbon pump. Despite its importance, the pre-industrial rates for the major source and sink terms of the oceanic fixed nitrogen budget, N₂ fixation and denitrification, respectively, are not well known. These...
A major challenge for biodiversity conservation is to mitigate the effects of future environmental change, such as land use, in important areas for biodiversity conservation. In the United States, recent conservation efforts by The Nature Conservancy and partners have identified and mapped the nation's Areas of Biodiversity Significance (ABS), representing...
When assessing differential gene expression from RNA sequencing data, commonly used statistical tests tend to have greater power to detect differential expression of genes encoding longer transcripts. This phenomenon, called "length bias", will influence subsequent analyses such as Gene Ontology enrichment analysis. In the presence of length bias, Gene Ontology...
This is the publisher’s final pdf. The published article is copyrighted by the author(s) and published by the Hindawi Publishing Corporation. The published article can be found at: http://dx.doi.org/10.1155/2015/169256
Executive Summary:
Oregon State University Libraries and Press (OSULP) demonstrates the value of openness in a variety of ways. We worked with faculty to pass an open access policy to provide the broadest possible access to university scholarship. We teach faculty and students to use data tools that promote the...
Southwestern US irrigated landscapes are facing
upheaval due to water scarcity and land use conversion associated
with climate change, population growth, and changing
economics. In the traditionally irrigated valleys of northern
New Mexico, these stresses, as well as instances of community
longevity in the face of these stresses, are apparent....
Advances in trace gas analysis allow localised, non-atmospheric features to be resolved in ice cores, superimposed on the coherent atmospheric signal. These high-frequency signals could not have survived the low-pass filter effect that gas diffusion in the firn exerts on the atmospheric history and therefore do not result from changes...
Reproductively and geographically isolated populations of predators may be synchronized by a phenomenon known as the Moran effect—specifically if they exhibit common responses to external processes, such as climate, density dependence (parasites, disease), or prey. Prey has the ability to synchronize predators if geographically isolated predator populations target the same...
During the last 3 decades, tagging technology has been used to study different aspects of cetacean ecology. Tags implanted in animal’s blubber, muscle and surrounding tissue have produced successful results, providing information on long-term movements. However, apart from the reports of ‘divots’ (depressions) and swelling at the tag sites in...
Correction
17 Oct 2012: Eng D, Ma HY, Xu J, Shih HP, Gross MK, et al. (2012) Correction: Loss of Abdominal Muscle in Pitx2 Mutants Associated with Altered Axial Specification of Lateral Plate Mesoderm. PLOS ONE 7(10): 10.1371/annotation/c980d5a1-1899-4d30-af7b-573d4049cf4b
The viral family Arenaviridae includes a number of viruses that can cause hemorrhagic fever in humans. Arenavirus infection often involves multiple organs and can lead to capillary instability, impaired hemostasis, and death. Preclinical testing for development of antiviral or therapeutics is in part hampered due to a lack of an...
With the continued and unprecedented decline of coral reefs worldwide, evaluating the factors that contribute to coral demise is of critical importance. As coral cover declines, macroalgae are becoming more common on tropical reefs. Interactions between these macroalgae and corals may alter the coral microbiome, which is thought to play...
We previously found that inhibition of the TCA cycle, either through mutations or chemical inhibition, increased toxT transcription in Vibrio cholerae. In this study, we found that the addition of malonate, an inhibitor of succinate dehydrogenase (SDH), decreased toxT transcription in V. cholerae, an observation inconsistent with the previous pattern...
Background: Improved maps of species distributions are important for effective management of wildlife under increasing anthropogenic pressures. Recent advances in lidar and radar remote sensing have shown considerable potential for mapping forest structure and habitat characteristics across landscapes. However, their relative efficacies and integrated use in habitat mapping remain largely...
The pseudo-glycosyltransferase VldE catalyzes non-glycosidic C-N coupling between an unsaturated cyclitol and a saturated aminocyclitol with the conservation of the stereochemical configuration of the substrates to form validoxylamine A 7'-phosphate, the biosynthetic precursor of the antibiotic validamycin A. To study the molecular basis of its mechanism, the three-dimensional structures of...