Dense hyphal mats formed by ectomycorrhizal (EcM) fungi are prominent features in Douglas-fir (Pseudotsuga menziesii) forest soils and have been estimated to cover up to 40% of the forest floor in some stands. Although previous studies have examined various aspects of EcM fungi, little is known about their associated microbial...
Forests and forest soils are some of the largest biologically active carbon reservoirs in the world. Therefore, understanding how disturbances, such as forest harvest, influence biogeochemical cycling is particularly important for managing forests sustainably. Timber harvest can have large impacts on forest soils, which may affect the long-term productivity and...
The objective of this study was to examine the variation among ammonia-oxidizing and denitrifying communities in soils of a natural Fennoscandian boreal forest and of a forest with a long history of fertilization with different levels of nitrogen (N), and to examine whether there are any changes in the microbial...
Ryegrass residue consists of three main C fractions: readily available soluble C, intermediately available cellulose and hemicellulose, and slowly available lignin. Changes in chemical composition during decomposition influence rate of degradation as well as composition of the microbial community involved. Use of ¹³C-labeled plant material coupled with analysis of phospholipid...
The cycling of root-deposited photo synthate (rhizodeposition) through the
soil microbial biomass is widely recognized as a critical component of ecosystem
functioning. Little is currently known about the flow of photosynthate through the
microbial biomass however. My research goal was to examine if and how the flow
of root-deposited photo...
The objectives of this thesis were to examine the links between soil microbial community composition and function using the nitrogen (N) cycle as a model for these interactions and to assess the impact of environmental factors such as microclimate, vegetation type, and nutrient availability on microbial diversity and N transformations...
Inoculation trials were set up in fumigated nursery beds for red alder (Alnus rubra Bong.) seedling production. Frankia inoculum was applied in eight treatments: control, nodule suspension, and three levels of cell suspension (strain ArI5) applied with and without a peat carrier. Seedlings were evaluated at midseason and lifting. The...
The evolutionary relationship between Frankia and actinorhizal plants was evaluated
by reconstructing molecular phylogenetic trees from nifH, 16S rDNA, and rbcL
nucleotide sequences. Subgroupings in Frankia phylogenetic trees reconstructed from
nifH and from 16S rDNA sequences were consistent in terms of plant origins of Frankia
strains. Although the branching order...
Changes in the type and amount of plant inputs can occur gradually, as with succession, or rapidly, as with harvesting or wildfire. With global change it is anticipated that both gradual and immediate scenarios will occur at increasing frequency. Changes in vegetation inputs alter the quality and quantity of soil...
Prior to 2005, ammonia oxidation, the first step of nitrification, was thought mediated mainly by ammonia-oxidizing bacteria (AOB). However, the discovery of Thaumarchaeota carrying the genes coding for the ammonia monooxygenase (AMO) enzyme led to the discovery that ammonia-oxidizing archaea (AOA) also contribute to nitrification. Despite the uptick in studies...
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DavidD. Myrold
Prior to 2005, ammonia oxidation, the first step of nitrification, was
Frankia from root nodules of nine different species of Ceanothus were
characterized. DNA was amplified directly from nodular material using the polymerase
chain reaction (PCR). The amplified region includes the 3' end of the 16S rRNA gene,
the intergenic spacer (IGS), and a large portion of the 23S rRNA gene....
Nitrification and denitrification are major biological processes transforming nitrogen (N) in soils to plant available N, highly leachable nitrate (NO₃⁻) and gaseous N oxides. Although many studies in the past have studied N cycling communities, the effect of increased N inputs on ammonia-oxidizer and denitrifier population dynamics is still under...
Few studies have directly compared denitrifying community composition and activities in soils by coupling molecular-genetic techniques and traditional measures of denitnfication. I investigated communities of denitrifying bacteria from adjacent meadow and forest soils in the Cascade Mountains, Oregon. A key gene in the denitrification pathway, N₂O reductase (nosZ), served as...
Soil nitrogen exists largely as organic matter, including plant liter, dead animal matter, and microbial necromass. About 90% of soil organic nitrogen is proteinaceous material that is too large for plants and microorganisms to assimilate directly. Protein depolymerization therefore plays a critical role in mobilizing this organic source of nitrogen,...
Forests are one of the largest repositories of terrestrial C. Understanding factors that drive organic matter transformations and nutrient efflux from these systems is therefore highly important. Temperate forests are of particular significance due to the large fraction of C that is stored below ground in the soil. Characterizing nutrient...
My research has focused on understanding N and C cycling in soils at small scales. Isotope dilution methods commonly used to estimate gross rates of soil chemical transformations assume homogeneous distribution of label. I explored the effects of diffusion limitations on isotope dilution experiments in soil aggregates using spherical diffusion-reaction...
Algae have shown great potential as a source for renewable fuels. However, current production schemes have not been able to prove a sustainable energy return on investment due in part to the high costs of nutrient addition and the energy required for drying the biomass. Integrated algae-dairy production systems have...
Temperate coniferous forests, such as those that cover vast areas of the western US and Canada, have evolved to depend on cycles of disturbance for succession of species and overall ecosystem maintenance. Many of these forest systems are managed, often for timber production, where disturbances are of anthropogenic origin and...
Algae can be used in a variety of wastewater systems to capture nutrients while fixing carbon dioxide from the atmosphere. I conducted field trials at three locations in Oregon with both corn and potato crops to assess the agronomic value and environmental impact of using the resulting algal biomass as...
Red alder (Alnus rubra Bong.) is recognized as an important source of nitrogen to
ecosystems that it inhabits. I examined N dynamics within alder trees, alder leaf litter, and the soil beneath alder leaf litter. ¹⁵Nitrogen, a stable isotope of N, was used as a tracer to follow the movement...
Soils are a globally significant carbon (C) pool and have the potential to respond to elevated CO2 and environmental changes through positive feedback cycles that enhance the turnover of soil organic matter (SOM). Understanding the mechanisms governing the turnover of SOM is particularly important for modeling the fate of C...
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DavidD. Myrold Kate Lajtha
Soils are a globally significant carbon (C) pool and have the
Forest harvest persists as one of the most globally important industries, and crucially provides raw wood products for both building and fuel materials. Mechanistically complex abiotic and biotic processes curb ecosystem recovery following timber harvest and it is of great importance to understand the effects of this practice on biogeochemical...
Amendments and fertilizers applied to optimize crop production and improve soil health also supply inputs of soil organic matter (SOM) and nutrients that affect soil microorganisms. In the dairy-intensive Pacific Northwest, dairy manure is stored as slurry mixtures until conditions are appropriate for soil application. During storage, the manure begins...
Sagebrush steppe ecosystems in the Great Basin have become increasingly threatened by the proliferation of cheatgrass (Bromus tectorum L.), an invasive annual grass. Diverse sagebrush and perennial bunchgrass landscapes can be converted to homogenous cheatgrass grasslands mainly through the effects of fire. Although the consequences of this conversion are well...
Nitrification is a critical step in the global nitrogen cycle involving the biological oxidation of ammonia (NH₃) to nitrite (NO₂⁻ ) and then to nitrate (NO₃⁻). The first step in nitrification is carried out by NH₃-oxidizing bacteria (AOB) and archaea (AOA), and the second by NO₂⁻-oxidizing bacteria (NOB). In addition...
The use of high throughput molecular methods that allow for the study of bacterial communities in environmental samples is commonplace in microbial ecology. Until recently, fungal community ecology has
focused on isolation, collection of sporocarps, or collection of ectomycorrhizal roots. The techniques used to extract and amplify DNA from environmental...
Ectomycorrhizal fungi (EmF) form symbioses with trees. These symbioses profoundly influence forest ecology. Certain EmF form specialized profusions of hyphae, known as ectomycorrhizal fungal mats (mats) which are visible to the naked eye, alter forest soil biogeochemistry, substantially contribute to soil microbial biomass/respiration and support unique microbial communities. Piloderma and...
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DavidD. Myrold Jane E. Smith
Ectomycorrhizal fungi (EmF) form symbioses with
Most carbon (C) transformations in soil are carried out by a diverse and complex soil microbial community. The size and composition of the soil microbial community is determined by poorly understood interactions between the quantity and chemical composition of plant inputs, as well as climate. Given the metabolic diversity of...
Burkholderia cepacia complex (Bcc) bacteria reside in soil, plant rhizospheres, and water, but the prevalence of Bcc in outdoor environments is not clear. In this study, we sampled a variety of soil and rhizosphere environments with which people may have contact: playgrounds, athletic fields, parks, hiking trails, residential yards and...
In horticultural nurseries for container-grown plants, production and sales have been threatened by the presence of a quarantined plant pathogen, Phytophthora ramorum (causal agent of sudden oak death). Infested nursery beds are an important source of P. ramorum, which can initiate disease through movement with surface water to infect roots...
ABSTRACT
Wetlands are considered critically important in the delivery of ecosystem services such as water quality improvement, flood protection, and conservation of native biodiversity. A common measure of the effectiveness of these ecosystem services is denitrification, an anaerobic microbial process that converts nitrate (NO3-), a common water pollutant, into dinitrogen...
Nitrogen incorporation from red alder (Alnus rubra Bong.) into an Oregon upland mesic forest soil was studied by tracing the fate of 15N added as 15N-labeled alder leaf litter. The recovery of 15N in vegetation, litter, light- and heavy-fractions of the soil, the chloroform-labile (microbial biomass) pool, and the whole...
Although ammonia-oxidizing archaea (AOA) and bacteria (AOB) coexist in most non-acidic agricultural soils, the factors that influence their relative contributions to soil nitrification activity remain unclear. A 2- to 4-d whole soil microcosm assay was developed, utilizing the aliphatic C₈ alkyne 1-octyne to inactivate AOB-driven nitrification activity without impacting AOA...
Proteinaceous compounds are abundant forms of organic nitrogen in soil and aquatic ecosystems, and the rate of protein depolymerization, which is accomplished by a diverse range of microbial secreted peptidases, often limits nitrogen turnover in the environment. To determine if the distribution of secreted peptidases reflects the ecological and evolutionary...
The use of smart tracers to study hydrologic systems is becoming more widespread. Smart tracers are compounds that irreversibly react in the presence of a process or condition under investigation. Resazurin (Raz) is a smart tracer that undergoes an irreversible reduction to resorufin (Rru) in the presence of cellular metabolic...
Seasonality is defined as a change in mood and behavior with the seasons. Research shows there is a possible connection between vitamin D levels and mood (Murphy & Wagner, 2008; Lansdowne & Provost, 1998). Given that vitamin D is produced when skin is exposed to sunlight and varies with sun...
Use of high-strength steel (HSS) reinforcing bars could provide constructability and economic benefits for the construction of structures, reducing the initial and ultimately the life-cycle cost of bridge and building structural elements. This thesis summarizes work performed in a research project on the use of HSS reinforcing bars for concrete...
The role of insect herbivores in the nutrient cycling dynamics of forest ecosystems remains poorly understood. Although past research in herbivory has focused primarily on the deleterious effects that insects can have on tree growth and mortality, the overall effects of herbivory are more complex. Herbivores have the potential to...
My thesis explores the later work of author J.D. Salinger, including two narratives featured in Nine Stories, "A Perfect Day for Bananafish," and "Teddy," and Franny and Zooey, "Raise High the Roof Beam, Carpenters," and "Seymour: an Introduction." Through my analysis I argue that the religious nature of Salinger's fiction...
Sagebrush steppe ecosystems are one of the most widespread but endangered ecosystems in North America. A diverse array of human-related stressors has gradually compromised these ecosystems' resilience to disturbance and invasion by Bromus tectorum (cheatgrass). The role of the foundational shrub Artemisia as a driver of herbaceous community structure and...
Human cathelicidin antimicrobial peptide (CAMP/LL-37) is a cationic antimicrobial peptide that is widely expressed by myeloid and epithelial cells at the human-environment interface. It possesses broad spectrum antimicrobial capacity against bacteria, fungi and viruses. In addition to its direct antimicrobial activity, CAMP/LL-37 also attracts and recruits monocytes, neutrophils and other...
The Levels-of-Growing-Stock Studies in Douglas-fir is a regional cooperative to investigate the effects of levels of growing stock on young stand growth. The Hoskins
installation, in western Oregon, was established in a dense, high site natural stand at total age 20 years. The initial thinning resulted in an immediate 131...
After three decades of active research in hydrology and stream ecology, the connection between solute transport, stream metabolism and nutrient dynamics is still unresolved. This existing gap obscures the functionality of stream ecosystems and how they interact with other landscape processes. To date, determining rates of metabolism is accomplished with...
It is well known that the ratio of ammonia oxidizing archaea (AOA) and bacteria (AOB) ranges widely in soils, but no data exist on what might influence this ratio, its dynamism, or how changes in relative abundance influences the potential contributions of AOA and AOB to soil nitrification. By sampling...
Soil dissolved organic carbon (DOC) is a small but crucial part of the forest carbon cycle. Characterizing the relationship between detrital inputs and soil DOC chemistry is crucial to understanding the ultimate fate of root carbon, fallen wood and needles. Chemical differences in the DOC pool may help to explain...
The role of the nonionic surfactant Tween 80 on the behavior of the therapeutic recombinant protein Factor VIII (rFVIII) was investigated at solid/liquid and air/water interfaces. In order to provide a model system to compare results obtained for the complicated rFVIII-Tween system, a well-characterized globular protein lysozyme was used. The...
Coastal blue carbon ecosystems offer a variety of important ecosystem services, including exceptional rates of carbon sequestration and long-term carbon storage. Because these ecosystems disproportionately influence global carbon cycling, understanding their soil characteristics may help guide long-term climate change mitigation and adaptation strategies. Recently, Kauffman et al. (2020) observed the...