Index Catalog // ScholarsArchive@OSU

The detection of ilarvirus (subgroup B) by enzyme-linked immunosorbent assay

Creator:: McMorran, Jeffrey P.
Abstract:: The reliability and sensitivity of enzyme-linked immunosorbent assay (ELISA) in the detection of ilarvirus (isometric labile ringspot virus) subgroup B and prune dwarf virus (PDV) isolates in Prunus and Malus species has been well established. To use this technique in large scale virus indexing programs more information was required on...
Resource Type:: Masters Thesis
Full Text:: immunosorbent assay AN ABSTRACT OF THE THESIS OF Jeffrey P. McMorran for the degree of Master of Science in

Histological comparisons of needle tissues of four species of white pine infected by Cronartium ribicola

Creator:: Sweeney, Katarina
Abstract:: Hypersensitive response-like (HR-like) needle reactions to infection by the white pine blister rust pathogen, Cronartium ribicola, have been reported for several species of five needle pines native to western North America. The best-studied examples are in Pinus monticola and P. lambertiana. In these species a "needle spot" phenotype has been...
Resource Type:: Masters Thesis
Full Text:: needle pines native to western North America. The best-studied examples are in Pinus monticola and P

Characterizing novel bacterial isolates that inhibit the growth of gall-forming phytopathogenic bacteria

Creator:: Belcher, Michael S.
Abstract:: Agrobacterium tumefaciens and Rhodococcus fascians are plant pathogenic bacteria that can induce crown and leafy galls on plants, respectively. Infection by these bacteria results in disfigured, unsellable plants, leading to significant economic losses to the nursery industry. A. tumefaciens and R. fascians are capable of infecting a broad range of...
Resource Type:: Poster
Full Text:: . Savory1, Mostafa Abougren 1, Melodie Putnam1, Taifo Mahmud2, and Jeff H. Chang1 Department of Botany

Lichen response to the environment and forest structure in the western Cascades of Oregon

Creator:: Martin, Erin P.
Abstract:: Lichens are an important part of the biota in western Oregon forests, where they perform valuable ecological roles and contribute significantly to biodiversity. Lichens in western Oregon are threatened by a number of factors including air pollution and land use practices. If we wish to maintain the persistence of lichens...
Resource Type:: Dissertation
Full Text:: AN ABSTRACT OF THE DISSERTATION OF Erin P. Martin for the

Analysis and prediction of patterns in lichen communities over the western Oregon landscape

Creator:: Peterson, Eric B.
Abstract:: The diverse lichen flora of the Pacific Northwest is being impacted by population growth and by forest management practices. Accumulating information about our lichen flora will improve our conservation strategies. This dissertation first collects information to improve our understanding of how lichen communities vary among forests of differing structure, and...
Resource Type:: Dissertation
Full Text:: Prediction of Patterns in Lichen Communities over the Western Oregon Landscape. Abstract Approved: Bruce P

Phytosanitation of Douglas-fir (Pseudotsuga menziesii) logs to mitigate the risk of artificially disseminating Phytophthora ramorum within the global trade of timber

Creator:: Hulbert, Joseph M.
Abstract:: Phytophthora ramorum is a plant pathogen that was accidentally introduced to the United States. This invasive microorganism has killed over a million trees in California and Oregon, and continues to spread to new areas. Diseased areas have been nationally quarantined to prevent further spread and more than ninety countries include...
Resource Type:: Masters Thesis
Full Text:: examined the potential for P. ramorum to colonize Douglas-fir logs and the ability of disodium octaborate

Effects of intercropping beans with maize on angular leaf spot and rust of beans

Creator:: Boudreau, Mark Alan, 1958-
Abstract:: Experiments were performed to determine the nature of maize influence on bean disease in additive-type intercrops. Overall effects of intercrops on angular leaf spot (caused by Phaeoisariopsis griseola) in Kenya indicated >23% reductions (P<0.05) in area under the disease progress curve (AUDPC) in two of three season-site combinations. Fertilization tended...
Resource Type:: Dissertation
Full Text:: Phaeoisariopsis griseola) in Kenya indicated >23% reductions (P<0.05) in area under the disease progress curve

TonB-dependent outer-membrane proteins of Pseudomonas fluorescens : diverse and redundant roles in iron acquisition

Creator:: Hartney, Sierra L.
Abstract:: Pseudomonas is a diverse genus of Gram-negative bacteria that includes pathogens of plants, insects, and humans as well as environmental strains with no known pathogenicity. Pseudomonas fluorescens itself encompasses a heterologous group of bacteria that are prevalent in soil and on foliar and root surfaces of plants. Some strains of...
Resource Type:: Dissertation
Full Text:: on foliar and root surfaces of plants. Some strains of P. fluorescens suppress plant diseases and

Integration of Evolutionary Theory and Genomics to Understand Processes Involved in Host Adaptation and Divergence in Phytophthora Plant Pathogens

Creator:: Tabima, Javier F.
Abstract:: Modern plant pathology benefits from integrating methods and concepts from evolutionary biology. For example, evolutionary concepts are used to identify and examine species boundaries of plant pathogens, recognize processes underlying pathogen biogeography, identify traits that characterize emerging species, and discover new molecular interactions that originate under processes of selection. In...
Resource Type:: Dissertation
Full Text:: Phytophthora: P. rubi and P. fragariae, two important pathogens of Rosaceae species. P. rubi is found in the

Pendent Usnea (Lichens; Ascomycetes; Parmeliaceae) in Western Oregon : taxonomy; morphological characters; and geographical distribution

Creator:: Pittam, Sherry K.
Abstract:: Pendent Usnea species were collected in western Oregon and examined. Character states, such as cortex-medulla-axis ratio; fibril length; papilla diameter; branching patterns; and presence or absence of fibrils, papillae, soredia, isidia; plus chemistry, were recorded and analyzed by inspection for differences. Historical names were researched in the literature. A comparison...
Resource Type:: Masters Thesis
Full Text:: grateful to my committee members, Dr. William Denison, Dr. Paul Farber, Dr. Bruce McCune, and Dr. Jeff

Analysis of the maize TOUSLED-LIKE KINASE gene family

Creator:: Yoon, Elizabeth S.
Abstract:: Protein kinases are an abundant class of enzymes which play important roles in numerous signal transduction systems. Arabidopsis TOUSLED kinase is a serine/threonine kinase which is essential for cell-cell communication within the shoot meristem. TOUSLED is encoded by a single gene in Arabidopsis. Recessive mutants in this gene show mild...
Resource Type:: Masters Thesis
Full Text:: would also like to thank the other members of my committee, Drs. Tom Wolpert, Terri Lomax, and Jeff

Port-Orford-cedar and Phytophthora lateralis : grafting and heritability of resistance in the host, and variation in the pathogen

Creator:: McWilliams, Michael G.
Abstract:: Port-Orford-cedar (Chamaecyparis lawsoniana) is a forest tree native to a small area of Oregon and California. A root disease caused by Phytophthora lateralis causes widespread mortality of Port-Orford-cedar. This dissertation examines three important elements of the Port-Orford-cedar P. lateralis pathosystem related to breeding for disease resistance: use of resistant rootstocks...
Resource Type:: Dissertation
Full Text:: dissertation examines three important elements of the Port-Orford- cedar P. lateralis pathosystem related to

The reproductive ecology of the pacific yew (Taxus brevifolia nutt.) under a range of overstory conditions in western Oregon

Creator:: DiFazio, Stephen P.
Abstract:: The influence of overstory openness on the reproductive ecology of Pacific yew (Taxus brevifolia Nutt.) was investigated on 4 sites in western Oregon over 2 years. The breeding system of T. brevifolia was found to deviate from pure dioecy under a broad range of canopy and site conditions. Production of...
Resource Type:: Masters Thesis
Full Text:: Stephen P. DiFazio for the degree of Master of Science in Botany and Plant Pathology presented on May 5

A G-type Lectin Receptor-like Kinase Associated with Septoria Canker Resistance and Susceptibility Described using Multi-omics and Biotechnology

Creator:: Lenz, Ryan R.
Abstract:: Managers of forest and plantation ecosystems are encountering growing problems involving plant pathogens and the expanding geographic ranges of these pathogens. Historically unexposed stands are exceptionally vulnerable when a non-native pathogen is introduced because these pathogens can cause devastating disease in a host population that lacks co-evolved resistance mechanisms. One...
Resource Type:: Dissertation
Full Text:: that differentiate the response to S. musiva between a resistant and susceptible P. trichocarpa

Characterizing the role of fasR in phytopathogenic Rhodococcus

Creator:: Stevens, Danielle M.
Resource Type:: Poster
Full Text:: phytopathogenic Rhodococcus Danielle M. Stevens1, Elizabeth A. Savory1, Skylar Fuller1, and Jeff H. Chang1,2,3

Length Bias Correction in Gene Ontology Enrichment Analysis Using Logistic Regression

Creator:: Mi, Gu, Di, Yanming, Emerson, Sarah, Cumbie, Jason S., and Chang, Jeff H.
Abstract:: 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...
Resource Type:: Article
Full Text:: , Jeff H. Chang2,3,4 1 Department of Statistics, Oregon State University, Corvallis, Oregon, United

RNA-Seq analysis of early infected potato leaves by potato virus Y in resistant and susceptible potato varieties

Creator:: Goyer, Aymeric, Hamlin, Launa, Crosslin, James M., Buchanan, Alex, and Chang, Jeff H.
Abstract:: Background Potato Virus Y (PVY) is one of the most important plant viruses affecting potato production. The interactions between potato and PVY are complex and the outcome of the interactions depends on the potato genotype, the PVY strain, and the environmental conditions. A potato cultivar can induce resistance to a...
Resource Type:: Article
Full Text:: Aymeric Goyer1,2,3*, Launa Hamlin4, James M. Crosslin4, Alex Buchanan1 and Jeff H. Chang1,3 Abstract

Photoacclimation in Marine Phytoplankton Under Various Light and Nutrient Regimes and the Resulting Effect on Photosynthetic Electron Flow and Chlorophyll Fluorescence Transients

Creator:: Brown, Matthew B.
Abstract:: Photoacclimation is the process by which plants and phytoplankton adjust the concentration and composition of their photosynthetic machinery (i.e. their photoacclimation state) in response to changes in their light or nutrient environment. The purpose of photoacclimation is to balance the rate at which light energy is absorbed with the energetic...
Resource Type:: Dissertation
Full Text:: Fluorescence curves from semi-continuous batch cultures of (A) D. tertiolecta, (B) T. weissflogii, and (C) P

Seeing Genes: Multiscale Phenotyping Reveals Gene Functions in Maize Pollen

Creator:: Warman, Cedar D.
Abstract:: Plant sexual reproduction requires a broad array of molecular mechanisms to proceed successfully. Some of these mechanisms are well-studied, but our knowledge of them as a whole is fundamentally incomplete. Pollen tube growth is a key part of this process, facilitating the delivery of the sperm cells to the female...
Resource Type:: Dissertation
Full Text:: , Agarwal A, Barham P, et al (2016) TensorFlow: Large-Scale Machine Learning on Heterogeneous Distributed

Genetic Structure in Populations of the Douglas-fir Swiss Needle Cast Fungus Nothophaeocryptopus gaeumannii

Creator:: Bennett, Patrick I.
Abstract:: The fungus Nothophaeocryptopus gaeumannii is the causative agent of Swiss needle cast (SNC), a foliar disease of Douglas-fir. Disease is characterized by premature loss of foliage and reduced growth resulting from the inhibition of photosynthesis due to the occlusion of stomata by the ascocarps of N. gaeumannii. Although the disease...
Resource Type:: Dissertation
Full Text:: , Dr. Jeff Stone, for his kind patience and great wisdom to which I owe a great deal of my success

The effects of nitrogen manipulations and hydrology on the establishment and competitive abilities of wetland prairie plant species (western Oregon)

Creator:: Davis, Kimberly J.
Abstract:: Many studies suggest that weedy plant species are most successful when soil nitrogen in abundant. Consequently, I used soil nitrogen manipulations to determine if altering nitrogen would affect the establishment of both weedy and native plant species in a western Oregon wetland prairie. In two studies, we added carbon amendments...
Resource Type:: Dissertation
Full Text:: presented on August 15. 2000 APPROVED: Major Professór,representing Botany & Plant P Chair of Department

A Putative PAMP-Induced Peptide Family Member is Associated with Symptom Severity to the Necrotic Strain NTN of Potato Virus Y in Potato

Creator:: Combest, Max M.
Abstract:: Potato Virus Y (PVY) is an enduring problem for potato production worldwide. Potato varieties that resist the “ordinary” strain PVYO were developed by breeders, but in recent years, recombinant strains of PVY have been able to circumvent this strain-specific resistance and evade growers and seed certification officials by causing fewer...
Resource Type:: Masters Thesis
Full Text:: graduate studies at Oregon State. Firstly, I’d like to thank my committee for their help: Jeff for giving

Inferring Patterns and Processes of Emergence in Clonal Phytophthora Epidemics using Population Genomic Approaches

Creator:: Cauldron, Nicholas C.
Abstract:: Oomycete and fungal pathogens threaten food, fiber, and forests around the world. With climate change, these pathogens are expected to emerge more frequently. Evolution can facilitate their emergence through mechanisms such as mutations that change or expand host range. Characterizing evolutionary mechanisms in plant pathogens will contribute to our ability...
Resource Type:: Dissertation
Full Text:: Europe. Many oomycetes and fungi including P. ramorum have mixed mating systems, allowing them to

Mutualistic Co-evolution of Type III Effector Genes in Sinorhizobium fredii and Bradyrhizobium japonicum

Creator:: Kimbrel, Jeffrey A., Thomas, William J., Jiang, Yuan, Creason, Allison L., Thireault, Caitlin A., Sachs, Joel L., and Chang, Jeff H.
Abstract:: Two diametric paradigms have been proposed to model the molecular co-evolution of microbial mutualists and their eukaryotic hosts. In one, mutualist and host exhibit an antagonistic arms race and each partner evolves rapidly to maximize their own fitness from the interaction at potential expense of the other. In the opposing...
Resource Type:: Article
Full Text:: ., Yuan Jiang3,4, Allison L. Creason1,2, Caitlin A. Thireault1, Joel L. Sachs5, Jeff H. Chang1,2,4* 1

The Plant Actin Cytoskeleton Responds to Signals from Microbe-Associated Molecular Patterns

Creator:: Henty-Ridilla, Jessica L., Shimono, Masaki, Li, Jiejie, Chang, Jeff H., Day, Brad, and Staiger, Christopher J.
Abstract:: Plants are constantly exposed to a large and diverse array of microbes; however, most plants are immune to the majority of potential invaders and susceptible to only a small subset of pathogens. The cytoskeleton comprises a dynamic intracellular framework that responds rapidly to biotic stresses and supports numerous fundamental cellular...
Resource Type:: Article
Full Text:: , Jeff H. Chang3, Brad Day2*, Christopher J. Staiger1,4* 1 Department of Biological Sciences, Purdue

Characterization of the transition to the progamic phase in Zea mays pollen

Creator:: Smyth, Johanna C.
Abstract:: The transition of mature pollen to the progamic phase represents an important step in the regulation of plant sexual reproduction. The progamic phase encompasses the initiation of pollen tube germination, growth of the pollen tube through the stigma (the silk in maize) and concludes with fertilization of the female gametophyte....
Resource Type:: Dissertation
Full Text:: , Jeff Change, Aaron Liston, and my graduate student representative Walt Ream. Lastly, I am so

Variable Suites of Non-effector Genes Are Co-regulated in the Type III Secretion Virulence Regulon across the Pseudomonas syringae Phylogeny

Creator:: Mucyn, Tatiana S., Yourstone, Scott, Lind, Abigail L., Biswas, Surojit, Nishimura, Marc T., Baltrus, David A., Cumbie, Jason S., Chang, Jeff H., Jones, Corbin D., Dangl, Jeffery L., and Grant, Sarah R.
Abstract:: Pseudomonas syringae is a phylogenetically diverse species of Gram-negative bacterial plant pathogens responsible for crop diseases around the world. The HrpL sigma factor drives expression of the major P. syringae virulence regulon. HrpL controls expression of the genes encoding the structural and functional components of the type III secretion system...
Resource Type:: Article

Ecological thresholds, climate extremes, and tree species' distributions across the Pacific coastal United States

Creator:: Lintz, Heather E.
Abstract:: Species' distributions across the landscape are perhaps the least understood yet most conspicuous features of life on earth. Ecologists have long studied species' distributions; yet, many questions remain about why species occur where they do. Such questions persist largely because species' distributions are complex systems with challenging properties like non-linearity,...
Resource Type:: Dissertation
Full Text:: for putting up with my long work hours. A very heartfelt thank you is for my partner, Jeff, for his

Role of GacSA Two-component System and Bacterial Surface Attachment in Pseudomonas syringae Virulence

Creator:: O'Malley, Megan R.
Abstract:: Pseudomonas syringae are plant pathogenic bacteria that cause disease by rapidly multiplying within the aboveground tissues of host plants. Growth of P. syringae within plant host tissues requires the disarmament of host immune defenses that limit microbial growth. To combat host defenses, P. syringae deploys a type III secretion system...
Resource Type:: Dissertation
Full Text:: disease by rapidly multiplying within the aboveground tissues of host plants. Growth of P. syringae

Ascospore viability and dispersal from pruned branches infected with Anisogramma anomala

Creator:: Heckert, Stephanie
Abstract:: Viability and dispersal of ascospores of Anisogramma anomala, the cause of eastern filbert blight (EFB) on European hazelnut, from diseased branches pruned from trees were measured. In each of two years, branches bearing stromata of A. anomala were cut in mid-December and compared to branches cut near budbreak in March,...
Resource Type:: Masters Thesis
Full Text:: . Near sources significantly higher (P. < 0.01) ascospores counts were obtained for branches cut near

Environmental factors influencing the rate of spread of Phellinus weirii (Murr.) Gilbertson in young-growth Douglas-fir

Creator:: Angwin, Peter A.
Abstract:: Studies to identify the environmental factors that influence the rate of ectotrophic mycelial growth of Phellinus weirii (Murr.) Gilbertson along Douglas-fir roots were undertaken both in the laboratory and in the field. The effects of soil pH, nitrogen, moisture, temperature, microorganisms and bulk density were investigated. In the lab, the...
Resource Type:: Masters Thesis
Full Text:: of P. weirii was greatest at 15% soil water content. Maximum growth occurred at 20-25 C. Field

Characterization of a bacterial agglutinin from legumes

Creator:: Jasalavich, Claudia Ann
Abstract:: Leaves of Phaseolus vulgaris cv. 'Dark Red Kidney' and cv. 'Red Mexican U. I. 31', Phaseolus lunatus cv. 'Fordhook Bush 242', Phaseolus mungo cv. 'Berken', and Glycine max cv. 'Wilkin' have been shown to contain a factor which consistently agglutinated the saprophyte Pseudomonas putida; another saprophyte Pseudomonas fluorescens was agglutinated...
Resource Type:: Masters Thesis
Full Text:: alone or an affinity purification using P. putida followed by gel filtration. Exclusion of agglutinin

The infection and colonization of Douglas-fir needles by the Swiss needle cast pathogen, Phaeocryptopus gaeumannii (Rhode) Petrak

Creator:: Capitano, Bryan R.
Abstract:: Phaeocryptopus gaeumannii is a pathogenic fungus on Douglas-fir needles which has become a serious threat to timber production in the last decade along the Oregon coast This research was undertaken to describe the general biology and pathology of F. gaeumannii on Douglas-fir needles and how environmental variables affect fungal development....
Resource Type:: Masters Thesis
Full Text:: P. gaeumannii was described using histopathology methods such as scanning electron microscopy, thin

Histological examination of Phytophthora ramorum in Notholithocarpus densiflorus bark tissues

Creator:: Botts, Molly M.
Abstract:: Colonization of N. densiflorus tissues by P. ramorum is not well understood. The pathogen is able to colonize nearly all tissues of this host but it is unclear how a tree is ultimately killed. Because this is such a destructive invasive pathogen, it is important to investigate its pathogenic strategy....
Resource Type:: Masters Thesis
Full Text:: _________________________________________________________________________ Everett M. Hansen Colonization of N. densiflorus tissues by P. ramorum is not well

Biology of sweet cherry powdery mildew

Creator:: Calabro, Jill M.
Abstract:: The Pacific Northwest has become one of the nation’s premier sweet cherry, Prunus avium, production areas. As production of sweet cherries has flourished in Oregon and Washington, so has powdery mildew, caused by the fungus Podosphaera clandestina, which infects both foliage and fruit causing severe economic damage to growers. Sweet...
Resource Type:: Dissertation
Full Text:: piece of information for effective control and management strategies of P. clandestina. Laboratory

Pathogenicity of Phytophthora species from Oregon waterways

Creator:: Navarro, Sarah M.
Abstract:: Described as one of the most destructive pathogens of agricultural crops and forest trees, Phytophthora is a genus of microorganisms containing over 100 known species. Phytophthora alni has caused collar and root disease in alders throughout Europe and a form of the species has recently been isolated in North America....
Resource Type:: Masters Thesis
Full Text:: determining if P. alni was present. Over 1200 individual Phytophthora isolates were recovered in the

Comparative Genomics of Plant-Associated Pseudomonas spp.: Insights into Diversity and Inheritance of Traits Involved in Multitrophic Interactions

Creator:: Loper, Joyce E., Hassan, Karl A., Mavrodi, Dmitri V., Davis, Edward W., II, Lim, Chee Kent, Shaffer, Brenda T., Elbourne, Liam D. H., Stockwell, Virginia O., Hartney, Sierra L., Breakwell, Katy, Henkels, Marcella D., Tetu, Sasha G., Rangel, Lorena I., Kidarsa, Teresa A., Wilson, Neil L., van de Mortel, Judith E., Song, Chunxu, Blumhagen, Rachel, Radune, Diana, Hostetler, Jessica B., Brinkac, Lauren M., Durkin, A. Scott, Kluepfel, Daniel A., Wechter, W. Patrick, Anderson, Anne J., Kim, Young Cheol, Pierson, Leland S., III, Pierson, Elizabeth A., Lindow, Steven E., Kobayashi, Donald Y., Raaijmakers, Jos M., Weller, David M., Thomashow, Linda S., Allen, Andrew E., and Paulsen, Ian T.
Abstract:: We provide here a comparative genome analysis of ten strains within the Pseudomonas fluorescens group including seven new genomic sequences. These strains exhibit a diverse spectrum of traits involved in biological control and other multitrophic interactions with plants, microbes, and insects. Multilocus sequence analysis placed the strains in three sub-clades,...
Resource Type:: Article
Full Text:: strains within a sub-clade. The heterogeneity of the P. fluorescens group was reflected in the large size

Comparative Genomics of Plant-Associated Pseudomonas spp.: Insights into Diversity and Inheritance of Traits Involved in Multitrophic Interactions

Creator:: Loper, Joyce E., Hassan, Karl A., Mavrodi, Dmitri V., Davis, Edward W., II, Lim, Chee Kent, Shaffer, Brenda T., Elbourne, Liam D. H., Stockwell, Virginia O., Hartney, Sierra L., Breakwell, Katy, Henkels, Marcella D., Tetu, Sasha G., Rangel, Lorena I., Kidarsa, Teresa A., Wilson, Neil L., van de Mortel, Judith E., Song, Chunxu, Blumhagen, Rachel, Radune, Diana, Hostetler, Jessica B., Brinkac, Lauren M., Durkin, A. Scott, Kluepfel, Daniel A., Wechter, W. Patrick, Anderson, Anne J., Kim, Young Cheol, Pierson, Leland S., III, Pierson, Elizabeth A., Lindow, Steven E., Kobayashi, Donald Y., Raaijmakers, Jos M., Weller, David M., Thomashow, Linda S., Allen, Andrew E., and Paulsen, Ian T.
Abstract:: We provide here a comparative genome analysis of ten strains within the Pseudomonas fluorescens group including seven new genomic sequences. These strains exhibit a diverse spectrum of traits involved in biological control and other multitrophic interactions with plants, microbes, and insects. Multilocus sequence analysis placed the strains in three sub-clades,...
Resource Type:: Article
Full Text:: strains within a sub-clade. The heterogeneity of the P. fluorescens group was reflected in the large size

The Role of Plant-soil Feedback in the Invasion of Brachypodium sylvaticum in Douglas-fir Forests

Creator:: Esterson, Andrew
Abstract:: Invasive plants have the capacity to transform landscapes and alter ecosystem function, causing significant economic and ecological damage. These effects include displacement and reduction of native flora and fauna, altered fire regimes, modification of biotic and abiotic soil properties, as well as local, regional, and global economic impacts. With such...
Resource Type:: Masters Thesis
Full Text:: , the RR to PSF generated by B. sylvaticum was negative for the invader and P. menziesii and neutral

Phylogeny, cospeciation, and host switching in the evolution of the ascomycete genus Rhabdocline on Pseudotsuga and Larix (Pinaceae)

Creator:: Gernandt, David S.
Abstract:: The relative role of cospeciation and host switching in the phylogenetic history of ascomycete foliar symbionts is addressed in the orders Leotiales and Rhytismatales, fungi associated predominantly with Pinaceae (Coniferales). Emphasis is placed on comparing the evolution of the sister genera Pseudotsuga and Larix (Pinaceae) with that of the pathogenic...
Resource Type:: Dissertation
Full Text:: several host switches. The ancestor ofMeria laricis appears to have switched from P. menziesii to its

Candidate Genes Associated with Blister Rust Resistance in Whitebark Pine (Pinus albicaulis) Revealed through de novo Transcriptome Assembly and Differential Gene Expression Analysis

Creator:: Bair, Zolton J.
Abstract:: Whitebark pine (Pinus albicaulis) is an iconic North American high-elevation tree species currently threatened by climate change, mountain pine beetle, and white pine blister rust (WPBR), a lethal disease caused by the non-native fungal pathogen Cronartium ribicola. In collaboration with the USDA Forest Service Dorena Genetic Resource Center, germplasm was...
Resource Type:: Dissertation
Full Text:: predicted proteins to create an annotated reference transcriptome for P. albicaulis ‘Shadow Lake 39

Genetics of sexuality and population genetics of Phellinus weirii

Creator:: Angwin, Peter A.
Abstract:: Phellinus weirii (Murr.) Gilbertson, cause of laminated root and butt rot, is a heterothallic basidiomycete lacking clamp connections. Two biological species groups of the fungus have been hypothesized, the Douglas-fir and cedar-types, on the basis of physiological, morphological and epidemiological differences. Single-spore and vegetative isolates differ in cultural morphology, nuclear...
Resource Type:: Dissertation
Full Text:: with completely compatible homokaryons reveal that P. weirii follows a bipolar, multiallelic system of

Castilleja and Pedicularis are confirmed as telial hosts for white pine blister rust in whitebark pine ecosystems of Oregon and Washington

Creator:: Mulvey, Robin L.
Abstract:: The primary objective of this research was to determine if native species within the genera Castilleja and Pedicularis are naturally infected by white pine blister rust (Cronartium ribicola) in whitebark pine ecosystems of the Oregon and Washington Cascade Range. Secondary objectives were to monitor the phenology of aecial and telial...
Resource Type:: Masters Thesis
Full Text:: the susceptibility of two additional species within these genera, C. arachnoidea and P. bracteosa

Sweet corn decline syndrome in Oregon's Willamette Valley

Creator:: Hoinacki, Elisabeth V.
Abstract:: For the past several years vegetable growers in Oregon's Willamette Valley have experienced reduced yields in their sweet corn plantings. We conducted studies to 1) describe the symptomology and etiology of the disease, 2) test a root rot rating system we developed to evaluate factors in the disease syndrome, and...
Resource Type:: Dissertation
Full Text:: Fusarium graminearum. In soil infested with P. arrhenomanes, dry weight of sweet corn seedlings was

Ecology and biological control of an apomictic invasive plant, Chondrilla juncea (Asteraceae)

Creator:: Campanella, Donald M.
Abstract:: A study consisting of three parts was undertaken to investigate how variation in species interactions, population genetic structure, epidemiological parameters, and plant breeding system may influence the ecology and biological control of an apomictic invasive plant, Chondrilla juncea (Asteraceae). Interactions between natural enemy species may modify their net effect on...
Resource Type:: Dissertation
Full Text:: investigate natural associations in the distribution of damage caused by P. chondrillina, E. chondrillae

Location of prune dwarf and prunus necrotic ringspot viruses in sweet cherry pollen and fruit

Creator:: Kelley, Randall David
Abstract:: The location of prune dwarf virus (PDV) and Prunus necrotic ringspot virus (PNRSV) in pollen and seed from infected and healthy sweet cherry trees pollinated with infected pollen was investigated. Virus-like particles were observed in the cytoplasm of pollen grains from PDV-infected cherry trees using transmission electron microscopy. No particles...
Resource Type:: Dissertation
Full Text:: viruses. Phytopathology 67:395-399. 13. McMorran, J. P. and Cameron, H. R. 1983. Detection of 41 isolates

Community Ecology and Population Genomics of Rhizopogon in the Madrean Sky Island Archipelago

Creator:: Piña Páez, Carolina G.
Abstract:: Anthropogenic induced climate change is predicted to alter distribution of existing plant populations. As plants migrate over space and time, populations often fragment and contract, affecting basic elements of population dynamics (e.g., population size, gene flow, genetic diversity, etc.). Little is known, however, how these impacts on plant species will...
Resource Type:: Dissertation
Full Text:: the demographic history. Analyses of allelic and genic diversity of mating type loci – HD MAT and P

Enhancement of thiamin in plants by metabolic engineering

Creator:: Dong, Wei, Stockwell, Virginia O., and Goyer, Aymeric
Abstract:: Thiamin is an essential nutrient in the human diet. Severe thiamin deficiency leads to beriberi, a lethal disease which is common in developing countries. Thiamin biofortification of staple food crops is a possible strategy to alleviate thiamin deficiency-related diseases. In plants, thiamin plays a role in the response to abiotic...
Resource Type:: Article
Full Text:: -aminoimidazole ribonucleotide; CFU, colony forming unit; HET-P, 4-methyl-5-β-hydroxyethylthiazole phosphate

Chemical control of hop downy mildew (Pseudoperonospora humuli) and tolerance by Phytophthora isolates to the systemic fungicide metalaxyl

Creator:: Hunger, Robert Marvin
Resource Type:: Dissertation
Full Text:: isolate each of P. cinnamomi and P. drechsleri, and 14 isolates of P. megasperma were examined. P

Characterization of pectic enzymes produced by Fusarium oxysporum f. lycopersici

Creator:: Young, Robert J.
Resource Type:: Dissertation
Full Text:: trigalactu= ronic acid to a monogalacturonic acid and a dimer which was later characterized as an a- p

The Seed Cone Eathiestrobus gen. nov.: Fossil Evidence for a Jurassic Origin of Pinaceae

Creator:: Rothwell, Gar W., Mapes, Gene, Stockey, Ruth A., and Hilton, Jason
Abstract:: Premise of the study: Pinaceae and nonpinoid species are sister groups within the conifer clade as inferred from molecular systematic comparisons of living species and therefore should have comparable geological ages. However, the fossil record for the nonpinoid lineage of extant conifer families is Triassic, nearly 100 million years older...
Resource Type:: Article
Full Text:: Jeff Liston (formerly Hunterian Museum, Glasgow) for access to specimens and literature related to

Fungal endophyte diversity in foliage of native and cultivated Rhododendron species determined by culturing, ITS sequencing, and pyrosequencing

Creator:: Raizen, Nathaniel L.
Abstract:: Western Oregon is home to native Rhododendron species and is the center for cultivated Rhododendron production in the United States. These Rhododendron spp. are known to be infected with fungal endophytes. However, the community structure of these endophytes in native and cultivated Rhododendron is poorly understood. Our study targeted the...
Resource Type:: Masters Thesis
Full Text:: Jeff Stone and Joey Spatafora kindly lent me their time, advice, and encouragement throughout this

Evolving while invading: rapid adaptive evolution in juvenile development time for a biological control organism colonizing a high-elevation environment

Creator:: McEvoy, Peter B., Higgs, Kimberley M., Coombs, Eric M., Karacetin, Evrim, and Starcevich, Leigh Ann
Abstract:: We report evidence of adaptive evolution in juvenile development time on a decadal timescale for the cinnabar moth Tyria jacobaeae (Lepidoptera: Arctiidae) colonizing new habitats and hosts from the Willamette Valley to the Coast Range and Cascades Mountains in Oregon. Four lines of evidence reveal shorter egg to pupa juvenile...
Resource Type:: Article
Full Text:: despite occasionally high levels of repeated defoliation (K. M. Higgs and P. B. McEvoy, unpublished data

2006 Integrated pest management resource guide

Creator:: Jepson, Paul C., Brewer, Linda J., Jepson, Susan B., and Oregon State University. Extension Service
Abstract:: This publication is offered as a reference to Integrated Pest Management (IPM) resources available to Oregon growers. It highlights university, federal, state, and private services and resources that provide support to growers in the implementation of IPM programs. The Guide consists of five sections: • An introduction to the National...
Resource Type:: Technical Report
Full Text:: ://oregonstate.edu/npmmp/ M . A m br os in o 12 INTEGRATED P EST M ANAGEM ENT R ESOURCE G UIDE OSU FACULTY

Population characteristics of exotic plants in a Willamette Valley native prairie

Creator:: Lantz, Lisa E.
Resource Type:: Masters Thesis
Full Text:: clear year 1. More P. vulgaris seedlings also tended to establish in the reduced competition plots

Development of Quantitative PCR Assays to Aid in Root-knot Nematode (Meloidogyne spp.) Diagnostics and Resistance Breeding Efforts in the Pacific Northwest

Creator:: Soule, Michelle L.
Abstract:: In the Pacific Northwest (PNW), the two most common root-knot nematodes are Meloidogyne hapla and Meloidogyne chitwoodi. These nematodes can infect a wide variety of crops and can cause significant losses. Currently, it is common for the field of nematology to use labor-intensive microscopy to identify plant-parasitic nematodes based on...
Resource Type:: Masters Thesis
Full Text:: . Additionally, I want to thank Claudia Cleaver and Jeff Sacher for treating me like their own family

Biology and control of Fusarium spp. on Douglas-fir (Pseudotsuga menziesii)

Creator:: Hoefnagels, Mariëlle Henriette, 1965-
Abstract:: Fusarium spp. are among the most important pathogens of Douglas-fir (Pseudotsuga menziesii) seedlings in bareroot nurseries. Currently the most effective disease control method is soil fumigation with methyl bromide. As methyl bromide is phased out, however, other disease management strategies may become more important. We explored two alternative approaches to...
Resource Type:: Dissertation
Full Text:: friendly and helpful. Many people have helped me with technical aspects of my research. Jeff Stone

A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress

Creator:: Dharmawardhana, Palitha, Ren, Liya, Amarasinghe, Vindhya, Monaco, Marcela, Thomason, Jim, Ravenscroft, Dean, McCouch, Susan, Ware, Doreen, and Jaiswal, Pankaj
Abstract:: Background: Functional annotations of large plant genome projects mostly provide information on gene function and gene families based on the presence of protein domains and gene homology, but not necessarily in association with gene expression or metabolic and regulatory networks. These additional annotations are necessary to understand the physiology, development...
Resource Type:: Article
Full Text:: and P Users can navigate to the desired pathway via ‘search pathways’ or ‘browse’ options (Figure 1

Development and Application of Tools for Genetic Analysis of Clonal Populations

Creator:: Kamvar, Zhian N.
Abstract:: Research on the population genetics of microbial organisms requires the use of specialized analyses designed for clonal organisms to avoid violating the assumptions of traditional population genetic models. The tools necessary for performing these analyses existed as a set of unrelated software with non-overlapping capabilities and did not cover all...
Resource Type:: Dissertation
Full Text:: my own thoughts. I am ever grateful to Joyce Loper, Brenda Shaffer, Jeff Chang, Jerry Weiland, and

Genome-Wide Profiling and Analysis of Arabidopsis siRNAs

Creator:: Kasschau, Kristin D., Fahlgren, Noah, Chapman, Elisabeth J., Sullivan, Christopher M., Cumbie, Jason S., Givan, Scott A., and Carrington, James C.
Abstract:: Eukaryotes contain a diversified set of small RNA-guided pathways that control genes, repeated sequences, and viruses at the transcriptional and posttranscriptional levels. Genome-wide profiles and analyses of small RNAs, particularly the large class of 24-nucleotide (nt) short interfering RNAs (siRNAs), were done for wild-type Arabidopsis thaliana and silencing pathway mutants...
Resource Type:: Article
Full Text:: no general correlation between cluster prox- imity and expression values (p . 0.30, linear regression

Characteristics of the lentil strain of pea seedborne mosaic virus

Creator:: Goodell, Jody Jellison
Abstract:: The lentil strain of pea seedborne mosaic virus, PSbMV-L, was distinguished from the standard isolates of PSbMV by a natural inoculum reservoir in lentil seed and by separate resistance genes in Pisum and Lens. PSbMV-L was intermediate in symptom severity between the standard and New Zealand isolates of PSbMV. Seed...
Resource Type:: Dissertation
Full Text:: Powelson; the technical assistance of Gary Banowetz, Alan Northwer and Jeff Ried and the loving support

Unproductive alternative splicing and nonsense mRNAs: A widespread phenomenon among plant circadian clock genes

Creator:: Filichkin, Sergei A. and Mockler, Todd C.
Abstract:: Background: Recent mapping of eukaryotic transcriptomes and spliceomes using massively parallel RNA sequencing (RNA-seq) has revealed that the extent of alternative splicing has been considerably underestimated. Evidence also suggests that many pre-mRNAs undergo unproductive alternative splicing resulting in incorporation of in-frame premature termination codons (PTCs). The destinies and potential functions...
Resource Type:: Article
Full Text:: was highly conserved among CCA1 clock genes in both eudicots (A. thaliana and P. trichocarpa) and

Chloroplast DNA characters, phylogeny, and classification of Lathyrus (Fabaceae)

Creator:: Asmussen, Conny B. and Liston, Aaron
Abstract:: Mapped cpDNA restriction site characters were analyzed cladistically and the resulting phylogenetic hypotheses were used to test monophyly and relationships of the infrageneric classification of Lathyrus (Fabaceae) proposed by Kupicha (1983, Notes from the Royal Botanic Garden Edinburgh 41: 209–244). The validity of previously proposed classification systems and questions presented...
Resource Type:: Article
Full Text:: October 1996; revision accepted 26 March 1997. The authors thank Drs. Anne Bruneau, Jeff Doyle, Matt Lavin

Sequence determination and regional epidemiology of raspberry bushy dwarf virus (RBDV)

Creator:: Taylor, Susannah M.
Abstract:: Raspberry bushy dwarf virus (RBDV) is the sole member of the idaeovirus genus of plant viruses. It is a pollen-borne virus that economically impacts both red and black raspberries worldwide. Three strains of the bipartite RBDV have been reported. The common strain found in North America, South America, Australia, New...
Resource Type:: Masters Thesis
Full Text:: thank Jeff, he streaked some colonies, he set up some minipreps and he remained my best friend and

Shrub epiphyte communities in relation to stand management in forests of western Oregon

Creator:: Rosso, Abbey L.
Abstract:: This dissertation describes the epiphyte communities on tall shrubs in forests of western Oregon, with a focus on potential effects of management practices on these communities. Shrubs and other hardwoods have recently gained recognition as hotspots of diversity for epiphytes in young conifer forests of the region. Yet little is...
Resource Type:: Dissertation
Full Text:: Stockdale, Charly Pivert, Dr. Ellen Taylor, Jeff Burch, Dr. John Green, Dr. Barbara Jolley, Dr. Signy

Below ground biology of Botrychium pumicola (Ophioglossaceae)

Creator:: Camacho, Francisco J.
Resource Type:: Dissertation

Identification and Occurrence of Sweet Cherry (Prunus avium) Virus and Virus-Like Diseases in Various Regions and Orchards of Oregon

Creator:: Reinhold, Lauri A.
Abstract:: There are over 35 known virus and virus-like diseases of sweet cherry (Prunus avium), some with potential to cause severe economic impact by reducing vegetative growth, vigor, and/or quality of fruit. Oregon is the second-ranked state for sweet cherry production in the United States with 13,000 acres and $70.8 million...
Resource Type:: Dissertation
Full Text:: . Prunus avium (sweet cherry). In Encyclopedia of Plant Viruses and Viroids, p. 1938– 1959. USDA-ARS

Effects of grazing and nitrogen enrichment on the taxonomic structure of periphyton assemblages in lotic ecosystems

Creator:: Lundberg, Chris H.
Resource Type:: Masters Thesis
Full Text:: , Janey Gaventa, and Laura Morrison. I thank Jeff Connor and Jacqueline Fritzenschaf for kindly lending

Conservation of Rorippa columbiae : an evaluation of reintroduction potential through the study of germination ecology, propagation methods, and habitat requirements

Creator:: Kentnesse, Laura E.
Abstract:: Rare plant reintroductions are a critical conservation tool for the augmentation of diminishing populations, or re-establishment of extirpated populations. Analysis of reintroduction failures suggests that a sophisticated understanding of species biology, ecology, and habitat is essential for producing self-sustaining rare plant populations. This study sought to generate that background knowledge...
Resource Type:: Masters Thesis
Full Text:: design. I would also like to thank the Statistics Consulting Service, particularly Miao Yang and Jeff

Interactive effects of stripe rust and plant competition in heterogeneous wheat populations

Creator:: Finckh, Maria Renate
Abstract:: Disease has been implied as an important selective force acting in plant populations. This study was conducted to determine the effects of stripe rust (Puccinia striiformis) on the population dynamics of wheat (Triticum aestivum) cultivar mixtures. Five wheat cultivars were grown in pure stands and all possible mixtures at three...
Resource Type:: Dissertation
Full Text:: and Jeff Connor have helped me through some of the hardest times in the past five years and they let

Molecular phylogenetic analyses of Riccia and Marchantiales

Creator:: Wheeler, John A. (John Allen)
Resource Type:: Dissertation
Full Text:: and ponds environments subject to desiccation" (Schuster 1981; 1992c: p. 25). Fluctuating

Analysis of putative elements of plant signal transduction chains

Creator:: Verhey, Steven D.
Abstract:: The thesis begins with an introduction to signal transduction and an analysis of current understanding of plant signal transduction. There are similarities between plants and animals, but also key differences, including lack of protein kinase C and of a cAMP signaling pathway in plants, and presence in plants of calcium...
Resource Type:: Dissertation
Full Text:: . Calculation of P(x) from results of Cleveland maps. 9 8 ANALYSIS OF PUTATIVE ELEMENTS OF PLANT SIGNAL

Distribution and prediction of Swiss needle cast of Douglas-fir in coastal Oregon

Creator:: Rosso, Pablo H.
Abstract:: This study was directed to improve our understanding of the ecology of Swiss needle cast (SNC) of Douglas-fir, a disease that produces extensive damage to forests and plantation in the coastal region of Oregon and Washington. A disease prediction model for the coastal area of Oregon was built by establishing...
Resource Type:: Dissertation
Full Text:: the Department of 6tany and Plant P Dean of the/ràdti'ate School I understand that my dissertation

Systematics of the genus Rhizopogon inferred from nuclear ribosomal DNA large subunit and internal transcribed spacer sequences

Creator:: Grubisha, Lisa C.
Abstract:: Rhizopogon is a hypogeous fungal genus that forms ectomycorrhizae with genera of the Pinaceae. The greatest number and species of Rhizopogon are found in coniferous forests of the Pacific Northwestern United States, where members of the Pinaceae are also concentrated. Rhizopogon spp. are host-specific primarily with Pinus spp. and Pseudotsuga...
Resource Type:: Masters Thesis
Full Text:: studies and research endeavors. The enthusiasm expressed by Dr. Jeff Stone and Dr. Aaron Liston was a

Population viability analysis of endangered plant species : an evaluation of stochastic methods and an application to a rare prairie plant

Creator:: Kaye, Thomas N.
Abstract:: Transition matrix models are one of the most widely used tools for assessing population viability. The technique allows inclusion of environmental variability, thereby permitting estimation of probabilistic events, such as extinction. However, few studies use the technique to compare the effects of management treatments on population viability, and fewer still...
Resource Type:: Dissertation
Full Text:: , Sarah Brown, Annie Turner, Sahni Burkhart, Carla Cole, Shannon Clery, Jeff Stephens, Madi Novak, Lisa

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