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Genomic Resource Development for European Hazelnut (Corylus avellana L.)

Creator:: Rowley, Erik R.
Abstract:: European hazelnut (Corylus avellana L.) is an important crop Oregon's Willamette Valley, producing 99% of the hazelnuts grown in North America and brings over US $60 million dollars to the region annually. Hazelnuts are rich in fiber and vitamins, as well in demand by consumers due to their popularity as...
Resource Type:: Dissertation
Full Text:: a protocol previously described (Filichkin et al., 2007). Ribonucleic acid was extracted using

Genome-enabled discovery and characterization of type III effector-encoding genes of plant symbiotic bacteria

Creator:: Kimbrel, Jeffrey A.
Abstract:: Symbiosis is the close and protracted interaction between organisms. The molecular interactions that occur during symbiosis are complex with multiple barriers that must be overcome. Many Gram-negative, host-associated bacteria use a type III secretion system to mediate associations with their eukaryotic hosts. This secretion system is a specialized apparatus for...
Resource Type:: Dissertation
Full Text:: DISSERTATION OF Jeffrey A. Kimbrel for the degree of Doctor of Philosophy in Molecular and Cellular

16S rRNA Gene Amplicon Sequencing Reveals Trends in Marine Bacterial Diversity and Taxonomic Composition in Natural and Human-built Systems

Creator:: Morelan, Ian A.
Abstract:: Bacteria are abundant in marine environments. They play important roles in nutrient cycling and form symbiotic interactions with eukaryotes. However, the vast majority of bacterial taxa are difficult to maintain in laboratory cultures, meaning that most microbiological research of the past century has focused on a small subset of bacteria....
Resource Type:: Dissertation
Full Text:: research of the past century has focused on a small subset of bacteria. The advent of next generation

Transcriptomic analysis using high-throughput sequencing and DNA microarrays

Creator:: Fox, Samuel E.
Abstract:: Transcriptomics and gene expression profiling enables the elucidation of the genetic response of an organism to various environmental cues. Transcriptomics enables the deciphering of differences between two closely related organisms to the same environment and in contrast, enables the elucidation of genetic responses of the same organism to different environmental...
Resource Type:: Dissertation
Full Text:: wrote the manuscript. Chapter 2: Samuel E. Fox and Sergei A. Filichkin developed the methodologies

Investigating Transcriptional Control of Specialized Gene Expression in Plants

Creator:: Fraser, Valerie N.
Abstract:: Specialized or secondary metabolism is a collection of pathways and small molecules that, while beneficial to an organism, are not strictly necessary for survival. Plants use secondary metabolites to, among other things, attract pollinators, defend against biotic and abiotic stressors, and form symbioses. Natural products from plants have seen an...
Resource Type:: Dissertation
Full Text:: your kind mentorship throughout our collaborations. To Dr. Sergei Filichkin and to the late Dr. Maria

Computational Approaches for Understanding Combinatorial Gene Regulation

Creator:: Ansariola, Mitra
Abstract:: Gene regulation is a complex mechanism that controls the spatial and temporal expression of genes in a living cell. My dissertation studies focus on two problems. First, tissue-specific gene expression prediction from DNA sequence and chromatin state, and second, the accurate discovery of small over-represented regulatory circuits in gene regulatory...
Resource Type:: Dissertation
Full Text:: Dr. Je↵ Chang, Dr. Barbara Taylor, Dr. Sergei Filichkin, and Dr. Maria Ivanchenko. I also would

Alternative splicing in the obligate biotrophic oomycete pathogen, Pseudoperonospora cubensis

Creator:: Cumbie, Jason S.
Abstract:: Oomycetes are some of the most devastating pathogens, causing upwards of billions of dollars of damage each year to plants. They also diminish ecological diversity and health through the destruction of trees and shrubs. The genome sequence of Pseudoperonospora cubensis, an obligate plant pathogen and causative agent of downy mildew...
Resource Type:: Dissertation
Full Text:: obligate plant pathogen and causative agent of downy mildew in cucurbits, was originally generated as a

Characterization of Neurospora crassa and Fusarium graminearum mutants defective in repeat-induced point mutation

Creator:: Pomraning, Kyle R.
Abstract:: Mutation of repetitive DNA by repeat-induced point mutation (RIP) is a process that occurs in many filamentous fungi of the Ascomycota during the sexual cycle. Concurrently, direct DNA repeats are often deleted by homologous recombination at high frequency during the sexual cycle. Thus, the processes of RIP and deletion compete...
Resource Type:: Dissertation
Full Text:: of repetitive DNA by repeat-induced point mutation (RIP) is a process that occurs in many

Transcriptomic Analyses of Crop Plants using Next-Generation Sequencing Technology

Creator:: Geniza, Matthew J.
Abstract:: Advancements in molecular biology and computer science have enabled researchers the ability to investigate the transcriptome – the quantification of an organism’s RNA transcripts in response to its environment on a system wide scale. The collective chapters of this thesis utilize high-throughput RNA sequencing, which produces hundreds of millions of...
Resource Type:: Dissertation
Full Text:: response to its environment on a system wide scale. The collective chapters of this thesis utilize high

Identification and Functional Characterization of Genes that Regulate Biomass Production, Floral Development, and Leaf Senescence in Populus Species using Genetic Engineering and Bioinformatics Tools

Creator:: Lu, Haiwei
Abstract:: This dissertation is comprised of four studies on different elements of Populus biotechnology and genomic science: 1) growth improvement by recombinant DNA (rDNA) modification of gibberellin (GA) metabolism; 2) gene editing using zinc-finger nucleases (ZFNs); 3) induction of floral sterility by RNA interference (RNAi) of AGAMOUS (AG) gene homologs; and...
Resource Type:: Dissertation
Full Text:: . The genus Populus includes a number of environmentally and commercially important tree species. The

ScholarsArchive@OSU

Genomic Resource Development for European Hazelnut (Corylus avellana L.)

Genome-enabled discovery and characterization of type III effector-encoding genes of plant symbiotic bacteria

16S rRNA Gene Amplicon Sequencing Reveals Trends in Marine Bacterial Diversity and Taxonomic Composition in Natural and Human-built Systems

Transcriptomic analysis using high-throughput sequencing and DNA microarrays

Investigating Transcriptional Control of Specialized Gene Expression in Plants

Computational Approaches for Understanding Combinatorial Gene Regulation

Alternative splicing in the obligate biotrophic oomycete pathogen, Pseudoperonospora cubensis

Characterization of Neurospora crassa and Fusarium graminearum mutants defective in repeat-induced point mutation

Transcriptomic Analyses of Crop Plants using Next-Generation Sequencing Technology

Identification and Functional Characterization of Genes that Regulate Biomass Production, Floral Development, and Leaf Senescence in Populus Species using Genetic Engineering and Bioinformatics Tools

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