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Articles 1 - 16 of 16
Full-Text Articles in Life Sciences
Rearrangement Of The Rna Polymerase Subunit H And The Lower Jaw In Archaeal Elongation Complexes, Sebastian Grünberg, Christoph Reich, Mirijam E. Zeller, Michael S. Bartlett, Michael Thomm
Rearrangement Of The Rna Polymerase Subunit H And The Lower Jaw In Archaeal Elongation Complexes, Sebastian Grünberg, Christoph Reich, Mirijam E. Zeller, Michael S. Bartlett, Michael Thomm
Biology Faculty Publications and Presentations
The lower jaws of archaeal RNA polymerase and eukaryotic RNA polymerase II include orthologous subunits H and Rpb5, respectively. The tertiary structure of H is very similar to the structure of the C-terminal domain of Rpb5, and both subunits are proximal to downstream DNA in pre-initiation complexes. Analyses of reconstituted euryarchaeal polymerase lacking subunit H revealed that H is important for open complex formation and initial transcription. Eukaryotic Rpb5 rescues activity of the ΔH enzyme indicating a strong conservation of function for this subunit from archaea to eukaryotes. Photochemical cross-linking in elongation complexes revealed a striking structural rearrangement of RNA …
Similarity Of Nutrient Uptake And Root Dimensions Of Engelmann Spruce And Subalpine Fir At Two Contrasting Sites In Colorado, Melissa S. Lucash, Ruth D. Yanai, Karis J. Mcfarlane, Sarah E. Kulpa, Dustin M. Wood
Similarity Of Nutrient Uptake And Root Dimensions Of Engelmann Spruce And Subalpine Fir At Two Contrasting Sites In Colorado, Melissa S. Lucash, Ruth D. Yanai, Karis J. Mcfarlane, Sarah E. Kulpa, Dustin M. Wood
Environmental Science and Management Faculty Publications and Presentations
Nutrient uptake capacity is an important parameter in modeling nutrient uptake by plants. Researchers commonly assume that uptake capacity measured for a species can be used across sites. We tested this assumption by measuring the nutrient uptake capacity of intact roots of Engelmann spruce (Picea engelmanni Parry) and subalpine fir (Abies lasiocarpa (Hook.) Nutt.) at Loch Vale Watershed and Fraser Experimental Forest in the Rocky Mountains of central Colorado. Roots still attached to the tree were exposed to one of three concentrations of nutrient solutions for time periods ranging from 1 to 96h, and solutions were analyzed for ammonium, …
Sex-Specific Variation In The Interaction Between Distichlis Spicata (Poaceae) And Mycorrhizal Fungi, Sarah M. Eppley, Charlene Ashley Mercer, Christian Haaning, Camille Brianne Graves
Sex-Specific Variation In The Interaction Between Distichlis Spicata (Poaceae) And Mycorrhizal Fungi, Sarah M. Eppley, Charlene Ashley Mercer, Christian Haaning, Camille Brianne Graves
Biology Faculty Publications and Presentations
Associations between mycorrhizal fungi and plants can influence intraspecific competition and shape plant population structure. While variation in plant genotypes is known to affect mycorrhizal colonization in crop systems, little is known about how genotypes affect colonization in natural plant populations or how plant sex might influence colonization with mycorrhizal fungi in plant species with dimorphic sexual systems. In this study, we analyzed mycorrhizal colonization in males and females of the wetland dioecious grass Distichlis spicata, which has spatially segregated sexes. Our results suggest that D. spicata males and females interact with mycorrhizal fungi differently. We discuss the implications for …
Lipid-Protein Interactions Probed By Electron Crystallography, Steve L. Reichow, Tamir Gonen
Lipid-Protein Interactions Probed By Electron Crystallography, Steve L. Reichow, Tamir Gonen
Chemistry Faculty Publications and Presentations
Electron crystallography is arguably the only electron cryomicroscopy (cryoEM) technique able to deliver an atomic-resolution structure of membrane proteins embedded in the lipid-bilayer. In the electron crystallographic structures of the light driven ion pump, bacteriorhodopsin, and the water channel, aquaporin-0, sufficiently high resolution was obtained and both lipid and protein were visualized, modeled and described in detail. An extensive network of lipid-protein interactions mimicking native membranes is established and maintained in two-dimensional (2D) crystalline vesicles used for structural analysis by electron crystallography. Lipids are tightly integrated into the protein's architecture where they can affect the function, structure, quaternary assembly and …
Apoptotic And Chemotherapeutic Properties Of Iron (Iii)-Salophene In An Ovarian Cancer Animal Model, Thilo S. Lange, Carolyn Mccourt, Rakesh K. Singh, Kyu Kwang Kim, Ajay P. Singh, Brian S. Luisi, Onur Alptürk, Robert M. Strongin, Laurent Brard
Apoptotic And Chemotherapeutic Properties Of Iron (Iii)-Salophene In An Ovarian Cancer Animal Model, Thilo S. Lange, Carolyn Mccourt, Rakesh K. Singh, Kyu Kwang Kim, Ajay P. Singh, Brian S. Luisi, Onur Alptürk, Robert M. Strongin, Laurent Brard
Chemistry Faculty Publications and Presentations
The cytotoxicity of organometallic compounds iron(III)-, cobalt(III)-, manganese(II)-, and copper(II)-salophene (-SP) on platinum-resistant ovarian cancer cell lines was compared. Fe-SP displayed selective cytotoxicity (IC(50) at ~1 muM) against SKOV-3 and OVCAR-3 cell lines while Co-SP caused cytotoxic effects only at higher concentrations (IC(50) at 60 muM) and Cu-SP effects were negligible. High cytotoxicity of Mn-SP (30-60 muM) appeared to be nonspecific because the Mn-chloride salt reduced cell viability similarly. The effect of Fe-SP at 1 muM proved to be ovarian cancer cell selective when compared to a panel of cell lines derived from different tumors. The first irreversible step in …
Interview With Angela Martin, Village Gardens, 2009 (Audio), Angela Martin
Interview With Angela Martin, Village Gardens, 2009 (Audio), Angela Martin
All Sustainability History Project Oral Histories
Interview of Angela Martin by Steve Jarosz at Village Gardens, Portland, Oregon on August 6th, 2009.
The interview index is available for download.
Fecal-Sac Ingestion By Spotted Towhees, Jenny E. Mckay, Michael T. Murphy, Sarah Bartos Smith, Jennifer K. Richardson
Fecal-Sac Ingestion By Spotted Towhees, Jenny E. Mckay, Michael T. Murphy, Sarah Bartos Smith, Jennifer K. Richardson
Biology Faculty Publications and Presentations
Altricial nestlings encase excrement in fecal sacs that parents remove by either ingesting them or transporting them away from the nest. Ingestion may allow energetically or nutritionally deprived parents to recapture energy or nutrients that might be lost because of nestlings' inefficient digestion (the "parental-nutrition hypothesis"), but ingestion may also permit parents to avoid flights from the nest that interfere with parental care (e.g., brooding young; the "economic-disposal hypothesis"). We used a hypothetico-deductive approach to test the two hypotheses' ability to account for fecal-sac ingestion by the Spotted Towhee (Pipilo maculatus). We confirmed the parental-nutrition hypothesis' predictions that …
Interview With Sarah Patterson, Lettuce Grow Garden Foundation, 2009 (Audio), Sarah Patterson
Interview With Sarah Patterson, Lettuce Grow Garden Foundation, 2009 (Audio), Sarah Patterson
All Sustainability History Project Oral Histories
Interview of Sarah Patterson by Diane Mahon in Portland, Oregon on July 29th, 2009.
The interview index is available for download.
Interview With Rodney Bender, Growing Gardens, 2009 (Audio), Rodney Bender
Interview With Rodney Bender, Growing Gardens, 2009 (Audio), Rodney Bender
All Sustainability History Project Oral Histories
Interview of Rodney Bender by Sarah Roecker at Growing Gardens Portland, Oregon on July 29th, 2009.
The interview index is available for download.
Interview With Caitlin Blethen, Growing Gardens, 2009 (Audio), Caitlin Blethen
Interview With Caitlin Blethen, Growing Gardens, 2009 (Audio), Caitlin Blethen
All Sustainability History Project Oral Histories
Interview of Caitlin Blethen by Kristin Milner at Growing Gardens Organization Portland, Oregon on July 29th, 2009.
The interview index is available for download.
Interview With Marissa Madrigal, Jeff Cogen Chief Of Staff, 2009 (Audio), Marissa Madrigal
Interview With Marissa Madrigal, Jeff Cogen Chief Of Staff, 2009 (Audio), Marissa Madrigal
All Sustainability History Project Oral Histories
Interview of Marissa Madrigal by Andrea Schons in Portland, Oregon on July 23rd, 2009.
The interview index is available for download.
Increasing The Reliability Of Ecological Models Using Modern Software Engineering Techniques, Robert M. Scheller, Brian R. Sturtevant, Eric J. Gustafson, Brendan C. Ward, David J. Mladenoff
Increasing The Reliability Of Ecological Models Using Modern Software Engineering Techniques, Robert M. Scheller, Brian R. Sturtevant, Eric J. Gustafson, Brendan C. Ward, David J. Mladenoff
Environmental Science and Management Faculty Publications and Presentations
Modern software development techniques are largely unknown to ecologists. Typically, ecological models and other software tools are developed for limited research purposes, and additional capabilities are added later, usually in an ad hoc manner. Modern software engineering techniques can substantially increase scientific rigor and confidence in ecological models and tools. These techniques have the potential to transform how ecological software is conceived and developed, improve precision, reduce errors, and increase scientific credibility. We describe our re-engineering of the forest landscape model LANDIS (LANdscape DIsturbance and Succession) to illustrate the advantages of using common software engineering practices.
Research Choice And Finance In University Bioscience, David E. Ervin, Steven T. Buccola, Hui Yang
Research Choice And Finance In University Bioscience, David E. Ervin, Steven T. Buccola, Hui Yang
Economics Faculty Publications and Presentations
Academic bioscience's rising importance for downstream technology and growing private sector relationships have evoked substantial policy attention. We contribute to the scrutiny by asking how university bioscientists design and finance their research, with particular attention to the mutuality of research portfolio choice and funding success. The analysis requires consideration of other major influences on academic science, including scientific norms, human capital, and institutional environment. Drawing on a national survey of university bioscientists, we find that public financial support encourages more basic investigation and private support encourages more applied investigation. Yet downstream research is only moderately more excludable than upstream. Once …
Mangrove-Exported Nutrient Incorporation By Sessile Coral Reef Invertebrates, Elise F. Granek, Jana E. Compton, Donald L. Phillips
Mangrove-Exported Nutrient Incorporation By Sessile Coral Reef Invertebrates, Elise F. Granek, Jana E. Compton, Donald L. Phillips
Environmental Science and Management Faculty Publications and Presentations
Coastal mangrove forests were historically considered as a source of organic matter (OM) for adjacent marine systems due to high net primary production; yet recent research suggesting little uptake through the food web because of low nutritional quality, challenges the concept of trophic linkage between mangrove forests and coral reefs. To examine the importance of mangrove forests to coral reef nutrient availability, we examined sessile reef-forming invertebrate consumers including hard corals, sponges, a bivalve mollusc, polychaete annelid and tunicate, and potential sources of OM (decaying mangrove leaves, microalgae, macroalgae, and seagrass) in Bocas del Toro, Panama. Using stable isotope analyses …
One Rna Plays Three Roles To Provide Catalytic Activity To A Group I Intron Lacking An Endogenous Internal Guide Sequence, Nilesh Vaidya, Niles Lehman
One Rna Plays Three Roles To Provide Catalytic Activity To A Group I Intron Lacking An Endogenous Internal Guide Sequence, Nilesh Vaidya, Niles Lehman
Chemistry Faculty Publications and Presentations
Catalytic RNA molecules possess simultaneously a genotype and a phenotype. However, a single RNA genotype has the potential to adopt two or perhaps more distinct phenotypes as a result of differential folding and/or catalytic activity. Such multifunctionality would be particularly significant if the phenotypes were functionally inter-related in a common biochemical pathway. Here, this phenomenon is demonstrated by the ability of the Azoarcus group I ribozyme to function when its canonical internal guide sequence (GUG) has been removed from the 5? end of the molecule, and added back exogenously in trans. The presence of GUG triplets in noncovalent fragments of …
Dna Before Proteins? Recent Discoveries In Nucleic Acid Catalysis Strengthen The Case, Aaron Steven Burton, Niles Lehman
Dna Before Proteins? Recent Discoveries In Nucleic Acid Catalysis Strengthen The Case, Aaron Steven Burton, Niles Lehman
Chemistry Faculty Publications and Presentations
An RNA-DNA World could arise from an all-RNA system with the development of as few as three ribozymes— a DNA-dependent RNA polymerase, an RNA-dependent DNA polymerase, and a catalyst for the production of DNA nucleotides. A significant objection to DNA preceding proteins is that RNA has not been shown to catalyze the production of DNA. However, RNA- and DNAzymes have been recently discovered that catalyze chemical reactions capable of forming deoxyribose, such as mixed aldol condensation of 5’-glyceryl- and 3’- glycoaldehyde-terminated DNA strands. Thus, the only remaining obstacles to RNA-catalyzed in vitro DNA synthesis are alterations of substrate and template …