Showing 3511 - 3520 of 5831 Items
The receptor tyrosine phosphatase Dlar and integrins organize actin filaments in the Drosophila follicular epithelium
Date: 2001-09-04
Creator: Jack Bateman, R. Srekantha Reddy, Haruo Saito, David Van Vactor
Access: Open access
- Background: Regulation of actin structures is instrumental in maintaining proper cytoarchitecture in many tissues. In the follicular epithelium of Drosophila ovaries, a system of actin filaments is coordinated across the basal surface of cells encircling the oocyte. These filaments have been postulated to regulate oocyte elongation; however, the molecular components that control this cytoskeletal array are not yet understood. Results: We find that the receptor tyrosine phosphatase (RPTP) Dlar and integrins are involved in organizing basal actin filaments in follicle cells. Mutations in Dlar and the common β-integrin subunit mys cause a failure in oocyte elongation, which is correlated with a loss of proper actin filament organization. Immunolocalization shows that early in oogenesis Dlar is polarized to membranes where filaments terminate but becomes generally distributed late in development, at which time β-integrin and Enabled specifically associate with actin filament terminals. Rescue experiments point to the early period of polar Dlar localization as critical for its function. Furthermore, clonal analysis shows that loss of Dlar or mys influences actin filament polarity in wild-type cells that surround mutant tissues, suggesting that communication between neighboring cells regulates cytoskeletal organization. Finally, we find that two integrin α subunits encoded by mew and if are required for proper oocyte elongation, implying that multiple components of the ECM are instructive in coordinating actin fiber polarity. Conclusions: Dlar cooperates with integrins to coordinate actin filaments at the basal surface of the follicular epithelium. To our knowledge, this is the first direct demonstration of an RPTP's influence on the actin cytoskeleton.
Luminosity measurement with the CLEO II detector
Date: 1994-07-01
Creator: G. Crawford, C. M. Daubenmier, R. Fulton, D. Fujino, K. K., Gan, K. Honscheid, H. Kagan, R. Kass, J. Lee, R. Malchow, Y. Skovpen, M. Sung, C. White, F. Butler, X. Fu, G. Kalbfleisch, W. R. Ross, P. Skubic, M. Wood, J. Fast, R. L. McIlwain, T. Miao, D. H. Miller, M. Modesitt, D. Payne, E. I. Shibata, I. P.J. Shipsey, P. N. Wang, M. Battle, J. Ernst, L. Gibbons
Access: Open access
- A measurement of absolute integrated luminosity is presented using the CLEO II detector operating at the CESR e+e- storage ring. Independent analyses of three different final states (e+e-, γγ, and μ+μ-) at √s {reversed tilde equals} 10 GeV normalize to the expected theoretical cross sections and correct for detection efficiencies. The resulting luminosities are measured with systematic errors of ±1.8%, ±1.6%, and ±2.2%, respectively, and are consistent with one another. The combined luminosity has a systematic error of ±1.0%. © 1994.
Functions of the ectodomain and cytoplasmic tyrosine phosphatase domains of receptor protein tyrosine phosphatase Dlar in vivo
Date: 2003-10-01
Creator: Neil X. Krueger, R. Sreekantha Reddy, Karl Johnson, Jack Bateman, Nancy, Kaufmann, Daniella Scalice, David Van Vactor, Haruo Saito
Access: Open access
- The receptor protein tyrosine phosphatase (PTPase) Dlar has an ectodomain consisting of three immunoglobulin (Ig)-like domains and nine fibronectin type III (FnIII) repeats and a cytoplasmic domain consisting of two PTPase domains, membrane-proximal PTP-D1 and C-terminal PTP-D2. A series of mutant Dlar transgenes were introduced into the Drosophila genome via P-element transformation and were then assayed for their capacity to rescue phenotypes caused by homozygous loss-of-function genotypes. The Ig-like domains, but not the FnIII domains, are essential for survival. Conversely, the FnIII domains, but not the Ig-like domains, are required during oogenesis, suggesting that different domains of the Dlar ectodomain are involved in distinct functions during Drosophila development. All detectable PTPase activity maps to PTP-D1 in vitro. The catalytically inactive mutants of Dlar were able to rescue Dlar -/- lethality nearly as efficiently as wild-type Dlar transgenes, while this ability was impaired in the PTP-D2 deletion mutants DlarΔPTP-D2 and Dlarbypass. Dlar-C1929S, in which PTP-D2 has been inactivated, increases the frequency of bypass phenotype observed in Dlar-/- genotypes, but only if PTP-D1 is catalytically active in the transgene. These results indicate multiple roles for PTP-D2, perhaps by acting as a docking domain for downstream elements and as a regulator of PTP-D1.
Targeted identification of glycosylated proteins in the gastric pathogen helicobacter pylori (Hp)
Date: 2013-09-01
Creator: Kanokwan Champasa, Scott A. Longwell, Aimee M. Eldridge, Elizabeth A. Stemmler, Danielle H., Dube
Access: Open access
- Virulence of the gastric pathogen Helicobacter pylori (Hp) is directly linked to the pathogen's ability to glycosylate proteins; for example, Hp flagellin proteins are heavily glycosylated with the unusual nine-carbon sugar pseudaminic acid, and this modification is absolutely essential for Hp to synthesize functional flagella and colonize the host's stomach. Although Hp's glycans are linked to pathogenesis, Hp's glycome remains poorly understood; only the two flagellin glycoproteins have been firmly characterized in Hp. Evidence from our laboratory suggests that Hp synthesizes a large number of as-yet unidentified glycoproteins. Here we set out to discover Hp's glycoproteins by coupling glycan metabolic labeling with mass spectrometry analysis. An assessment of the subcellular distribution of azide-labeled proteins by Western blot analysis indicated that glycoproteins are present throughout Hp and may therefore serve diverse functions. To identify these species, Hp's azide-labeled glycoproteins were tagged via Staudinger ligation, enriched by tandem affinity chromatography, and analyzed by multidimensional protein identification technology. Direct comparison of enriched azide-labeled glycoproteins with a mock-enriched control by both SDS-PAGE and mass spectrometry-based analyses confirmed the selective enrichment of azide-labeled glycoproteins. We identified 125 candidate glycoproteins with diverse biological functions, including those linked with pathogenesis. Mass spectrometry analyses of enriched azide-labeled glycoproteins before and after cleavage of O-linked glycans revealed the presence of Staudinger ligation-glycan adducts in samples only after beta-elimination, confirming the synthesis of O-linked glycoproteins in Hp. Finally, the secreted colonization factors urease alpha and urease beta were biochemically validated as glycosylated proteins via Western blot analysis as well as by mass spectrometry analysis of cleaved glycan products. These data set the stage for the development of glycosylation-based therapeutic strategies, such as new vaccines based on natively glycosylated Hp proteins, to eradicate Hp infection. Broadly, this report validates metabolic labeling as an effective and efficient approach for the identification of bacterial glycoproteins. © 2013 by The American Society for Biochemistry and Molecular Biology, Inc.
Collapse of a magnetized star to a black hole
Date: 2003-01-01
Creator: T.W. Baumgarte, S.L. Shapiro
Access: Open access
Improving Energy Efficiency through Compiler Optimizations
Date: 2021-01-01
Creator: Jack Beckitt-Marshall
Access: Open access
- Abstract--- Energy efficiency is becoming increasingly important for computation, especially in the context of the current climate crisis. The aim of this experiment was to see if the compiler could reduce energy usage without rewriting programs themselves. The experimental setup consisted of compiling programs using the Clang compiler using a set of compiler flags, and then measuring energy usage and execution time on an AMD Ryzen processor. Three experiments were performed: a random exploration of compiler flags, utilization of SIMD, as well as benchmarking real world applications. It was found that the compiler was able to reduce execution time, especially when optimizing for the specific architecture, to a degree that depends on the program being compiled. Faster execution time tended to correlate with reduced energy usage as well, further suggesting that optimizing programs for speed and architecture is the most effective way of decreasing their overall energy usage.
Instability in a Time-Modulated Lattice This record is embargoed.
- Embargo End Date: 2025-05-19
Date: 2022-01-01
Creator: Evelyn Wallace
Access: Embargoed
Assessing the Accuracy of Quantum Monte Carlo Pseudopotentials for CO2 Capture in Metal Organic Frameworks
Date: 2021-01-01
Creator: Chloe Renfro
Access: Open access
- As global emissions of CO2 and other greenhouse gases rises, global warming persists as an imminent threat to the environment and every day lives. To reduce greenhouse gas emissions in the atmosphere, there is a need to design materials to separate and capture the different gasses. Current gas capturing technologies lack efficiency and have extensive energy costs. A class of materials for CO2 capture is Molecular Organic Frameworks (MOFs). In order for a MOF to be efficient for this type of separation, the MOF needs to be able to selectively bind to the gas, while also not suffering a high energy cost to remove the gas and reuse the material. Computationally calculated binding energies are used to determine the usefulness of a MOF at capture and separation of a certain gas. Each computational method has its advantages and limitations. In this work, diffusion quantum Monte Carlo is being explored. This paper focuses on the accuracy of recently developed pseudopotentials for DMC use. These pseudopotentials have been tested on smaller molecules but have not been systematically tested for systems such as MOFs. Results from a DMC calculation of Zn-MOF-74 show a binding energy of -18.02 kJ/mol with an error bound of 16.74 kJ/mol. In order to assess the accuracy of the DMC results for binding energies of this magnitude the uncertainty need to be reduced, a subject of ongoing work.