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At least 1,405 records · Page 78

A Network Integration Approach to Predict Conserved Regulators Related to Pathogenicity of Influenza and SARS-CoV Respiratory Viruses

Respiratory infections stemming from influenza viruses and the Severe Acute Respiratory Syndrome corona virus (SARS-CoV) represent a serious public health threat as emerging pandemics. Despite efforts to identify the critical interactions of these viruses with host machinery, the key regulatory events that lead to disease pathology remain poorly targeted with therapeutics. Here we implement an integrated network interrogation approach, in which proteome and transcriptome datasets from infection of both viruses in human lung epithelial cells are utilized to predict regulatory genes involved in the host response. We take advantage of a novel “crowd-based” approach to identify and combine ranking metrics that isolate genes/proteins likely related to the pathogenicity of SARS-CoV and influenza virus. Subsequently, a multivariate regression model is used to compare predicted lung epithelial regulatory influences with data derived from other respiratory virus infection models. We predicted a small set of regulatory factors with conserved behavior for consideration as important components of viral pathogenesis that might also serve as therapeutic targets for intervention. Our results demonstrate the utility of integrating diverse ‘omic datasets to predict and prioritize regulatory features conserved across multiple pathogen infection models.

Computational Biology↗

Automated Immobilized Metal Affinity Chromatography System for Enrichment of Escherichia coli Phosphoproteome

Enrichment of bacterial phosphopeptides is an essential step prior to bottom-up mass spectrometry-based analysis of the phosphoproteome, which is fundamental to understanding the role of phosphoproteins in cell signaling and regulation of protein activity. We developed an automated IMAC system to enrich strong cation exchange-fractionated phosphopeptides from the soluble proteome of Escherichia coli MG1655 grown on minimal medium. Initial demonstration of the system resulted in identification of 75 phosphopeptides covering 52 phosphoproteins. Consistent with previous studies, many of these phosphoproteins are involved in the carbohydrate portion of central metabolism. The automated system utilizes a large capacity IMAC column that can effectively enrich phosphopeptides from a bacterial sample by increasing peptide loading and reducing the wash time. An additional benefit of the automated IMAC system is reduced labor and associated costs.

Environmental Molecular Sciences Laboratory↗

Development and diagnosis of an atmospheric pressure plasma torch for investigating magnetohydrodynamic instabilities

The development and diagnosis of an atmospheric pressure, non-transferred, DC arc plasma torch for investigating magnetohydrodynamic experiments is presented. Utilizing a custom AC starter circuit coupled with a high power DC power supply a long, laminar plasma jet was successfully generated by adjusting voltage and current characteristics, gas flow rates, and torch geometry (nozzle diameter and length). A complete and detailed description of the design and operation conditions of our torch is presented such that our results may be reproduced. Utilizing copper, aluminum, and tungsten alloy electrode components in conjunction with an electrically isolated water cooling system allows for continuous torch operation. The 50 kV AC starter circuit is coupled with a 15 kW DC power supply via a series injection transformer as a part of the custom arc starter circuit components. Axial and tangential gas flow, with nitrogen as the working gas, is regulated to generate a stable, laminar, atmospheric plasma torch with a jet length of over 80 cm under ideal operating conditions. Here, to visualize the plasma interface in magnetohydrodynamics experiments, a technique was developed to image the cylindrical plasma jet in both the R-Z plane (axial) and R-θ plane (cross sectional) using planar-laser Mie scattering from particles added to the surrounding gas. Plasma emission wavelengths are filtered out allowing scattered light from the particle laden-flow field illuminated at 532 nm by an Nd:YAG laser, to be isolated. Plasma electron temperature and degree of ionization were estimated using a technique based on the well-known Fowler–Milne spectroscopic method. Electron temperatures of up to 14 000 K and degree of ionization up to 27% at the torch exit were obtained.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

New pieces to the lanthanide puzzle

Summary Recently, rare‐earth elements lanthanides (Ln 3+ ) have emerged as enzyme cofactors of methanol dehydrogenases of the XoxF type. It is now understood that XoxF enzymes can functionally replace the alternative, calcium‐dependent, MxaFI‐type methanol dehydrogenases, when Ln 3+ are available. These rare‐earth metals are not only essential for XoxF activity, but they also regulate gene expression, in a reverse fashion, activating the expression of XoxF and repressing the expression of MxaFI. This type of regulation has created multiple conundrums, including the details of the solubility, transport, sensing and selection mechanisms for Ln 3+ by the bacterial cells, as well as the questions relevant to the evolution of the alternative enzymes and their potentially different redox properties. Overall, the newly discovered biological activity of Ln 3+ presents a big puzzle. Ochsner et al. add several pieces to this puzzle, utilizing a model phyllosphere colonizer Methylobacterium extorquens PA1. They determine that Ln 3+ sensing by this organism can take place via both XoxF‐dependent and XoxF‐independent mechanisms. They also identify genes for a TonB‐dependent transporter and an ABC‐type transporter and demonstrate that both are essential for Ln 3+ ‐dependent methanol metabolism. The puzzle still requires multiple additional pieces for completion, but great strides have been made toward the goal of solving it.

Chistoserdova, Ludmila↗

Modeling the Spatio-Temporal Variability in Subsurface Thermal Regimes Across a Low-Relief Polygonal Tundra Landscape: Modeling Archive

Vast carbon stocks stored in permafrost soils of Arctic tundra are under risk of release to atmosphere under warming climate. Ice--wedge polygons in the low-gradient polygonal tundra create a complex mosaic of microtopographic features. The microtopography plays a critical role in regulating the fine scale variability in thermal and hydrological regimes in the polygonal tundra landscape underlain by continuous permafrost. Modeling of thermal regimes of this sensitive ecosystem is essential for understanding the landscape behaviour under current as well as changing climate. We present here an end-to-end effort for high resolution numerical modeling of thermal hydrology at real-world field sites, utilizing the best available data to characterize and parameterize the models. We develop approaches to model the thermal hydrology of polygonal tundra and apply them at four study sites at Barrow, Alaska spanning across low to transitional to high-centered polygon and representative of broad polygonal tundra landscape. A multi--phase subsurface thermal hydrology model (PFLOTRAN) was developed and applied to study the thermal regimes at four sites. Using high resolution LiDAR DEM, microtopographic features of the landscape were characterized and represented in the high resolution model mesh. Best available soil data from field observations and literature was utilized to represent the complex heterogeneous subsurface in the numerical model. This data collection provides the complete set of input files, forcing data sets and computational meshes for simulations using PFLOTRAN for four sites at Barrow Environmental Observatory. It also documents the complete computational workflow for this modeling study to allow verification, reproducibility and follow up studies. This dataset includes two zipped files and one .pdf file.The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic), was a research effort to reduce uncertainty in Earth System Models by developing a predictive understanding of carbon-rich Arctic ecosystems and feedbacks to climate. NGEE Arctic was supported by the Department of Energy's Office of Biological and Environmental Research.The NGEE Arctic project had two field research sites: 1) located within the Arctic polygonal tundra coastal region on the Barrow Environmental Observatory (BEO) and the North Slope near Utqiagvik (Barrow), Alaska and 2) multiple areas on the discontinuous permafrost region of the Seward Peninsula north of Nome, Alaska.Through observations, experiments, and synthesis with existing datasets, NGEE Arctic provided an enhanced knowledge base for multi-scale modeling and contributed to improved process representation at global pan-Arctic scales within the Department of Energy's Earth system Model (the Energy Exascale Earth System Model, or E3SM), and specifically within the E3SM Land Model component (ELM).

54 ENVIRONMENTAL SCIENCES↗

The Case for Intelligent Propulsion Control for Fast Engine Response

Damaged aircraft have occasionally had to rely solely on thrust to maneuver as a consequence of losing hydraulic power needed to operate flight control surfaces. The lack of successful landings in these cases inspired research into more effective methods of utilizing propulsion-only control. That research demonstrated that one of the major contributors to the difficulty in landing is the slow response of the engines as compared to using traditional flight control. To address this, research is being conducted into ways of making the engine more responsive under emergency conditions. This can be achieved by relaxing controller limits, adjusting schedules, and/or redesigning the regulators to increase bandwidth. Any of these methods can enable faster response at the potential expense of engine life and increased likelihood of stall. However, an example sensitivity analysis revealed a complex interaction of the limits and the difficulty in predicting the way to achieve the fastest response. The sensitivity analysis was performed on a realistic engine model, and demonstrated that significantly faster engine response can be achieved compared to standard Bill of Material control. However, the example indicates the need for an intelligent approach to controller limit adjustment in order for the potential to be fulfilled.

Litt, Jonathan S.↗

The formation of giant plasma membrane vesicles enable new insights into the regulation of cholesterol efflux

Highlights: • Giant plasma membrane vesicles serve as a means to monitor cell surface cholesterol. • Increase in cholesterol efflux enhances giant plasma membrane vesicle formation. • Microtubule stabilization and acetylation promote cholesterol efflux in NPC disease. • Actin dynamics and Arl4c modulate lipid efflux and giant plasma membrane vesicles. Aberrant cellular cholesterol accumulation contributes to the pathophysiology of many diseases including neurodegenerative disorders such as Niemann-Pick Type C (NPC) and Alzheimer's Disease{sup 1–4}. Many aspects of cholesterol efflux from cells remain elusive. Here we describe the utility of cholesterol-rich giant plasma membrane vesicles (GPMVs) as a means to monitor cholesterol that is translocated to the plasma membrane for secretion. We demonstrate that small molecules known to enhance lipid efflux, including those in clinical trials for lipid storage disorders, enhance this GPMV formation. Conversely, pharmacological inhibition of cholesterol efflux blocks GPMV formation. We show that microtubule stabilization via paclitaxel treatment and increased tubulin acetylation via HDAC6 inhibition promotes the formation of GPMVs with concomitant reduction in cellular cholesterol in a cell model of NPC disease. The pan-deacetylase inhibitor panobinostat, which has been shown to reduce the severity of cholesterol storage in NPC, elicited a similar response. Further, the disruption of actin polymerization inhibits the formation of GPMVs, whereas the small GTP-binding protein Arl4c promotes actin remodeling at sites overlapping with GPMV formation. Thus, monitoring the formation of GPMVs provides a new avenue to better understand diseases whose pathology may be sensitive to alterations in cellular cholesterol.

60 APPLIED LIFE SCIENCES↗

Tetrapyrrole biosynthesis and signaling (chlorophyll, heme, and bilins)

Chlamydomonas utilizes the cyclic tetrapyrroles chlorophyll, heme, siroheme, vitamin B12 and linear tetrapyrrole (bilin) metabolites as cofactors for photosynthetic light harvesting, electron transport, redox reactions, mitigating oxidative stress and signaling. Furthermore, with the exception of vitamin B12, Chlamydomonas can synthesize and degrade all of these tetrapyrroles. In this chapter, we review what is currently known about how Chlamydomonas biosynthesizes and metabolizes tetrapyrroles, how these processes are regulated and the various functions of tetrapyrroles in Chlamydomonas.

59 BASIC BIOLOGICAL SCIENCES↗

Activation of TLR3 and its adaptor TICAM-1 increases miR-21 levels in extracellular vesicles released from human cells

Highlights: • Activation of TLR3 increases miR-21 levels in extracellular vesicles. • TLR3 requires TICAM-1 adaptor to increase miR-21 levels in extracellular vesicles. • YBX-1 is involved in TLR3-mediated increase of miR-21 levels. Pattern-recognition receptors (PRRs) recognizes viral RNAs and trigger the innate immune responses. Toll-like receptor 3 (TLR3), a PRR, recognizes viral double-stranded RNA (dsRNA) in endolysosomes, whereas cytoplasmic dsRNA is sensed by another PRR, MDA5. TLR3 and MDA5 utilize TICAM-1 and MAVS, respectively, to trigger the signal for inducing innate immune responses. Extracellular vesicles (EVs) include the exosomes and microvesicles; an accumulating body of evidence has shown that EVs delivers functional RNA, such as microRNAs (miRNAs), to other cells and thus mediate intercellular communications. Therefore, EVs carrying miRNAs affect innate immune responses in macrophages and dendritic cells. However, the mechanism underlying the regulation of miRNA levels in EVs remains unclear. To elucidate the mechanism, we sought to reveal the pathway that control miRNA expression levels in EVs. Here, we found that TLR3 stimulation increased miR-21 levels in EVs released from various types of human cells. Ectopic expression of the TLR3 adaptor, TICAM-1, increased miR-21 levels in EVs but not intracellular miR-21 levels, suggesting that TICAM-1 augmented sorting of miR-21 to EVs. In contrast, the MDA5 adaptor, MAVS, did not increase miR-21 levels in EVs. The siRNA for TICAM-1 reduced EV miR-21 levels after stimulation of TLR3. Collectively, our data indicate a novel role of the TLR3-TICAM-1 pathway in controlling miR-21 levels in EVs.

60 APPLIED LIFE SCIENCES↗

Energetics of muscle contraction: the whole is less than the sum of its parts

Understanding muscle energetics is a problem in optimizing supply of ATP to the demands of ATPases. The complexity of reactions and their fluxes to achieve this balance is greatly reduced by recognizing constraints imposed by the integration of common metabolites at fixed stoichiometry among modular units. ATPase is driven externally. Oxidative phosphorylation and glycogenolysis are the suppliers. We focus on their regulation which involves different controls, but reduces to two principles that enable facile experimental analysis of the supply and demand fluxes. The ratio of concentration of phosphocreatine (PCr) to ATP, not their individual values, sets the range of achievable concentrations of ADP in resting and active muscle (at fixed pH) in different cell types. This principle defines the fraction of available flux of oxidative phosphorylation utilized (at fixed enzyme activities). Then the kinetics of PCr recovery defines the kinetics of oxygen supply and substrate utilization. The second principle is the constancy of PCr and H(+) (lactate) production by glycogenolysis due to the coupling of ATPase and glycolysis. This principle enables glycogenolytic flux to be measured from intracellular proton loads. Further simplification occurs because the magnitude of the interacting fluxes and metabolite concentrations are specified within narrow limits when both the resting and active fluxes are quantified. Thus there is a small set of rules for assessing and understanding the thermodynamics and kinetics of muscle energetics.

NASA Program Biomedical Research and Countermeasur↗

The autonomic laboratory

The autonomic nervous system can now be studied quantitatively, noninvasively, and reproducibly in a clinical autonomic laboratory. The approach at the Mayo Clinic is to study the postganglionic sympathetic nerve fibers of peripheral nerve (using the quantitative sudomotor axon reflex test [QSART]), the parasympathetic nerves to the heart (cardiovagal tests), and the regulation of blood pressure by the baroreflexes (adrenergic tests). Patient preparation is extremely important, since the state of the patient influences the results of autonomic function tests. The autonomic technologist in this evolving field needs to have a solid core of knowledge of autonomic physiology and autonomic function tests, followed by training in the performance of these tests in a standardized fashion. The range and utilization of tests of autonomic function will likely continue to evolve.

NASA Discipline Cardiopulmonary↗

Gas Dynamic Spray Technology Demonstration Project Management

The standard practice for protecting metallic substrates in atmospheric environments is the use of an applied coating system. Current coating systems used across AFSPC and NASA contain volatile organic compounds (VOCs) and hazardous air pollutants (HAPs). These coatings are sUbject to environmental regulations at the Federal and State levels that limit their usage. In addition, these coatings often cannot withstand the high temperatures and exhaust that may be experienced by Air Force Space Command (AFSPC) and NASA structures. In response to these concerns, AFSPC and NASA have approved the use of thermal spray coatings (TSCs). Thermal spray coatings are extremely durable and environmentally friendly coating alternatives, but utilize large cumbersome equipment for application that make the coatings difficult and time consuming to repair. Other concerns include difficulties coating complex geometries and the cost of equipment, training, and materials. Gas Dynamic Spray (GOS) technology (also known as Cold Spray) was evaluated as a smaller, more maneuverable repair method as well as for areas where thermal spray techniques are not as effective. The technology can result in reduced maintenance and thus reduced hazardous materials/wastes associated with current processes. Thermal spray and GOS coatings also have no VOCs and are environmentally preferable coatings. The primary objective of this effort was to demonstrate GDS technology as a repair method for TSCs. The aim was that successful completion of this project would result in approval of GDS technology as a repair method for TSCs at AFSPC and NASA installations to improve corrosion protection at critical systems, facilitate easier maintenance activity, extend maintenance cycles, eliminate flight hardware contamination, and reduce the amount of hazardous waste generated.

Lewis, Pattie↗

Chapter 4: Aerospace Neurology

In the practice of medicine, the neurologist is called upon to answer the following questions: (1) Does the patient have neurologic disease? (2) If so, what is the localization of the lesion or lesions? (3) What is the pathophysiology of the process? (4) What is the preliminary differential diagnosis? Utilizing the tools of the neurologic and medical history, the neurologic examination, ancillary studies, and one’s education, training, and experience, the neurologist arrives at a diagnosis. The aerospace medicine physician (evaluator) has the additional challenge of relating the neurologic condition to aviation safety and achieving an appropriate aeromedical disposition. Whether it is the aviation medical examiner (AME), flight surgeon, or Federal Aviation Administration (FAA) regulator, the aerospace medicine physician shoulders the responsibility of a determination that may decide one’s career in aviation or spaceflight. Considering the individual, and yet preserving aerospace safety, is a never-ending challenge for the aerospace medicine physician. The evaluator has the dual responsibility of applying the standards and also considering exceptions to the standards in allowing waivers from standards, while assuring aerospace safety.

Joseph I Sirven↗

Panel Session 73: DOE-EM End-State Contracting

US DOE-EM's new end-state contracting model, the ID/IQ (Indefinite Delivery/Indefinite Quality) approach, is intended to give EM the flexibility to better define discrete scopes of work for site closure or end states. This is the result of several years of dialogue between industry and DOE about the way to collectively improve the way to do business more safely, quickly and cost effectively. This model requires a fine balance between incentives and clearly defined end states, with the ability for contractors and DOE to react quickly to respond to changes. By March 6, DOE and industry were one month into the new end-state contracting model with two requests for proposals issued and contractors responding. The purpose of the panel was to hear from DOE and industry about the status so far. DOE and the contractor community are generally supportive of the new model, but it will require closer partnership and a new mindset and approach among DOE, contractors, regulator and the workforce. This panel focused on the implementation of DOE EM's new End State Contracting Model, which uses a single-award ID/IQ approach to give EM the flexibility to better define discrete scopes of work for site closure or end states. The panelists provided their perspective on the initial implementation of the new approach and the path forward for upcoming opportunities utilizing this model. Presentation proposed: DOE EM End State Contracting (Tamara Miles, US DOE (USA))

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Evaluation of Uranium Measurements in Water by Various Methods - 13571

In December 2000, EPA amended its drinking water regulations for radionuclides by adding a Maximum Contaminant Level (MCL) for uranium (so called MCL Rule)[1] of 30 micrograms per liter (μg/L). The MCL Rule also included MCL goals of zero for uranium and other radionuclides. Many radioactively contaminated sites must test uranium in wastewater and groundwater to comply with the MCL rule as well as local publicly owned treatment works discharge limitations. This paper addresses the relative sensitivity, accuracy, precision, cost and comparability of two EPA-approved methods for detection of total uranium: inductively plasma/mass spectrometry (ICP-MS) and alpha spectrometry. Both methods are capable of measuring the individual uranium isotopes U-234, U- 235, and U-238 and both methods have been deemed acceptable by EPA. However, the U-238 is by far the primary contributor to the mass-based ICP-MS measurement, especially for naturally-occurring uranium, which contains 99.2745% U-238. An evaluation shall be performed relative to the regulatory requirement promulgated by EPA in December 2000. Data will be garnered from various client sample results measured by ALS Laboratory in Fort Collins, CO. Data shall include method detection limits (MDL), minimum detectable activities (MDA), means and trends in laboratory control sample results, performance evaluation data for all methods, and replicate results. In addition, a comparison will be made of sample analyses results obtained from both alpha spectrometry and the screening method Kinetic Phosphorescence Analysis (KPA) performed at the U.S. Army Corps of Engineers (USACE) FUSRAP Maywood Laboratory (UFML). Many uranium measurements occur in laboratories that only perform radiological analysis. This work is important because it shows that uranium can be measured in radiological as well as stable chemistry laboratories and it provides several criteria as a basis for comparison of two uranium test methods. This data will indicate which test method is the most accurate and most cost effective. This paper provides a benefit to Formerly Utilized Sites Remedial Action Program (FUSRAP) and other Department of Defense (DOD) programs that may be performing uranium measurements. (authors)

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Evodiamine selectively targets cancer stem-like cells through the p53-p21-Rb pathway

In spite of the recent improvements, the resistance to chemotherapy/radiotherapy followed by relapse is the main hurdle for the successful treatment of breast cancer, a leading cause of death in women. A small population of breast cancer cells that have stem-like characteristics (cancer stem-like cells; CSLC) may contribute to this resistance and relapse. Here, we report on a component of a traditional Chinese medicine, evodiamine, which selectively targets CSLC of breast cancer cell lines MCF7 and MDAMB 231 at a concentration that does show a little or no cytotoxic effect on bulk cancer cells. While evodiamine caused the accumulation of bulk cancer cells at the G2/M phase, it did not hold CSLC in a specific cell cycle phase but instead, selectively killed CSLC. This was not due to the culture of CSLC in suspension or without FBS. A proteomic analysis and western blotting revealed that evodiamine changed the expression of cell cycle regulating molecules more efficiently in CSLC cells than in bulk cancer cells. Surprisingly, evodiamine selectively activated p53 and p21 and decreased inactive Rb, the master molecules in G1/S checkpoint. These data collectively suggest a novel mechanism involving CSLC-specific targeting by evodiamine and its possible use to the therapy of breast cancer. - Highlights: • Evodiamine selectively kills breast cancer stem like cells at G1 phase. • Evodiamine utilizes different mechanism of cell cycle modulation in CSLC and in bulk cancer cells. • Evodiamine activate the p53, p21 and Rb pathway.

60 APPLIED LIFE SCIENCES↗

Virtual Agents-Based Attack-Resilient Distributed Control for Islanded AC Microgrid

Due to its dependence on a communication network, distributed secondary control of microgrids is susceptible to denial-of-service (DoS) attacks in channel shutdown mode, which may negatively impact the network connectivity and thus deteriorate the coordination and power sharing among distributed generators (DGs). Honeypot is a common method for cyber deception by introducing fake targets. However, in the context of microgrid, the misleading information spread by honeypots will also impact the system performance. This paper proposes an attack-resilient distributed control for AC microgrids utilizing virtual agents (VAs) to counteract both DoS edge and node attacks. The VAs are designed to not impact the system’s steady state during normal operation but to share information among neighboring real agents and serve as dummy targets for DoS attacks. The control with VAs is implemented by a primal-dual gradient based distributed algorithm to efficiently obtain a practical solution for voltage/frequency regulation and power sharing. The simulation results on a 4-DG test system and a modified IEEE 34-bus system show that 1) VAs do not impact the normal functionality of the test system, and 2) deploying VAs can enhance the resilience of the microgrid control against DoS edge and node attacks.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Device Access Abstractions for Resilient Information Architecture Platform for Smart Grid

An open application platform distributes the intelligence and control capability to local endpoints (or nodes) reducing total network traffic, improving speed of local actions by avoiding latency, and improving reliability by reducing dependencies on numerous devices and communication interfaces. The platform must be multi-tasking and able to host multiple applications running simultaneously. Given such a system, the core functions of power grid control systems include grid state determination, low level control, fault intelligence and reconfiguration, outage intelligence, power quality measurement, remote asset monitoring, configuration management, power and energy management (including local distributed energy resources, such as wind, solar and energy storage) can be eventually distributed. However, making this move requires extensive regression testing of systems to prove out new technologies, such as phasor measurement units (PMU). Additionally, as the complexity of the systems increase with the inclusion of new functionality (especially at the distribution and consumer levels), hidden coupling issues becomes a challenge with possible N-way interactions known and not known by device and application developers. Therefore, it is very important to provide core abstractions that ensure uniform operational semantics across such interactions. Here in this paper, we describe the pattern for abstracting device interactions we have developed for the RIAPS platform in the context of a microgrid control application we have developed.

24 POWER TRANSMISSION AND DISTRIBUTION↗