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At least 937 records · Page 52

De novo design of programmable inducible promoters

Abstract Ligand-responsive allosteric transcription factors (aTF) play a vital role in genetic circuits and high-throughput screening because they transduce biochemical signals into gene expression changes. Programmable control of gene expression from aTF-regulated promoter is important because different downstream effector genes function optimally at different expression levels. However, tuning gene expression of native promoters is difficult due to complex layers of homeostatic regulation encoded within them. We engineered synthetic promoters de novo by embedding operator sites with varying affinities and radically reshaped binding preferences within a minimal, constitutive Escherichia coli promoter. Multiplexed cell-based screening of promoters for three TetR-like aTFs generated with this approach gave rich diversity of gene expression levels, dynamic ranges and ligand sensitivities and were 50- to 100-fold more active over their respective native promoters. Machine learning on our dataset revealed that relative position of the core motif and bases flanking the core motif play an important role in modulating induction response. Our generalized approach yields customizable and programmable aTF-regulated promoters for engineering cellular pathways and enables the discovery of new small molecule biosensors.

59 BASIC BIOLOGICAL SCIENCES↗

Structures of Neisseria gonorrhoeae MtrR-operator complexes reveal molecular mechanisms of DNA recognition and antibiotic resistance-conferring clinical mutations

Abstract Mutations within the mtrR gene are commonly found amongst multidrug resistant clinical isolates of Neisseria gonorrhoeae, which has been labelled a superbug by the Centers for Disease Control and Prevention. These mutations appear to contribute to antibiotic resistance by interfering with the ability of MtrR to bind to and repress expression of its target genes, which include the mtrCDE multidrug efflux transporter genes and the rpoH oxidative stress response sigma factor gene. However, the DNA-recognition mechanism of MtrR and the consensus sequence within these operators to which MtrR binds has remained unknown. In this work, we report the crystal structures of MtrR bound to the mtrCDE and rpoH operators, which reveal a conserved, but degenerate, DNA consensus binding site 5′-MCRTRCRN4YGYAYGK-3′. We complement our structural data with a comprehensive mutational analysis of key MtrR-DNA contacts to reveal their importance for MtrR-DNA binding both in vitro and in vivo. Furthermore, we model and generate common clinical mutations of MtrR to provide plausible biochemical explanations for the contribution of these mutations to multidrug resistance in N. gonorrhoeae. Collectively, our findings unveil key biological mechanisms underlying the global stress responses of N. gonorrhoeae.

59 BASIC BIOLOGICAL SCIENCES↗

Genomics-enabled analysis of specialized metabolism in bioenergy crops: Current progress and challenges

Plants produce a staggering diversity of specialized small molecule metabolites that play vital roles in mediating environmental interactions and stress adaptation. This chemical diversity derives from dynamic biosynthetic pathway networks that are often species-specific and operate under tight spatiotemporal and environmental control. A growing divide between demand and environmental challenges in food and bioenergy crop production have intensified research on these complex metabolite networks and their contribution to crop fitness. High-throughput omics technologies provide access to ever-increasing data resources for investigating plant metabolism. However, the efficiency of using such system-wide data to decode the gene and enzyme functions controlling specialized metabolism has remained limited; due largely to the recalcitrance of many plants to genetic approaches and the lack of ‘user-friendly’ biochemical tools for studying the diverse enzyme classes involved in specialized metabolism. With emphasis on terpenoid metabolism in the bioenergy crop switchgrass as an example, this review aims to illustrate current advances and challenges in the application of DNA synthesis and synthetic biology tools for accelerating the functional discovery of genes, enzymes and pathways in plant specialized metabolism. These technologies have accelerated knowledge development on the biosynthesis and physiological roles of diverse metabolite networks across many ecologically and economically important plant species and can provide resources for application to precision breeding and natural product metabolic engineering.

59 BASIC BIOLOGICAL SCIENCES↗

Engineering and Scientific Applications: Using MatLab(Registered Trademark) for Data Processing and Visualization

MatLab(R) (MATrix LABoratory) is a numerical computation and simulation tool that is used by thousands Scientists and Engineers in many cou ntries. MatLab does purely numerical calculations, which can be used as a glorified calculator or interpreter programming language; its re al strength is in matrix manipulations. Computer algebra functionalities are achieved within the MatLab environment using "symbolic" toolbo x. This feature is similar to computer algebra programs, provided by Maple or Mathematica to calculate with mathematical equations using s ymbolic operations. MatLab in its interpreter programming language fo rm (command interface) is similar with well known programming languag es such as C/C++, support data structures and cell arrays to define c lasses in object oriented programming. As such, MatLab is equipped with most ofthe essential constructs of a higher programming language. M atLab is packaged with an editor and debugging functionality useful t o perform analysis of large MatLab programs and find errors. We belie ve there are many ways to approach real-world problems; prescribed methods to ensure foregoing solutions are incorporated in design and ana lysis of data processing and visualization can benefit engineers and scientist in gaining wider insight in actual implementation of their perspective experiments. This presentation will focus on data processing and visualizations aspects of engineering and scientific applicati ons. Specifically, it will discuss methods and techniques to perform intermediate-level data processing covering engineering and scientifi c problems. MatLab programming techniques including reading various data files formats to produce customized publication-quality graphics, importing engineering and/or scientific data, organizing data in tabu lar format, exporting data to be used by other software programs such as Microsoft Excel, data presentation and visualization will be discussed. The presentation will emphasize creating practIcal scripts (pro grams) that extend the basic features of MatLab TOPICS mclude (1) Ma trix and vector analysis and manipulations (2) Mathematical functions (3) Symbolic calculations & functions (4) Import/export data files (5) Program lOgic and flow control (6) Writing function and passing parameters (7) Test application programs

Sen, Syamal K.↗

Investigation of Superluminescent Diodes for Smart Lighting Systems. Final Report

The solid-state lighting ecosystem has evolved very rapidly over the last few years, with significant improvements in the technical performance of light-emitting diodes (LEDs) and the commoditization of LED-based lighting fixtures. As the performance of conventional lighting products begins to saturate, there is growing market interest in “Lighting as a Service” applications that will leverage advanced systems to impart new functionalities to lighting and improve energy efficiency, human health, and productivity. These “Smart Lighting” systems will include high-performance light sources, specialized sensors, and dynamic controls to deliver high quality, energy efficient, color tunable lighting with customized spatial light delivery and integrated visible light communication capability. To achieve these capabilities, smart lighting systems will place greater demands on the performance of light sources. Highly efficient sources with additional functionalities compared to conventional LEDs, such as small form factor, large modulation bandwidth, and spatially coherent output beams, will be required. While laser diodes have been proposed as potential sources for smart lighting systems, they also exhibit several properties that pose challenges, such as temporal coherence, extremely high spatial coherence, and ultra-narrow linewidths. To address these issues, we propose an investigation of an alternative device architecture known as a superluminescent diode (SLD). SLDs are similar in form to ridge laser diodes and share many of the same characteristics, such as stimulated emission operation, spatially coherent output, small form factor, and the potential for large modulation bandwidth. However, the operating principle for SLDs is distinct from laser diodes in that SLDs lack a strong cavity feedback mechanism, resulting in spatially coherent but temporally incoherent light output. Thus, SLDs may address the issues with laser diodes for lighting, while simultaneously maintaining some of the desirable characteristics of both laser diodes and LEDs. The objectives of this proposal are to design, grow, and fabricate blue (450 nm) SLDs on polar c-plane and nonpolar m-plane free-standing GaN substrates, and to evaluate their potential as sources in smart lighting systems through basic device characterization and detailed investigations of their efficiency droop and modulation bandwidth. The primary scientific aims of this work are to understand the fundamental role of optical gain in the superluminescent (non-lasing) regime on efficiency droop and modulation bandwidth in III-nitride emitters and to understand the effects of higher optical gain on SLD performance by comparing polar c-plane and nonpolar m-plane SLDs. The University of New Mexico (UNM) will collaborate with Sandia National Laboratories (SNL) and the Center for Integrated Nanotechnologies to design, fabricate, grow, and characterize the SLDs. UNM will perform the design and epitaxial growth, while SNL will focus on the fabrication and device characterization. The novelty of the proposed work includes the first comprehensive theoretical and experimental investigations of efficiency droop and the first investigation of modulation bandwidth in GaN-based emitters operating in the superluminescent regime. Moreover, the comparison of c-plane and m-plane SLDs will enable the first analysis of the effects of higher optical gain on the device performance. The development of high-performance GaN-based SLDs may enable efficiency gains and improved functionality in next-generation smart lighting systems.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Cineradiography System and Initial 3D-printed Brain Phantoms

Traumatic brain injury (TBI) is a significant cause of death in tactical, sport and civilian populations. According to the Center for Disease Control (CDC) report in 2016, TBI accounted for 227,000 hospitalizations and 60,000 related deaths. In the military, the prevalence of traumatic brain injuries is related to the type of conflict U.S. forces are involved in and are typically classified as mild traumatic brain injuries (mTBIs). Troops returning from Operation Enduring Freedom and Operation Iraqi Freedom had a TBI rate estimated at 15.2% to 22.8%; nearly 320,000 troops. These mTBIs were primarily blast-induced and often lacked any accompanying symptoms. Left untreated, these mild injuries have been linked to chronic disorders and cognitive alterations. One such disorder that has been frequently recorded in literature is chronic traumatic encephalopathy (CTE). CTE is a progressive neurodegenerative tauopathy resulting from repetitive mTBIs. The repetitive head injuries involved in sport, classified as mTBIs, has resulted in CTE development in athletes involved in contact sports. While the association between mTBIs and CTE has been pathologically verified, the mechanisms have yet to be identified. In order to better understand these mechanisms, the use of flash x-ray radiography is being considered.

42 ENGINEERING↗

Thermodynamic and Kinetic Roles of H2 in Structure Evolution of Urchin-like Co: A density functional theory study

Small gas molecules working as good capping agents play important roles in controlling the morphologies and surface structures of the metal nanocrystals. In present work, the thermodynamic and kinetic roles of H2 molecule played on the morphology of Co nanocrystal were systematically studied based on density functional theory (DFT). The Gibbs surface free energies (?) of Co(100), Co(110) and Co(111) under different hydrogen surface coverages were investigated by ab initio thermodynamics, based on which i) the phase diagrams of stable H coverage on each plane were obtained; ii) the morphology evolutions of the Co nanocrystals with various surface hydrogen coverages were further predicted by Wulff construction. It was revealed that addition of H2 could change the facet stability generating diverse morphological Co nucleus. The kinetic role of H2 was further explored by DFT during adatom Co surface diffusions under different H coverages (?H), which suggested that except for Co(100) at ?H of 0.56 ML, the surface H would hinder Co surface diffusions. The projected density of state (PDOS) gave a deeper insight that the electronic structures of the Co adatom could be alerted by addition of the surface H, which thereby affected its surface diffusion ability. X. Wang, N. Liu, Q. Zhang, X. Liang, and B. Chen were financially supported by the National Natural Science Foundation of China (No. 21476012, 21571012, and 91534201). D. Mei was supported by the US Department of Energy (DOE), Office of Science, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences & Biosciences. Pacific Northwest National Laboratory (PNNL) is a multiprogram national laboratory operated for DOE by Battelle. Computing time was granted by the facility user proposal grand challenge of computational catalysis of the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL). EMSL is a national scientific user facility located at Pacific Northwest National Laboratory (PNNL) and sponsored by DOE’s Office of Biological and Environmental Research.

Nanocrystal Co, Surface free energy, Surface diffu↗

Seedling Chloroplast Responses Induced by N-Linolenoylethanolamine Require Intact G-Protein Complexes

In animals, several long-chain N-acylethanolamines (NAEs) have been identified as endocannabinoids and are autocrine signals that operate through cell surface G-protein coupled, cannabinoid receptors. Despite the occurrence of N-acylethanolamines in land plants, including non-vascular plants, their precise signaling properties and molecular targets are not well defined. Here we show that the activity of N-linolenoylethanolamine (NAE 18:3) requires an intact G-protein complex. Specifically, genetic ablation of the Gβγ dimer or loss of the full set of atypical Gα subunits strongly attenuates an NAE 18:3-induced de-greening of cotyledons in Arabidopsis seedlings. This effect involves, at least in part, transcriptional regulation of chlorophyll biosynthesis and catabolism genes. In addition, there is feedforward transcriptional control of G-protein signaling components and G-protein interactors. These results are consistent with NAE 18:3 being a lipid signaling molecule in plants with a requirement for G-proteins to mediate signal transduction, a situation similar, but not identical, to the action of NAE endocannabinoids in animal systems.

59 BASIC BIOLOGICAL SCIENCES↗

Monitoring Digital Closed-Loop Feedback Systems

A technique of monitoring digital closed-loop feedback systems has been conceived. The basic idea is to obtain information on the performances of closed-loop feedback circuits in such systems to aid in the determination of the functionality and integrity of the circuits and of performance margins. The need for this technique arises as follows: Some modern digital systems include feedback circuits that enable other circuits to perform with precision and are tolerant of changes in environment and the device s parameters. For example, in a precision timing circuit, it is desirable to make the circuit insensitive to variability as a result of the manufacture of circuit components and to the effects of temperature, voltage, radiation, and aging. However, such a design can also result in masking the indications of damaged and/or deteriorating components. The present technique incorporates test circuitry and associated engineering-telemetry circuitry into an embedded system to monitor the closed-loop feedback circuits, using spare gates that are often available in field programmable gate arrays (FPGAs). This technique enables a test engineer to determine the amount of performance margin in the system, detect out of family circuit performance, and determine one or more trend(s) in the performance of the system. In one system to which the technique has been applied, an ultra-stable oscillator is used as a reference for internal adjustment of 12 time-to-digital converters (TDCs). The feedback circuit produces a pulse-width-modulated signal that is fed as a control input into an amplifier, which controls the circuit s operating voltage. If the circuit s gates are determined to be operating too slowly or rapidly when their timing is compared with that of the reference signal, then the pulse width increases or decreases, respectively, thereby commanding the amplifier to increase or reduce, respectively, its output level, and "adjust" the speed of the circuits. The nominal frequency of the TDC s pulse width modulated outputs is approximately 40 kHz. In this system, the technique is implemented by means of a monitoring circuit that includes a 20-MHz sampling circuit and a 24-bit accumulator with a gate time of 10 ms. The monitoring circuit measures the duty cycle of each of the 12 TDCs at a repetition rate of 28 Hz. The accumulator content is reset to all zeroes at the beginning of each measurement period and is then incremented or decremented based of the value of the state of the pulse width modulated signal. Positive or negative values in the accumulator correspond to duty cycles greater or less, respectively, than 50 percent.

Katz, Richard↗

Contact Graph Routing

Contact Graph Routing (CGR) is a dynamic routing system that computes routes through a time-varying topology of scheduled communication contacts in a network based on the DTN (Delay-Tolerant Networking) architecture. It is designed to enable dynamic selection of data transmission routes in a space network based on DTN. This dynamic responsiveness in route computation should be significantly more effective and less expensive than static routing, increasing total data return while at the same time reducing mission operations cost and risk. The basic strategy of CGR is to take advantage of the fact that, since flight mission communication operations are planned in detail, the communication routes between any pair of bundle agents in a population of nodes that have all been informed of one another's plans can be inferred from those plans rather than discovered via dialogue (which is impractical over long one-way-light-time space links). Messages that convey this planning information are used to construct contact graphs (time-varying models of network connectivity) from which CGR automatically computes efficient routes for bundles. Automatic route selection increases the flexibility and resilience of the space network, simplifying cross-support and reducing mission management costs. Note that there are no routing tables in Contact Graph Routing. The best route for a bundle destined for a given node may routinely be different from the best route for a different bundle destined for the same node, depending on bundle priority, bundle expiration time, and changes in the current lengths of transmission queues for neighboring nodes; routes must be computed individually for each bundle, from the Bundle Protocol agent's current network connectivity model for the bundle s destination node (the contact graph). Clearly this places a premium on optimizing the implementation of the route computation algorithm. The scalability of CGR to very large networks remains a research topic. The information carried by CGR contact plan messages is useful not only for dynamic route computation, but also for the implementation of rate control, congestion forecasting, transmission episode initiation and termination, timeout interval computation, and retransmission timer suspension and resumption.

Burleigh, Scott C.↗

NASA's Growing Commitment: The Space Garden

Astronauts cannot live on dehydrated ice cream alone. Like everyone else, they need their vegetables. Enter VEGGIE, the Deployable Vegetable System, currently under development by Orbital Technologies Corporation (ORBITEC). VEGGIE is the latest in a long line of vegetable production units ORBITEC is currently working on, with NASA assistance, to grow salad crops to supplement prepackaged foods during long stays in space. The primary goal of the VEGGIE project is to provide flight crews with palatable, nutritious, and safe sources of fresh food with minimal volume and operational resources. In addition, ORBITEC recognizes the age-old adage that gardening is good for the soul, and it acknowledges that gardens are beneficial for relaxation and recreation. As evidence, astronauts on the International Space Station (ISS), who often stay for periods of 6 months, have been enjoying plant experiments, which provide them with much missed greenery and can occupy valuable free time with an enjoyable task. VEGGIE is a project that grew out of technology developed by ORBITEC for the Biomass Production System (BPS). The BPS is equivalent in size to a Space Shuttle middeck locker, and provides four plant growth chambers. Each chamber has independent control of temperature, humidity, nutrient and water delivery, lighting, and atmospheric composition. The BPS flew to the ISS in 2002, and astronaut Dan Bursch had positive comments about his interaction with the plants while in orbit. Astronaut Peggy Whitson had similarly positive remarks during the following expedition while she was growing soybeans for another experiment. Whitson reflects on her time in space with the plantings on Expedition 5, "Although it doesn t sound like much, it was really exciting to see something green. I assumed that this was just because I really enjoy plants, but it surprised me that both of my crewmates were just as excited. They wanted photos of themselves with the plants and asked if they could eat some of them, too!" The astronauts did not eat the plants, but these initial experiments gave the researchers information they needed about the basics of growing crops in space.

Source record↗

Wingless Flight: The Lifting Body Story

Wingless Flight tells the story of the most unusual flying machines ever flown, the lifting bodies. It is my story about my friends and colleagues who committed a significant part of their lives in the 1960s and 1970s to prove that the concept was a viable one for use in spacecraft of the future. This story, filled with drama and adventure, is about the twelve-year period from 1963 to 1975 in which eight different lifting-body configurations flew. It is appropriate for me to write the story, since I was the engineer who first presented the idea of flight-testing the concept to others at the NASA Flight Research Center. Over those twelve years, I experienced the story as it unfolded day by day at that remote NASA facility northeast of los Angeles in the bleak Mojave Desert. Benefits from this effort immediately influenced the design and operational concepts of the winged NASA Shuttle Orbiter. However, the full benefits would not be realized until the 1990s when new spacecraft such as the X-33 and X-38 would fully employ the lifting-body concept. A lifting body is basically a wingless vehicle that flies due to the lift generated by the shape of its fuselage. Although both a lifting reentry vehicle and a ballistic capsule had been considered as options during the early stages of NASA's space program, NASA initially opted to go with the capsule. A number of individuals were not content to close the book on the lifting-body concept. Researchers including Alfred Eggers at the NASA Ames Research Center conducted early wind-tunnel experiments, finding that half of a rounded nose-cone shape that was flat on top and rounded on the bottom could generate a lift-to-drag ratio of about 1.5 to 1. Eggers' preliminary design sketch later resembled the basic M2 lifting-body design. At the NASA Langley Research Center, other researchers toyed with their own lifting-body shapes. Meanwhile, some of us aircraft-oriented researchers at the, NASA Flight Research Center at Edwards Air Force Base (AFB) in California were experiencing our own fascination with the lifting-body concept. A model-aircraft builder and private pilot on my own time, I found the lifting-body idea intriguing. I built a model based on Eggers' design, tested it repeatedly, made modifications in its control and balance characteristics along the way, then eventually presented the concept to others at the Center, using a film of its flights that my wife, Donna and I had made with our 8-mm home camera.

Reed, R. Dale↗

The Solar Connections Observatory for Planetary Environments

The NASA Sun-Earth Connection theme roadmap calls for comparative study of how the planets, comets, and local interstellar medium (LISM) interact with the Sun and respond to solar variability. Through such a study we advance our understanding of basic physical plasma and gas dynamic processes, thus increasing our predictive capabilities for the terrestrial, planetary, and interplanetary environments where future remote and human exploration will occur. Because the other planets have lacked study initiatives comparable to the terrestrial ITM, LWS, and EOS programs, our understanding of the upper atmospheres and near space environments on these worlds is far less detailed than our knowledge of the Earth. To close this gap we propose a mission to study {\it all) of the solar interacting bodies in our planetary system out to the heliopause with a single remote sensing space observatory, the Solar Connections Observatory for Planetary Environments (SCOPE). SCOPE consists of a binocular EUV/FUV telescope operating from a remote, driftaway orbit that provides sub-arcsecond imaging and broadband medium resolution spectro-imaging over the 55-290 nm bandpass, and high (R>10$^{5}$ resolution H Ly-$\alpha$ emission line profile measurements of small scale planetary and wide field diffuse solar system structures. A key to the SCOPE approach is to include Earth as a primary science target. From its remote vantage point SCOPE will be able to observe auroral emission to and beyond the rotational pole. The other planets and comets will be monitored in long duration campaigns centered when possible on solar opposition when interleaved terrestrial-planet observations can be used to directly compare the response of both worlds to the same solar wind stream and UV radiation field. Using a combination of observations and MHD models, SCOPE will isolate the different controlling parameters in each planet system and gain insight into the underlying physical processes that define the solar connection.

Oliversen, Ronald J.↗

Structure of the C-terminal guanine nucleotide exchange factor module of Trio in an autoinhibited conformation reveals its oncogenic potential

The C-terminal guanine nucleotide exchange factor (GEF) module of Trio (TrioC) transfers signals from the Gα q/11 subfamily of heterotrimeric G proteins to the small guanosine triphosphatase (GTPase) RhoA, enabling Gα q/11 -coupled G protein–coupled receptors (GPCRs) to control downstream events, such as cell motility and gene transcription. This conserved signal transduction axis is crucial for tumor growth in uveal melanoma. Prior studies indicate that the GEF activity of the TrioC module is autoinhibited, with release of autoinhibition upon Gα q/11 binding. Here, we determined the crystal structure of TrioC in its basal state and found that the pleckstrin homology (PH) domain interacts with the Dbl homology (DH) domain in a manner that occludes the Rho GTPase binding site, thereby suggesting the molecular basis of TrioC autoinhibition. Biochemical and biophysical assays revealed that disruption of the autoinhibited conformation destabilized and activated the TrioC module in vitro. Last, mutations in the DH-PH interface found in patients with cancer activated TrioC and, in the context of full-length Trio, led to increased abundance of guanosine triphosphate–bound RhoA (RhoA·GTP) in human cells. These mutations increase mitogenic signaling through the RhoA axis and, therefore, may represent cancer drivers operating in a Gα q/11 -independent manner.

59 BASIC BIOLOGICAL SCIENCES↗

Protein Scaffold Activates Catalytic CO 2 Hydrogenation by a Rhodium Bis(diphosphine) Complex

The utilization of CO 2 to generate chemical fuels, such as formic acid, is a potentially beneficial route to balance carbon emissions and reduce dependence on fossil fuels. The development of efficient catalysts for CO 2 hydrogenation is needed to implement this fuel generation. In the molecular catalyst design presented here, we utilize covalent attachment of a rhodium complex, ([Rh(PN gly P) 2 ] + where PN Gly P is defined as P Et 2 -CH 2 -N( CH 2 CO 2 - )-CH 2 -P Et 2 ) to a protein scaffold, lactococcal multidrug resistant regulator from Lactococcus lactis, to create an environment around the metal center that can be used to control substrate delivery and therefore enable and improve catalytic activity. The reactivity of the rhodium complex and the synthetic metalloenzyme were characterized by high pressure operando NMR techniques. The rhodium complex in solution is not a catalyst for CO 2 hydrogenation. The incorporation of the molecular complex into the protein scaffold results in a gain of function, turning on CO 2 hydrogenation activity. The metalloenzyme displays a turnover frequency of 0.38 h -1 at 58 atm and 298 K; and achieved an average turnover number of 14 3. Proposed catalytic intermediates generated and characterized indicate the protein scaffold enables catalysis by facilitating the interaction between CO 2 and the hydride donor intermediate. Research was funded by the Laboratory Directed Research and Development program at Pacific Northwest National Laboratory. The Pacific Northwest National Laboratory is operated by Battelle for the US Department of Energy. This structural work is supported as part of the Biological and Electron Transfer and Catalysis (BETCy) EFRC, an Energy Frontier Research Center funded by the U.S. Department of Energy, Office of Science (DE-SC0012518) to J.W.P. and O.A.Z. No competing financial interests have been declared.This work was performed in part using the William R. Wiley Environmental Molecular Sciences Laboratory, a U.S. Department of Energy (DOE) national scientific user facility sponsored by the DOE’s Office of Biological and Environmental Research and located and the Pacific Northwest National Laboratory (PNNL). Use of the Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, is supported by the U.S. Department of Energy, Office of Science, Office of Basic Energy Sciences under Contract No. DE-AC02-76SF00515. The SSRL Structural Molecular Biology Program is supported by the DOE Office of Biological and Environmental Research, and by the National Institutes of Health, National Institute of General Medical Sciences (including P41GM103393).

structural biology, protein crystallography, bioin↗

Portable Electron-Beam Free-Form Fabrication System

A portable electron-beam free-form fabrication (EB F3) system, now undergoing development, is intended to afford a capability for manufacturing metal parts in nearly net sizes and shapes. Although the development effort is oriented toward the eventual use of systems like this one to supply spare metal parts aboard spacecraft in flight, the basic system design could also be adapted to terrestrial applications in which there are requirements to supply spare parts on demand at locations remote from warehouses and conventional manufacturing facilities. Prior systems that have been considered for satisfying the same requirements (including prior free-form fabrication systems) are not easily portable because of their bulk and massive size. The mechanical properties of the components that such systems produce are often inferior to the mechanical properties of the corresponding original, conventionally fabricated components. In addition, the prior systems are not efficient in the utilization of energy and of feedstock. In contrast, the present developmental system is designed to be sufficiently compact and lightweight to be easily portable, to utilize both energy and material more efficiently, and to produce components that have mechanical properties approximating those of the corresponding original components. The developmental EB F3 system will include a vacuum chamber and associated vacuum pumps, an electron-beam gun and an associated power supply, a multiaxis positioning subsystem, a precise wire feeder, and an instrumentation system for monitoring and control. The electron-beam gun, positioning subsystem, and wire feeder will be located inside the vacuum chamber (see figure). The electron beam gun and the wire feeder will be mounted in fixed positions inside the domed upper portion of the vacuum chamber. The positioning subsystem and ports for the vacuum pumps will be located on a base that could be dropped down to provide full access to the interior of the chamber when not under vacuum. During operation, wire will be fed to a fixed location, entering the melted pool created by the electron beam. Heated by the electron beam, the wire will melt and fuse to either the substrate or with the previously deposited metal wire fused on top of the positioning table. Based on a computer aided design (CAD) model and controlled by a computer, the positioning subsystem

Watson, J. Kevin↗

In Situ Observations and Sampling of Volcanic Emissions with Unmanned Aircraft: A NASA/UCR Case Study at Turrialba Volcano, Costa Rica

Burgeoning new technology in the design and development of robotic aircraft-unmanned aerial vehicles (UAVs)-presents unprecedented opportunities for the volcanology community to observe, measure, and sample eruption plumes and drifting volcanic clouds in situ. While manned aircraft can sample dilute parts of such emissions, demonstrated hazards to air breathing, and most particularly turbine, engines preclude penetration of the zones of highest ash concentrations. Such areas within plumes are often of highest interest with respect to boundary conditions of applicable mass-loading retrieval models, as well as Lagrangian, Eulerian, and hybrid transport models used by hazard responders to predict plume trajectories, particularly in the context of airborne hazards. Before the 2010 Ejyafyallajokull eruption in Iceland, ICAO zero-ash-tolerance rules were typically followed, particularly for relatively uncrowded Pacific Rim airspace, and over North and South America, where often diversion of aircraft around ash plumes and clouds was practical. The 2010 eruption in Iceland radically changed the paradigm, in that critical airspace over continental Europe and the United Kingdom were summarily shut by local civil aviation authorities and EURO CONTROL. A strong desire emerged for better real-time knowledge of ash cloud characteristics, particularly ash concentrations, and especially for validation of orbital multispectral imaging. UAV platforms appear to provide a viable adjunct, if not a primary source, of such in situ data for volcanic plumes and drifting volcanic clouds from explosive eruptions, with prompt and comprehensive application to aviation safety and to the basic science of volcanology. Current work is underway in Costa Rica at Turrialba volcano by the authors, with the goal of developing and testing new small, economical UAV platforms, with miniaturized instrument payloads, within a volcanic plume. We are underway with bi-monthly deployments of tethered SO2-sondes and are in the planning stages for the deployment of the SIERRA UAV to our site in March 2013. We will be conducting in situ observations simultaneously with ASTER orbital multispectral TIR data acquisitions, in order to compare in situ measurements with estimates of SO2 mass loading and dispersion derived from ASTER data. Though small UAVs are now being considered for use in active volcanic areas for in situ sampling of emissions (e.g., efforts by our group, and by our colleagues at the INGV in Italy and the Applied Science University in Dusseldorf, Germany, and others in the United Kingdom and Iceland), and also for remote sensing, much more needs to be done in the way of instrument development, and in developing small UAVs for both low altitude (tropospheric) and high altitude (stratospheric) applications. In particular, the development of all weather and day/night operational flight capabilities in close proximity to hazardous topography is crucial to a truly responsive volcano in situ measurement system. Finally, it is imperative that national civil aviation authorities recognize the unique benefits of such platforms. It is important that authorities understand that severely restricting or not deploying such tools in airspace over restless volcanoes or within eruption plumes, ostensibly because of the perceived (small) risk that such unmanned aircraft pose to manned air operations, itself poses a bigger transcendental risk to proximal populations and particularly to the aviation community, itself.

Volcanic Ash Advisory Centers (VAACs)↗

Thermally Actuated Hydraulic Pumps

Thermally actuated hydraulic pumps have been proposed for diverse applications in which direct electrical or mechanical actuation is undesirable and the relative slowness of thermal actuation can be tolerated. The proposed pumps would not contain any sliding (wearing) parts in their compressors and, hence, could have long operational lifetimes. The basic principle of a pump according to the proposal is to utilize the thermal expansion and contraction of a wax or other phase-change material in contact with a hydraulic fluid in a rigid chamber. Heating the chamber and its contents from below to above the melting temperature of the phase-change material would cause the material to expand significantly, thus causing a substantial increase in hydraulic pressure and/or a substantial displacement of hydraulic fluid out of the chamber. Similarly, cooling the chamber and its contents from above to below the melting temperature of the phase-change material would cause the material to contract significantly, thus causing a substantial decrease in hydraulic pressure and/or a substantial displacement of hydraulic fluid into the chamber. The displacement of the hydraulic fluid could be used to drive a piston. The figure illustrates a simple example of a hydraulic jack driven by a thermally actuated hydraulic pump. The pump chamber would be a cylinder containing encapsulated wax pellets and containing radial fins to facilitate transfer of heat to and from the wax. The plastic encapsulation would serve as an oil/wax barrier and the remaining interior space could be filled with hydraulic oil. A filter would retain the encapsulated wax particles in the pump chamber while allowing the hydraulic oil to flow into and out of the chamber. In one important class of potential applications, thermally actuated hydraulic pumps, exploiting vertical ocean temperature gradients for heating and cooling as needed, would be used to vary hydraulic pressures to control buoyancy in undersea research vessels. Heretofore, electrically actuated hydraulic pumps have been used for this purpose. By eliminating the demand for electrical energy for pumping, the use of the thermally actuated hydraulic pumps could prolong the intervals between battery charges, thus making it possible to greatly increase the durations of undersea exploratory missions.

Jones, Jack↗