Elementary Mode Analysis: A Useful Metabolic Pathway Analysis Tool for Characterizing Cellular Metabolism

PubMed Central

Trinh, Cong T.; Wlaschin, Aaron; Srienc, Friedrich

2010-01-01

Elementary Mode Analysis is a useful Metabolic Pathway Analysis tool to identify the structure of a metabolic network that links the cellular phenotype to the corresponding genotype. The analysis can decompose the intricate metabolic network comprised of highly interconnected reactions into uniquely organized pathways. These pathways consisting of a minimal set of enzymes that can support steady state operation of cellular metabolism represent independent cellular physiological states. Such pathway definition provides a rigorous basis to systematically characterize cellular phenotypes, metabolic network regulation, robustness, and fragility that facilitate understanding of cell physiology and implementation of metabolic engineering strategies. This mini-review aims to overview the development and application of elementary mode analysis as a metabolic pathway analysis tool in studying cell physiology and as a basis of metabolic engineering. PMID:19015845

Typical meteorological conditions associated with extreme nitrogen dioxide (NO2) pollution events over Scandinavia

NASA Astrophysics Data System (ADS)

Thomas, Manu Anna; Devasthale, Abhay

2017-10-01

Characterizing typical meteorological conditions associated with extreme pollution events helps to better understand the role of local meteorology in governing the transport and distribution of pollutants in the atmosphere. The knowledge of their co-variability could further help to evaluate and constrain chemistry transport models. Hence, in this study, we investigate the statistical linkages between extreme nitrogen dioxide (NO2) pollution events and meteorology over Scandinavia using observational and reanalysis data. It is observed that the south-westerly winds dominated during extreme events, accounting for 50-65 % of the total events depending on the season, while the second largest annual occurrence was from south-easterly winds, accounting for 17 % of total events. The specific humidity anomalies showed an influx of warmer and moisture-laden air masses over Scandinavia in the free troposphere. Two distinct modes in the persistency of circulation patterns are observed. The first mode lasts for 1-2 days, dominated by south-easterly winds that prevailed during 78 % of total extreme events in that mode, while the second mode lasted for 3-5 days, dominated by south-westerly winds that prevailed during 86 % of the events. The combined analysis of circulation patterns, their persistency, and associated changes in humidity and clouds suggests that NO2 extreme events over Scandinavia occur mainly due to long-range transport from the southern latitudes.

Quasi-normal modes of extremal BTZ black holes in TMG

NASA Astrophysics Data System (ADS)

Afshar, Hamid R.; Alishahiha, Mohsen; Mosaffa, Amir E.

2010-08-01

We study the spectrum of tensor perturbations on extremal BTZ black holes in topologically massive gravity for arbitrary values of the coefficient of the Chern-Simons term, μ. Imposing proper boundary conditions at the boundary of the space and at the horizon, we find that the spectrum contains quasi-normal modes.

Life in hot acid: Pathway analyses in extremely thermoacidophilic archaea

PubMed Central

Auernik, Kathryne S.; Cooper, Charlotte R.; Kelly, Robert M.

2013-01-01

SUMMARY The extremely thermoacidophilic archaea are a particularly intriguing group of microorganisms that must simultaneously cope with biologically extreme pHs (≤ 4) and temperatures (Topt ≥ 60°C) in their natural environments. Their expandi ng biotechnological significance relates to their role in biomining of base and precious metals and their unique mechanisms of survival in hot acid, at both the cellular and biomolecular levels. Recent developments, such as advances in understanding of heavy metal tolerance mechanisms, implementation of a genetic system, and discovery of a new carbon fixation pathway, have been facilitated by availability of genome sequence data and molecular genetic systems. As a result, new insights into the metabolic pathways and physiological features that define extreme thermoacidophily have been obtained, in some cases suggesting prospects for biotechnological opportunities. PMID:18760359

Synoptic moisture pathways associated with mean and extreme precipitation over Canada for winter and spring

NASA Astrophysics Data System (ADS)

Tan, X.; Gan, T. Y. Y.; Chen, Y. D.

2017-12-01

Dominant synoptic moisture pathway patterns of vertically integrated water vapor transport (IVT) in winter and spring over Canada West and East were identified using the self-organizing map method. Large-scale meteorological patterns (LSMPs) were related to the variability in seasonal precipitation totals and occurrences of precipitation extremes. Changes in both occurrences of LSMPs and seasonal precipitation occurred under those LSMPs were evaluated to attribute observed changes in seasonal precipitation totals and occurrences of precipitation extremes. Effects of large-scale climate anomalies on occurrences of LSMPs were also examined. Results show that synoptic moisture pathways and LSMPs exhibit the propagation of jet streams as the location and direction of ridges and troughs, and the strength and center of pressure lows and highs varied considerably between LSMPs. Significant decreases in occurrences of synoptic moisture pathway patterns that are favorable with positive precipitation anomalies and more precipitation extremes in winter over Canada West resulted in decreases in seasonal precipitation and occurrences of precipitation extremes. LSMPs resulting in a hot and dry climate and less (more) frequent precipitation extremes over the Canadian Prairies in winter and northwestern Canada in spring are more likely to occur in years with a negative phase of PNA. Occurrences of LSMPs for a wet climate and frequent occurrences of extreme precipitation events over southeastern Canada are associated with a positive phase of NAO. In El Niño years or negative PDO years, LSMPs associated with a dry climate and less frequent precipitation extremes over western Canada tend to occur.

The Influence of Recurrent Modes of Climate Variability on the Occurrence of Monthly Temperature Extremes Over South America

NASA Astrophysics Data System (ADS)

Loikith, Paul C.; Detzer, Judah; Mechoso, Carlos R.; Lee, Huikyo; Barkhordarian, Armineh

2017-10-01

The associations between extreme temperature months and four prominent modes of recurrent climate variability are examined over South America. Associations are computed as the percent of extreme temperature months concurrent with the upper and lower quartiles of the El Niño-Southern Oscillation (ENSO), the Atlantic Niño, the Pacific Decadal Oscillation (PDO), and the Southern Annular Mode (SAM) index distributions, stratified by season. The relationship is strongest for ENSO, with nearly every extreme temperature month concurrent with the upper or lower quartiles of its distribution in portions of northwestern South America during some seasons. The likelihood of extreme warm temperatures is enhanced over parts of northern South America when the Atlantic Niño index is in the upper quartile, while cold extremes are often association with the lowest quartile. Concurrent precipitation anomalies may contribute to these relations. The PDO shows weak associations during December, January, and February, while in June, July, and August its relationship with extreme warm temperatures closely matches that of ENSO. This may be due to the positive relationship between the PDO and ENSO, rather than the PDO acting as an independent physical mechanism. Over Patagonia, the SAM is highly influential during spring and fall, with warm and cold extremes being associated with positive and negative phases of the SAM, respectively. Composites of sea level pressure anomalies for extreme temperature months over Patagonia suggest an important role of local synoptic scale weather variability in addition to a favorable SAM for the occurrence of these extremes.

Gravitational Waves From the Kerr/CFT Correspondence

NASA Astrophysics Data System (ADS)

Porfyriadis, Achilleas

Astronomical observation suggests the existence of near-extreme Kerr black holes in the sky. Properties of diffeomorphisms imply that dynamics of the near-horizon region of near-extreme Kerr are governed by an infinite-dimensional conformal symmetry. This symmetry may be exploited to analytically, rather than numerically, compute a variety of potentially observable processes. In this thesis we compute the gravitational radiation emitted by a small compact object that orbits in the near-horizon region and plunges into the horizon of a large rapidly rotating black hole. We study the holographically dual processes in the context of the Kerr/CFT correspondence and find our conformal field theory (CFT) computations in perfect agreement with the gravity results. We compute the radiation emitted by a particle on the innermost stable circular orbit (ISCO) of a rapidly spinning black hole. We confirm previous estimates of the overall scaling of the power radiated, but show that there are also small oscillations all the way to extremality. Furthermore, we reveal an intricate mode-by-mode structure in the flux to infinity, with only certain modes having the dominant scaling. The scaling of each mode is controlled by its conformal weight. Massive objects in adiabatic quasi-circular inspiral towards a near-extreme Kerr black hole quickly plunge into the horizon after passing the ISCO. The post-ISCO plunge trajectory is shown to be related by a conformal map to a circular orbit. Conformal symmetry of the near-horizon region is then used to compute analytically the gravitational radiation produced during the plunge phase. Most extreme-mass-ratio-inspirals of small compact objects into supermassive black holes end with a fast plunge from an eccentric last stable orbit. We use conformal transformations to analytically solve for the radiation emitted from various fast plunges into extreme and near-extreme Kerr black holes.

The energy production of juvenile Arenicola marina (Polychaeta) under anoxic and hypoxic conditions

NASA Astrophysics Data System (ADS)

Schiedek, Doris; Schöttler, Udo

1990-06-01

The mode of anaerobic energy production of juvenile Arenicola marina (0-generation) was investigated under experimental conditions and in the biotope. Under experimental anaerobic conditions, juvenile A. marina produce energy by the pathways known from the adults and other euryoxic invertebrates with succinate and the volatile fatty acids, acetate and propionate, as main end products. However, the juvenile lugworms are less resistent to anoxia than the adults. The reasons for this might be their small glycogen stores and their limited ability to reduce the metabolic rate. Nevertheless, on the tidal flats the juveniles settle particularly in the area next to the high tide line, which offers such extreme conditions that adult lugworms cannot live there. This different behaviour can be explained by the dissimilar ability to use oxygen at very low partial pressures. Juveniles maintain an aerobic energy metabolism even at a PWO 2 of 15 Torr at which adults are forced to produce energy exclusively by the less effective anaerobic mode. In the field, no indications of an anaerobic energy metabolism were detected in juveniles even after an exposure of 8 hours.

Passive Anti-Icing and Active Deicing Films.

PubMed

Wang, Tuo; Zheng, Yonghao; Raji, Abdul-Rahman O; Li, Yilun; Sikkema, William K A; Tour, James M

2016-06-08

Anti-icing and deicing are the two major pathways for suppressing adhesion of ice on surfaces, yet materials with dual capabilities are rare. In this work, we have designed a perfluorododecylated graphene nanoribbon (FDO-GNR) film that takes advantage of both the low polarizability of perfluorinated carbons and the intrinsic conductive nature of graphene nanoribbons. The FDO-GNR films are superhydrophobic with a sheet resistance below 8 kΩ·sq(-1) and then exhibit an anti-icing property that prevents freezing of incoming ice-cold water down to -14 °C. After that point, voltage can be applied to the films to resistively heat and deice the surface. Further a lubricating liquid can be employed to create a slippery surface to improve the film's deicing performance. The FDO-GNR films can be easily switched between the superhydrophobic anti-icing mode and the slippery deicing mode by applying the lubricant. A spray-coating method makes it suitable for large-scale applications. The anti-icing and deicing properties render the FDO-GNR films with promise for use in extreme environments.

Combinatorial complexity of pathway analysis in metabolic networks.

PubMed

Klamt, Steffen; Stelling, Jörg

2002-01-01

Elementary flux mode analysis is a promising approach for a pathway-oriented perspective of metabolic networks. However, in larger networks it is hampered by the combinatorial explosion of possible routes. In this work we give some estimations on the combinatorial complexity including theoretical upper bounds for the number of elementary flux modes in a network of a given size. In a case study, we computed the elementary modes in the central metabolism of Escherichia coli while utilizing four different substrates. Interestingly, although the number of modes occurring in this complex network can exceed half a million, it is still far below the upper bound. Hence, to a certain extent, pathway analysis of central catabolism is feasible to assess network properties such as flexibility and functionality.

An adaptation to life in acid through a novel mevalonate pathway

DOE PAGES

Vinokur, Jeffrey M.; Cummins, Matthew C.; Korman, Tyler P.; ...

2016-12-22

Here, extreme acidophiles are capable of growth at pH values near zero. Sustaining life in acidic environments requires extensive adaptations of membranes, proton pumps, and DNA repair mechanisms. Here we describe an adaptation of a core biochemical pathway, the mevalonate pathway, in extreme acidophiles. Two previously known mevalonate pathways involve ATP dependent decarboxylation of either mevalonate 5-phosphate or mevalonate 5-pyrophosphate, in which a single enzyme carries out two essential steps: (1) phosphorylation of the mevalonate moiety at the 3-OH position and (2) subsequent decarboxylation. We now demonstrate that in extreme acidophiles, decarboxylation is carried out by two separate steps: previouslymore » identified enzymes generate mevalonate 3,5-bisphosphate and a new decarboxylase we describe here, mevalonate 3,5-bisphosphate decarboxylase, produces isopentenyl phosphate. Why use two enzymes in acidophiles when one enzyme provides both functionalities in all other organisms examined to date? We find that at low pH, the dual function enzyme, mevalonate 5-phosphate decarboxylase is unable to carry out the first phosphorylation step, yet retains its ability to perform decarboxylation. We therefore propose that extreme acidophiles had to replace the dual-purpose enzyme with two specialized enzymes to efficiently produce isoprenoids in extremely acidic environments.« less

An adaptation to life in acid through a novel mevalonate pathway

DOE Office of Scientific and Technical Information (OSTI.GOV)

Vinokur, Jeffrey M.; Cummins, Matthew C.; Korman, Tyler P.

Here, extreme acidophiles are capable of growth at pH values near zero. Sustaining life in acidic environments requires extensive adaptations of membranes, proton pumps, and DNA repair mechanisms. Here we describe an adaptation of a core biochemical pathway, the mevalonate pathway, in extreme acidophiles. Two previously known mevalonate pathways involve ATP dependent decarboxylation of either mevalonate 5-phosphate or mevalonate 5-pyrophosphate, in which a single enzyme carries out two essential steps: (1) phosphorylation of the mevalonate moiety at the 3-OH position and (2) subsequent decarboxylation. We now demonstrate that in extreme acidophiles, decarboxylation is carried out by two separate steps: previouslymore » identified enzymes generate mevalonate 3,5-bisphosphate and a new decarboxylase we describe here, mevalonate 3,5-bisphosphate decarboxylase, produces isopentenyl phosphate. Why use two enzymes in acidophiles when one enzyme provides both functionalities in all other organisms examined to date? We find that at low pH, the dual function enzyme, mevalonate 5-phosphate decarboxylase is unable to carry out the first phosphorylation step, yet retains its ability to perform decarboxylation. We therefore propose that extreme acidophiles had to replace the dual-purpose enzyme with two specialized enzymes to efficiently produce isoprenoids in extremely acidic environments.« less

Changes in Extreme Events and the Potential Impacts on National Security

NASA Astrophysics Data System (ADS)

Bell, J.

2017-12-01

Extreme weather and climate events affect human health by causing death, injury, and illness, as well as having large socio-economic impacts. Climate change has caused changes in extreme event frequency, intensity and geographic distribution, and will continue to be a driver for changes in the future. Some of the extreme events that have already changed are heat waves, droughts, wildfires, flooding rains, coastal flooding, storm surge, and hurricanes. The pathways connecting extreme events to health outcomes and economic losses can be diverse and complex. The difficulty in predicting these relationships comes from the local intricacies of societal and environmental factors that influences the level of exposure. The goal of this presentation is to discuss the national security implications of changes in extreme weather events and demonstrate how changes in extremes can lead to a host cascading issues. To illustrate this point, this presentation will provide examples of the various pathways that extreme events can increase disease burden and cause economic stress.

Parallelization of Nullspace Algorithm for the computation of metabolic pathways

PubMed Central

Jevremović, Dimitrije; Trinh, Cong T.; Srienc, Friedrich; Sosa, Carlos P.; Boley, Daniel

2011-01-01

Elementary mode analysis is a useful metabolic pathway analysis tool in understanding and analyzing cellular metabolism, since elementary modes can represent metabolic pathways with unique and minimal sets of enzyme-catalyzed reactions of a metabolic network under steady state conditions. However, computation of the elementary modes of a genome- scale metabolic network with 100–1000 reactions is very expensive and sometimes not feasible with the commonly used serial Nullspace Algorithm. In this work, we develop a distributed memory parallelization of the Nullspace Algorithm to handle efficiently the computation of the elementary modes of a large metabolic network. We give an implementation in C++ language with the support of MPI library functions for the parallel communication. Our proposed algorithm is accompanied with an analysis of the complexity and identification of major bottlenecks during computation of all possible pathways of a large metabolic network. The algorithm includes methods to achieve load balancing among the compute-nodes and specific communication patterns to reduce the communication overhead and improve efficiency. PMID:22058581

Increased frequency of extreme Indian Ocean Dipole events due to greenhouse warming.

PubMed

Cai, Wenju; Santoso, Agus; Wang, Guojian; Weller, Evan; Wu, Lixin; Ashok, Karumuri; Masumoto, Yukio; Yamagata, Toshio

2014-06-12

The Indian Ocean dipole is a prominent mode of coupled ocean-atmosphere variability, affecting the lives of millions of people in Indian Ocean rim countries. In its positive phase, sea surface temperatures are lower than normal off the Sumatra-Java coast, but higher in the western tropical Indian Ocean. During the extreme positive-IOD (pIOD) events of 1961, 1994 and 1997, the eastern cooling strengthened and extended westward along the equatorial Indian Ocean through strong reversal of both the mean westerly winds and the associated eastward-flowing upper ocean currents. This created anomalously dry conditions from the eastern to the central Indian Ocean along the Equator and atmospheric convergence farther west, leading to catastrophic floods in eastern tropical African countries but devastating droughts in eastern Indian Ocean rim countries. Despite these serious consequences, the response of pIOD events to greenhouse warming is unknown. Here, using an ensemble of climate models forced by a scenario of high greenhouse gas emissions (Representative Concentration Pathway 8.5), we project that the frequency of extreme pIOD events will increase by almost a factor of three, from one event every 17.3 years over the twentieth century to one event every 6.3 years over the twenty-first century. We find that a mean state change--with weakening of both equatorial westerly winds and eastward oceanic currents in association with a faster warming in the western than the eastern equatorial Indian Ocean--facilitates more frequent occurrences of wind and oceanic current reversal. This leads to more frequent extreme pIOD events, suggesting an increasing frequency of extreme climate and weather events in regions affected by the pIOD.

Investigation of monolithic passively mode-locked quantum dot lasers with extremely low repetition frequency.

PubMed

Xu, Tianhong; Cao, Juncheng; Montrosset, Ivo

2015-01-01

The dynamical regimes and performance optimization of quantum dot monolithic passively mode-locked lasers with extremely low repetition rate are investigated using the numerical method. A modified multisection delayed differential equation model is proposed to accomplish simulations of both two-section and three-section passively mode-locked lasers with long cavity. According to the numerical simulations, it is shown that fundamental and harmonic mode-locking regimes can be multistable over a wide current range. These dynamic regimes are studied, and the reasons for their existence are explained. In addition, we demonstrate that fundamental pulses with higher peak power can be achieved when the laser is designed to work in a region with smaller differential gain.

Architectures for Device Aware Network

DTIC Science & Technology

2005-03-01

68 b. PDA in DAN Mode ............................................................. 69 c. Cell Phone in DAN Mode...68 Figure 15. PDA in DAN Mode - Reduced Resolution Image ..................................... 69 Figure 16. Cell Phone in DAN Mode -No Image...computer, notebook computer, cell phone and a host of networked embedded systems) may have extremely differing capabilities and resources to retrieve and

Arctic sea ice, Eurasia snow, and extreme winter haze in China.

PubMed

Zou, Yufei; Wang, Yuhang; Zhang, Yuzhong; Koo, Ja-Ho

2017-03-01

The East China Plains (ECP) region experienced the worst haze pollution on record for January in 2013. We show that the unprecedented haze event is due to the extremely poor ventilation conditions, which had not been seen in the preceding three decades. Statistical analysis suggests that the extremely poor ventilation conditions are linked to Arctic sea ice loss in the preceding autumn and extensive boreal snowfall in the earlier winter. We identify the regional circulation mode that leads to extremely poor ventilation over the ECP region. Climate model simulations indicate that boreal cryospheric forcing enhances the regional circulation mode of poor ventilation in the ECP region and provides conducive conditions for extreme haze such as that of 2013. Consequently, extreme haze events in winter will likely occur at a higher frequency in China as a result of the changing boreal cryosphere, posing difficult challenges for winter haze mitigation but providing a strong incentive for greenhouse gas emission reduction.

Arctic sea ice, Eurasia snow, and extreme winter haze in China

PubMed Central

Zou, Yufei; Wang, Yuhang; Zhang, Yuzhong; Koo, Ja-Ho

2017-01-01

The East China Plains (ECP) region experienced the worst haze pollution on record for January in 2013. We show that the unprecedented haze event is due to the extremely poor ventilation conditions, which had not been seen in the preceding three decades. Statistical analysis suggests that the extremely poor ventilation conditions are linked to Arctic sea ice loss in the preceding autumn and extensive boreal snowfall in the earlier winter. We identify the regional circulation mode that leads to extremely poor ventilation over the ECP region. Climate model simulations indicate that boreal cryospheric forcing enhances the regional circulation mode of poor ventilation in the ECP region and provides conducive conditions for extreme haze such as that of 2013. Consequently, extreme haze events in winter will likely occur at a higher frequency in China as a result of the changing boreal cryosphere, posing difficult challenges for winter haze mitigation but providing a strong incentive for greenhouse gas emission reduction. PMID:28345056

Dynamic Transmission of Protein Allostery without Structural Change: Spatial Pathways or Global Modes?

PubMed Central

McLeish, Tom C.B.; Cann, Martin J.; Rodgers, Thomas L.

2015-01-01

We examine the contrast between mechanisms for allosteric signaling that involve structural change, and those that do not, from the perspective of allosteric pathways. In particular we treat in detail the case of fluctuation-allostery by which amplitude modulation of the thermal fluctuations of the elastic normal modes conveys the allosteric signal, and address the question of what an allosteric pathway means in this case. We find that a perturbation theory of thermal elastic solids and nonperturbative approach (by super-coarse-graining elasticity into internal bending modes) have opposite signatures in their structure of correlated pathways. We illustrate the effect from analysis of previous results from GlxR of Corynebacterium glutamicum, an example of the CRP/FNR transcription family of allosteric homodimers. We find that the visibility of both correlated pathways and disconnected sites of correlated motion in this protein suggests that mechanisms of local elastic stretch and bend are recruited for the purpose of creating and controlling allosteric cooperativity. PMID:26338443

Min and Max Exponential Extreme Interval Values and Statistics

ERIC Educational Resources Information Center

Jance, Marsha; Thomopoulos, Nick

2009-01-01

The extreme interval values and statistics (expected value, median, mode, standard deviation, and coefficient of variation) for the smallest (min) and largest (max) values of exponentially distributed variables with parameter ? = 1 are examined for different observation (sample) sizes. An extreme interval value g[subscript a] is defined as a…

Linear mode stability of the Kerr-Newman black hole and its quasinormal modes.

PubMed

Dias, Óscar J C; Godazgar, Mahdi; Santos, Jorge E

2015-04-17

We provide strong evidence that, up to 99.999% of extremality, Kerr-Newman black holes (KNBHs) are linear mode stable within Einstein-Maxwell theory. We derive and solve, numerically, a coupled system of two partial differential equations for two gauge invariant fields that describe the most general linear perturbations of a KNBH. We determine the quasinormal mode (QNM) spectrum of the KNBH as a function of its three parameters and find no unstable modes. In addition, we find that the lowest radial overtone QNMs that are connected continuously to the gravitational ℓ=m=2 Schwarzschild QNM dominate the spectrum for all values of the parameter space (m is the azimuthal number of the wave function and ℓ measures the number of nodes along the polar direction). Furthermore, the (lowest radial overtone) QNMs with ℓ=m approach Reω=mΩH(ext) and Imω=0 at extremality; this is a universal property for any field of arbitrary spin |s|≤2 propagating on a KNBH background (ω is the wave frequency and ΩH(ext) the black hole angular velocity at extremality). We compare our results with available perturbative results in the small charge or small rotation regimes and find good agreement.

Roy's Adaptation Model-Guided Education and Promoting the Adaptation of Veterans With Lower Extremities Amputation.

PubMed

Azarmi, Somayeh; Farsi, Zahra

2015-10-01

Any defect in extremities of the body can affect different life aspects. The purpose of this study was to investigate the effect of Roy's adaptation model-guided education on promoting the adaptation of veterans with lower extremities amputation. In a randomized clinical trial, 60 veterans with lower extremities amputation referring to Kowsar Orthotics and Prosthetics Center of veterans clinic in Tehran, Iran, were recruited with convenience method and were randomly assigned to intervention and control groups during 2013 - 2014. For data collection, Roy's adaptation model questionnaire was used. After completing the questionnaires in both groups, maladaptive behaviors were determined in the intervention group and an education program based on Roy's adaptation model was implemented. After two months, both groups completed the questionnaires again. Data was analyzed with SPSS software. Independent t-test showed statistically significant differences between the two groups in the post-test stage in terms of the total score of adaptation (P = 0.001) as well as physiologic (P = 0.0001) and role function modes (P = 0.004). The total score of adaptation (139.43 ± 5.45 to 127.54 ± 14.55, P = 0.006) as well as the scores of physiologic (60.26 ± 5.45 to 53.73 ± 7.79, P = 0.001) and role function (20.30 ± 2.42 to 18.13 ± 3.18, P = 0.01) modes in the intervention group significantly increased, whereas the scores of self-concept (42.10 ± 4.71 to 39.40 ± 5.67, P = 0.21) and interdependence (16.76 ± 2.22 to 16.30 ± 2.57, P = 0.44) modes in the two stages did not have a significant difference. Findings of this research indicated that the Roy's adaptation model-guided education promoted the adaptation level of physiologic and role function modes in veterans with lower extremities amputation. However, this intervention could not promote adaptation in self-concept and interdependence modes. More intervention is advised based on Roy's adaptation model for improving the adaptation of veterans with lower extremities.

Metastable states and energy flow pathway in square graphene resonators

NASA Astrophysics Data System (ADS)

Wang, Yisen; Zhu, Zhigang; Zhang, Yong; Huang, Liang

2018-01-01

Nonlinear interaction between flexural modes is critical to heat conductivity and mechanical vibration of two-dimensional materials such as graphene. Much effort has been devoted to understand the underlying mechanism. In this paper, we examine solely the out-of-plane flexural modes and identify their energy flow pathway during thermalization process. The key is the development of a universal scheme that numerically characterizes the strength of nonlinear interactions between normal modes. In particular, for our square graphene system, the modes are grouped into four classes by their distinct symmetries. The couplings are significantly larger within a class than between classes. As a result, the equations for the normal modes in the same class as the initially excited one can be approximated by driven harmonic oscillators, therefore, they get energy almost instantaneously. Because of the hierarchical organization of the mode coupling, the energy distribution among the modes will arrive at a stable profile, where most of the energy is localized on a few modes, leading to the formation of "natural package" and metastable states. The dynamics for modes in other symmetry classes follows a Mathieu type of equation, thus, interclass energy flow, when the initial excitation energy is small, starts typically when there is a mode that lies in the unstable region in the parameter space of Mathieu equation. Due to strong coupling of the modes inside the class, the whole class will get energy and be lifted up by the unstable mode. This characterizes the energy flow pathway of the system. These results bring fundamental understandings to the Fermi-Pasta-Ulam problem in two-dimensional systems with complex potentials, and reveal clearly the physical picture of dynamical interactions between the flexural modes, which will be crucial to the understanding of their abnormal contribution to heat conduction and nonlinear mechanical vibrations.

Transcriptome analysis in tardigrade species reveals specific molecular pathways for stress adaptations.

PubMed

Förster, Frank; Beisser, Daniela; Grohme, Markus A; Liang, Chunguang; Mali, Brahim; Siegl, Alexander Matthias; Engelmann, Julia C; Shkumatov, Alexander V; Schokraie, Elham; Müller, Tobias; Schnölzer, Martina; Schill, Ralph O; Frohme, Marcus; Dandekar, Thomas

2012-01-01

Tardigrades have unique stress-adaptations that allow them to survive extremes of cold, heat, radiation and vacuum. To study this, encoded protein clusters and pathways from an ongoing transcriptome study on the tardigrade Milnesium tardigradum were analyzed using bioinformatics tools and compared to expressed sequence tags (ESTs) from Hypsibius dujardini, revealing major pathways involved in resistance against extreme environmental conditions. ESTs are available on the Tardigrade Workbench along with software and databank updates. Our analysis reveals that RNA stability motifs for M. tardigradum are different from typical motifs known from higher animals. M. tardigradum and H. dujardini protein clusters and conserved domains imply metabolic storage pathways for glycogen, glycolipids and specific secondary metabolism as well as stress response pathways (including heat shock proteins, bmh2, and specific repair pathways). Redox-, DNA-, stress- and protein protection pathways complement specific repair capabilities to achieve the strong robustness of M. tardigradum. These pathways are partly conserved in other animals and their manipulation could boost stress adaptation even in human cells. However, the unique combination of resistance and repair pathways make tardigrades and M. tardigradum in particular so highly stress resistant.

Clinical and pathophysiological evidence supporting the safety of extremely low LDL levels-The zero-LDL hypothesis.

PubMed

Masana, Luis; Girona, Josefa; Ibarretxe, Daiana; Rodríguez-Calvo, Ricardo; Rosales, Roser; Vallvé, Joan-Carles; Rodríguez-Borjabad, Cèlia; Guardiola, Montserrat; Rodríguez, Marina; Guaita-Esteruelas, Sandra; Oliva, Iris; Martínez-Micaelo, Neus; Heras, Mercedes; Ferré, Raimon; Ribalta, Josep; Plana, Núria

While the impact of very low concentrations of low-density lipoprotein cholesterol (LDL-C) on cardiovascular prevention is very reassuring, it is intriguing to know what effect these extremely low LDL-C concentrations have on lipid homoeostasis. The evidence supporting the safety of extremely low LDL levels comes from genetic studies and clinical drug trials. Individuals with lifelong low LDL levels due to mutations in genes associated with increased LDL-LDL receptor (LDLR) activity reveal no safety issues. Patients achieving extremely low LDL levels in the IMPROVE-IT and FOURIER, and the PROFICIO and ODYSSEY programs seem not to have an increased prevalence of adverse effects. The main concern regarding extremely low LDL-C plasma concentrations is the adequacy of the supply of cholesterol, and other molecules, to peripheral tissues. However, LDL proteomic and kinetic studies reaffirm that LDL is the final product of endogenous lipoprotein metabolism. Four of 5 LDL particles are cleared through the LDL-LDLR pathway in the liver. Given that mammalian cells have no enzymatic systems to degrade cholesterol, the LDL-LDLR pathway is the main mechanism for removal of cholesterol from the body. Our focus, therefore, is to review, from a physiological perspective, why such extremely low LDL-C concentrations do not appear to be detrimental. We suggest that extremely low LDL-C levels due to increased LDLR activity may be a surrogate of adequate LDL-LDLR pathway function. Copyright © 2018 National Lipid Association. Published by Elsevier Inc. All rights reserved.

Inferring Spatio-temporal Variations in the Risk of Extreme Precipitation in the Western United States from Tree-ring Chronologies

NASA Astrophysics Data System (ADS)

Steinschneider, S.; Ho, M.; Cook, E. R.; Lall, U.

2017-12-01

This work explores how extreme cold-season precipitation dynamics along the west coast of the United States have varied in the past under natural climate variability through an analysis of the moisture anomalies recorded by tree-ring chronologies across the coast and interior of the western U.S. Winters with high total precipitation amounts in the coastal regions are marked by a small number of extreme storms that exhibit distinct spatial patterns of precipitation across the coast and further inland. Building from this observation, this work develops a novel application of dendroclimatic evidence to explore the following questions: a) how is extreme precipitation variability expressed in a network of tree-ring chronologies; b) can this information provide insight on the space-time variability of storm tracks that cause these extreme events; and c) how can the joint variability of extreme precipitation and storm tracks be modeled to develop consistent, multi-centennial reconstructions of both? We use gridded, tree-ring based reconstructions of the summer Palmer Drought Severity Index (PDSI) extending back 500 years within the western U.S. to build and test a novel statistical framework for reconstructing the space-time variability of coastal extreme precipitation and the associated wintertime storm tracks. Within this framework, we (1) identify joint modes of variability of extreme precipitation fields and tree-ring based PDSI reconstructions; (2) relate these modes to previously identified, unique storm track patterns associated with atmospheric rivers (ARs), which are the dominant type of storm that is responsible for extreme precipitation in the region; and (3) determine latitudinal variations of landfalling ARs across the west coast and their relationship to the these joint modes. To our knowledge, this work is the first attempt to leverage information on storm track patterns stored in a network of paleoclimate proxies to improve reconstruction fidelity.

Inferring Spatio-temporal Variations in the Risk of Extreme Precipitation in the Western United States from Tree-ring Chronologies

NASA Astrophysics Data System (ADS)

Steinschneider, S.; Ho, M.; Cook, E. R.; Lall, U.

2016-12-01

This work explores how extreme cold-season precipitation dynamics along the west coast of the United States have varied in the past under natural climate variability through an analysis of the moisture anomalies recorded by tree-ring chronologies across the coast and interior of the western U.S. Winters with high total precipitation amounts in the coastal regions are marked by a small number of extreme storms that exhibit distinct spatial patterns of precipitation across the coast and further inland. Building from this observation, this work develops a novel application of dendroclimatic evidence to explore the following questions: a) how is extreme precipitation variability expressed in a network of tree-ring chronologies; b) can this information provide insight on the space-time variability of storm tracks that cause these extreme events; and c) how can the joint variability of extreme precipitation and storm tracks be modeled to develop consistent, multi-centennial reconstructions of both? We use gridded, tree-ring based reconstructions of the summer Palmer Drought Severity Index (PDSI) extending back 500 years within the western U.S. to build and test a novel statistical framework for reconstructing the space-time variability of coastal extreme precipitation and the associated wintertime storm tracks. Within this framework, we (1) identify joint modes of variability of extreme precipitation fields and tree-ring based PDSI reconstructions; (2) relate these modes to previously identified, unique storm track patterns associated with atmospheric rivers (ARs), which are the dominant type of storm that is responsible for extreme precipitation in the region; and (3) determine latitudinal variations of landfalling ARs across the west coast and their relationship to the these joint modes. To our knowledge, this work is the first attempt to leverage information on storm track patterns stored in a network of paleoclimate proxies to improve reconstruction fidelity.

Fundamental Escherichia coli biochemical pathways for biomass and energy production: creation of overall flux states.

PubMed

Carlson, Ross; Srienc, Friedrich

2004-04-20

We have previously shown that the metabolism for most efficient cell growth can be realized by a combination of two types of elementary modes. One mode produces biomass while the second mode generates only energy. The identity of the four most efficient biomass and energy pathway pairs changes, depending on the degree of oxygen limitation. The identification of such pathway pairs for different growth conditions offers a pathway-based explanation of maintenance energy generation. For a given growth rate, experimental aerobic glucose consumption rates can be used to estimate the contribution of each pathway type to the overall metabolic flux pattern. All metabolic fluxes are then completely determined by the stoichiometries of involved pathways defining all nutrient consumption and metabolite secretion rates. We present here equations that permit computation of network fluxes on the basis of unique pathways for the case of optimal, glucose-limited Escherichia coli growth under varying levels of oxygen stress. Predicted glucose and oxygen uptake rates and some metabolite secretion rates are in remarkable agreement with experimental observations supporting the validity of the presented approach. The entire most efficient, steady-state, metabolic rate structure is explicitly defined by the developed equations without need for additional computer simulations. The approach should be generally useful for analyzing and interpreting genomic data by predicting concise, pathway-based metabolic rate structures. Copyright 2004 Wiley Periodicals, Inc.

25-Gbit/s burst-mode optical receiver using high-speed avalanche photodiode for 100-Gbit/s optical packet switching.

PubMed

Nada, Masahiro; Nakamura, Makoto; Matsuzaki, Hideaki

2014-01-13

25-Gbit/s error-free operation of an optical receiver is successfully demonstrated against burst-mode optical input signals without preambles. The receiver, with a high-sensitivity avalanche photodiode and burst-mode transimpedance amplifier, exhibits sufficient receiver sensitivity and an extremely quick response suitable for burst-mode operation in 100-Gbit/s optical packet switching.

The role of the subtropical North Atlantic water cycle in recent US extreme precipitation events

NASA Astrophysics Data System (ADS)

Li, Laifang; Schmitt, Raymond W.; Ummenhofer, Caroline C.

2018-02-01

The role of the oceanic water cycle in the record-breaking 2015 warm-season precipitation in the US is analyzed. The extreme precipitation started in the Southern US in the spring and propagated northward to the Midwest and the Great Lakes in the summer of 2015. This seasonal evolution of precipitation anomalies represents a typical mode of variability of US warm-season precipitation. Analysis of the atmospheric moisture flux suggests that such a rainfall mode is associated with moisture export from the subtropical North Atlantic. In the spring, excessive precipitation in the Southern US is attributable to increased moisture flux from the northwestern portion of the subtropical North Atlantic. The North Atlantic moisture flux interacts with local soil moisture which enables the US Midwest to draw more moisture from the Gulf of Mexico in the summer. Further analysis shows that the relationship between the rainfall mode and the North Atlantic water cycle has become more significant in recent decades, indicating an increased likelihood of extremes like the 2015 case. Indeed, two record-high warm-season precipitation events, the 1993 and 2008 cases, both occurred in the more recent decades of the 66 year analysis period. The export of water from the North Atlantic leaves a marked surface salinity signature. The salinity signature appeared in the spring preceding all three extreme precipitation events analyzed in this study, i.e. a saltier-than-normal subtropical North Atlantic in spring followed by extreme Midwest precipitation in summer. Compared to the various sea surface temperature anomaly patterns among the 1993, 2008, and 2015 cases, the spatial distribution of salinity anomalies was much more consistent during these extreme flood years. Thus, our study suggests that preseason salinity patterns can be used for improved seasonal prediction of extreme precipitation in the Midwest.

Inflationary dynamics for matrix eigenvalue problems

PubMed Central

Heller, Eric J.; Kaplan, Lev; Pollmann, Frank

2008-01-01

Many fields of science and engineering require finding eigenvalues and eigenvectors of large matrices. The solutions can represent oscillatory modes of a bridge, a violin, the disposition of electrons around an atom or molecule, the acoustic modes of a concert hall, or hundreds of other physical quantities. Often only the few eigenpairs with the lowest or highest frequency (extremal solutions) are needed. Methods that have been developed over the past 60 years to solve such problems include the Lanczos algorithm, Jacobi–Davidson techniques, and the conjugate gradient method. Here, we present a way to solve the extremal eigenvalue/eigenvector problem, turning it into a nonlinear classical mechanical system with a modified Lagrangian constraint. The constraint induces exponential inflationary growth of the desired extremal solutions. PMID:18511564

Intermediate-mass black holes from Population III remnants in the first galactic nuclei

NASA Astrophysics Data System (ADS)

Ryu, Taeho; Tanaka, Takamitsu L.; Perna, Rosalba; Haiman, Zoltán

2016-08-01

We report the formation of intermediate-mass black holes (IMBHs) in suites of numerical N-body simulations of Population III remnant black holes (BHs) embedded in gas-rich protogalaxies at redshifts z ≳ 10. We model the effects of gas drag on the BHs' orbits, and allow BHs to grow via gas accretion, including a mode of hyper-Eddington accretion in which photon trapping and rapid gas inflow suppress any negative radiative feedback. Most initial BH configurations lead to the formation of one (but never more than one) IMBH in the centre of the protogalaxy, reaching a mass of 103-5 M⊙ through hyper-Eddington growth. Our results suggest a viable pathway to forming the earliest massive BHs in the centres of early galaxies. We also find that the nuclear IMBH typically captures a stellar-mass BH companion, making these systems observable in gravitational waves as extreme mass-ratio inspirals with eLISA.

Hydraulic and geochemical framework of the Idaho National Engineering and Environmental Laboratory vadose zone

USGS Publications Warehouse

Nimmo, John R.; Rousseau, Joseph P.; Perkins, Kim S.; Stollenwerk, Kenneth G.; Glynn, Pierre D.; Bartholomay, Roy C.; Knobel, LeRoy L.

2004-01-01

Questions of major importance for subsurface contaminant transport at the Idaho National Engineering and Environmental Laboratory (INEEL) include (i) travel times to the aquifer, both average or typical values and the range of values to be expected, and (ii) modes of contaminant transport, especially sorption processes. The hydraulic and geochemical framework within which these questions are addressed is dominated by extreme heterogeneity in a vadose zone and aquifer consisting of interbedded basalts and sediments. Hydraulically, major issues include diverse possible types of flow pathways, extreme anisotropy, preferential flow, combined vertical and horizontal flow, and temporary saturation or perching. Geochemically, major issues include contaminant mobility as influenced by redox conditions, the concentration of organic and inorganic complexing solutes and other local variables, the interaction with infiltrating waters and with the contaminant source environment, and the aqueous speciation of contaminants such as actinides. Another major issue is the possibility of colloid transport, which inverts some of the traditional concepts of mobility, as sorbed contaminants on mobile colloids may be transported with ease compared with contaminants that are not sorbed. With respect to the goal of minimizing aquifer concentrations of contaminants, some characteristics of the vadose zone are essentially completely favorable. Examples include the great thickness (200 m) of the vadose zone, and the presence of substantial quantities of fine sediments that can retard contaminant transport both hydraulically and chemically. Most characteristics, however, have both favorable and unfavorable aspects. For example, preferential flow, as promoted by several notable features of the vadose zone at the INEEL, can provide fast, minimally sorbing pathways for contaminants to reach the aquifer easily, but it also leads to a wide dispersal of contaminants in a large volume of subsurface material, thus increasing the opportunity for dilution and sorption.

Optimal sensitivity for molecular recognition MAC-mode AFM

PubMed

Schindler; Badt; Hinterdorfer; Kienberger; Raab; Wielert-Badt; Pastushenko

2000-02-01

Molecular recognition force microscopy (MRFM) using the magnetic AC mode (MAC mode) atomic force microscope (AFM) was recently investigated to locate and probe recognition sites. A flexible crosslinker carrying a ligand is bound to the tip for the molecular recognition of receptors on the surface of a sample. In this report, the driving frequency is calculated which optimizes the sensitivity (S). The sensitivity of MRFM is defined as the relative change of the magnetically excited cantilever deflection amplitude arising from a crosslinker/antibody/antigen connection that is characterized by a very small force constant. The sensitivity is calculated in a damped oscillator model with a certain value of quality factor Q, which, together with load, defines the frequency response (unloaded oscillator shows resonance at Q > 0.707). If Q < 1, the greatest value of S corresponds to zero driving frequency omega (measured in units of eigenfrequency). Therefore, for Q < 1, MAC-mode has no advantage in comparison with DC-mode. Two additional extremes are found at omegaL = (1 - 1/Q)(1/2) and omegaR = (1 + 1/Q)(1/2), with corresponding sensitivities S(L) = Q2/(2Q - 1), S(R) = Q2/(2Q + 1). The L-extreme exists only for Q > 1, and then S(L) > S(R), i.e. the L-extreme is the main one. For Q > 1, S(L) > 1, and for Q > 2.41, S(R) > 1. These are the critical Q-values, above which selecting driving frequency equal to sigmaL or sigmaR brings advantage to MAC mode vs. DC mode. Satisfactory quality of the oscillator model is demonstrated by comparison of some results with those calculated within the classical description of cantilevers.

Coupling of Fast and Slow Modes in the Reaction Pathway of the Minimal Hammerhead Ribozyme Cleavage

PubMed Central

Radhakrishnan, Ravi

2007-01-01

By employing classical molecular dynamics, correlation analysis of coupling between slow and fast dynamical modes, and free energy (umbrella) sampling using classical as well as mixed quantum mechanics molecular mechanics force fields, we uncover a possible pathway for phosphoryl transfer in the self-cleaving reaction of the minimal hammerhead ribozyme. The significance of this pathway is that it initiates from the minimal hammerhead crystal structure and describes the reaction landscape as a conformational rearrangement followed by a covalent transformation. The delineated mechanism is catalyzed by two metal (Mg2+) ions, proceeds via an in-line-attack by CYT 17 O2′ on the scissile phosphorous (ADE 1.1 P), and is therefore consistent with the experimentally observed inversion configuration. According to the delineated mechanism, the coupling between slow modes involving the hammerhead backbone with fast modes in the cleavage site appears to be crucial for setting up the in-line nucleophilic attack. PMID:17545240

Transcriptome Analysis in Tardigrade Species Reveals Specific Molecular Pathways for Stress Adaptations

PubMed Central

Förster, Frank; Beisser, Daniela; Grohme, Markus A.; Liang, Chunguang; Mali, Brahim; Siegl, Alexander Matthias; Engelmann, Julia C.; Shkumatov, Alexander V.; Schokraie, Elham; Müller, Tobias; Schnölzer, Martina; Schill, Ralph O.; Frohme, Marcus; Dandekar, Thomas

2012-01-01

Tardigrades have unique stress-adaptations that allow them to survive extremes of cold, heat, radiation and vacuum. To study this, encoded protein clusters and pathways from an ongoing transcriptome study on the tardigrade Milnesium tardigradum were analyzed using bioinformatics tools and compared to expressed sequence tags (ESTs) from Hypsibius dujardini, revealing major pathways involved in resistance against extreme environmental conditions. ESTs are available on the Tardigrade Workbench along with software and databank updates. Our analysis reveals that RNA stability motifs for M. tardigradum are different from typical motifs known from higher animals. M. tardigradum and H. dujardini protein clusters and conserved domains imply metabolic storage pathways for glycogen, glycolipids and specific secondary metabolism as well as stress response pathways (including heat shock proteins, bmh2, and specific repair pathways). Redox-, DNA-, stress- and protein protection pathways complement specific repair capabilities to achieve the strong robustness of M. tardigradum. These pathways are partly conserved in other animals and their manipulation could boost stress adaptation even in human cells. However, the unique combination of resistance and repair pathways make tardigrades and M. tardigradum in particular so highly stress resistant. PMID:22563243

How vulnerable is Texas’ freight infrastructure to extreme weather events? Final report.

DOT National Transportation Integrated Search

2017-03-01

The Texas Freight Mobility Plan forecasts significant increases in freight volumes across all transportation modes over the next three decades. An increased frequency of extreme weather events such as prolonged droughts and flash flooding is also exp...

Evaluating sub-seasonal skill in probabilistic forecasts of Atmospheric Rivers and associated extreme events

NASA Astrophysics Data System (ADS)

Subramanian, A. C.; Lavers, D.; Matsueda, M.; Shukla, S.; Cayan, D. R.; Ralph, M.

2017-12-01

Atmospheric rivers (ARs) - elongated plumes of intense moisture transport - are a primary source of hydrological extremes, water resources and impactful weather along the West Coast of North America and Europe. There is strong demand in the water management, societal infrastructure and humanitarian sectors for reliable sub-seasonal forecasts, particularly of extreme events, such as floods and droughts so that actions to mitigate disastrous impacts can be taken with sufficient lead-time. Many recent studies have shown that ARs in the Pacific and the Atlantic are modulated by large-scale modes of climate variability. Leveraging the improved understanding of how these large-scale climate modes modulate the ARs in these two basins, we use the state-of-the-art multi-model forecast systems such as the North American Multi-Model Ensemble (NMME) and the Subseasonal-to-Seasonal (S2S) database to help inform and assess the probabilistic prediction of ARs and related extreme weather events over the North American and European West Coasts. We will present results from evaluating probabilistic forecasts of extreme precipitation and AR activity at the sub-seasonal scale. In particular, results from the comparison of two winters (2015-16 and 2016-17) will be shown, winters which defied canonical El Niño teleconnection patterns over North America and Europe. We further extend this study to analyze probabilistic forecast skill of AR events in these two basins and the variability in forecast skill during certain regimes of large-scale climate modes.

Soliton formation from a noise-like pulse during extreme events in a fibre ring laser

NASA Astrophysics Data System (ADS)

Pottiez, O.; Ibarra-Villalon, H. E.; Bracamontes-Rodriguez, Y.; Minguela-Gallardo, J. A.; Garcia-Sanchez, E.; Lauterio-Cruz, J. P.; Hernandez-Garcia, J. C.; Bello-Jimenez, M.; Kuzin, E. A.

2017-10-01

We study experimentally the interactions between soliton and noise-like pulse (NLP) components in a mode-locked fibre ring laser operating in a hybrid soliton-NLP regime. For proper polarization adjustments, one NLP and multiple packets of solitons coexist in the cavity, at 1530 nm and 1558 nm, respectively. By examining time-domain sequences measured using a 16 GHz real-time oscilloscope, we unveil the process of soliton genesis: they are produced during extreme-intensity episodes affecting the NLP. These extreme events can emerge sporadically, appear in small groups or even form quasi-periodic sequences. Once formed, the wavelength-shifted soliton packet drifts away from the NLP in the dispersive cavity, and eventually vanishes after a variable lifetime. Evidence of the inverse process, through which NLP formation is occasionally seeded by an extreme-intensity event affecting a bunch of solitons, is also provided. The quasi-stationary dynamics described here constitutes an impressive illustration of the connections and interactions between NLPs, extreme events and solitons in passively mode-locked fibre lasers.

Programed asynchronous serial data interrogation in a two-computer system

NASA Technical Reports Server (NTRS)

Schneberger, N. A.

1975-01-01

Technique permits redundant computers, with one unit in control mode and one in MONITOR mode, to interrogate the same serial data source. Its use for program-controlled serial data transfer results in extremely simple hardware and software mechanization.

Application of Adverse Outcome Pathways to U.S. EPA’s Endocrine Disruptor Screening Program

PubMed Central

Noyes, Pamela D.; Casey, Warren M.; Dix, David J.

2017-01-01

Background: The U.S. EPA’s Endocrine Disruptor Screening Program (EDSP) screens and tests environmental chemicals for potential effects in estrogen, androgen, and thyroid hormone pathways, and it is one of the only regulatory programs designed around chemical mode of action. Objectives: This review describes the EDSP’s use of adverse outcome pathway (AOP) and toxicity pathway frameworks to organize and integrate diverse biological data for evaluating the endocrine activity of chemicals. Using these frameworks helps to establish biologically plausible links between endocrine mechanisms and apical responses when those end points are not measured in the same assay. Results: Pathway frameworks can facilitate a weight of evidence determination of a chemical’s potential endocrine activity, identify data gaps, aid study design, direct assay development, and guide testing strategies. Pathway frameworks also can be used to evaluate the performance of computational approaches as alternatives for low-throughput and animal-based assays and predict downstream key events. In cases where computational methods can be validated based on performance, they may be considered as alternatives to specific assays or end points. Conclusions: A variety of biological systems affect apical end points used in regulatory risk assessments, and without mechanistic data, an endocrine mode of action cannot be determined. Because the EDSP was designed to consider mode of action, toxicity pathway and AOP concepts are a natural fit. Pathway frameworks have diverse applications to endocrine screening and testing. An estrogen pathway example is presented, and similar approaches are being used to evaluate alternative methods and develop predictive models for androgen and thyroid pathways. https://doi.org/10.1289/EHP1304 PMID:28934726

Reconstruction of a metabolic regulatory network in Escherichia coli for purposeful switching from cell growth mode to production mode in direct GABA fermentation from glucose.

PubMed

Soma, Yuki; Fujiwara, Yuri; Nakagawa, Takuya; Tsuruno, Keigo; Hanai, Taizo

2017-09-01

γ-aminobutyric acid (GABA) is a drug and functional food additive and is used as a monomer for producing the biodegradable plastic, polyamide 4. Recently, direct GABA fermentation from glucose has been developed as an alternative to glutamate-based whole cell bioconversion. Although total productivity in fermentation is determined by the specific productivity and cell amount responsible for GABA production, the optimal metabolic state for GABA production conflicts with that for bacterial cell growth. Herein, we demonstrated metabolic state switching from the cell growth mode based on the metabolic pathways of the wild type strain to a GABA production mode based on a synthetic metabolic pathway in Escherichia coli through rewriting of the metabolic regulatory network and pathway engineering. The GABA production mode was achieved by multiple strategies such as conditional interruption of the TCA and glyoxylate cycles, engineering of GABA production pathway including a bypass for precursor metabolite supply, and upregulation of GABA transporter. As a result, we achieved 3-fold improvement in total GABA production titer and yield (4.8g/L, 49.2% (mol/mol glucose)) in batch fermentation compared to the case without metabolic state switching (1.6g/L, 16.4% (mol/mol glucose)). This study reports the highest GABA production performance among previous reports on GABA fermentation from glucose using engineered E. coli. Copyright © 2017 International Metabolic Engineering Society. Published by Elsevier Inc. All rights reserved.

Extreme ultraviolet diagnostic upgrades for kink mode control on the HBT-EP tokamak

NASA Astrophysics Data System (ADS)

Levesque, J. P.; Brooks, J. W.; Desanto, S.; Mauel, M. E.; Navratil, G. A.; Page, J. W.; Hansen, C. J.; Delgado-Aparicio, L.

2016-10-01

Optical diagnostics can provide non-invasive measurements of tokamak equilibria and the internal characteristics of MHD mode activity. We present research plans and ongoing progress on upgrading extreme ultraviolet (EUV) diagnostics in the HBT-EP tokamak. Four sets of 16 poloidal views will allow tomographic reconstruction of plasma emissivity and internal kink mode structure. Emission characteristics of naturally-occurring m/n = 2/1, 3/2, and 3/1 tearing and kink modes will be compared with expectations from a synthetic diagnostic. Coupling between internal and external modes leading up to disruptions is studied. The internal plasma response to external magnetic perturbations is investigated, and compared with magnetic response measurements. Correlation between internal emissivity and external magnetic measurements provides a global picture of long-wavelength MHD instabilities. Measurements are input to HBT-EP's GPU-based feedback system, allowing active feedback for kink modes using only optical sensors and both magnetic and edge current actuators. A separate two-color, 16-chord tangential system will be installed next year to allow reconstruction of temperature profiles and their fluctuations versus time. Supported by U.S. DOE Grant DE-FG02-86ER53222.

Mode Conversion of a Solar Extreme-ultraviolet Wave over a Coronal Cavity

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zong, Weiguo; Dai, Yu, E-mail: ydai@nju.edu.cn

2017-01-10

We report on observations of an extreme-ultraviolet (EUV) wave event in the Sun on 2011 January 13 by Solar Terrestrial Relations Observatory and Solar Dynamics Observatory in quadrature. Both the trailing edge and the leading edge of the EUV wave front in the north direction are reliably traced, revealing generally compatible propagation velocities in both perspectives and a velocity ratio of about 1/3. When the wave front encounters a coronal cavity near the northern polar coronal hole, the trailing edge of the front stops while its leading edge just shows a small gap and extends over the cavity, meanwhile gettingmore » significantly decelerated but intensified. We propose that the trailing edge and the leading edge of the northward propagating wave front correspond to a non-wave coronal mass ejection component and a fast-mode magnetohydrodynamic wave component, respectively. The interaction of the fast-mode wave and the coronal cavity may involve a mode conversion process, through which part of the fast-mode wave is converted to a slow-mode wave that is trapped along the magnetic field lines. This scenario can reasonably account for the unusual behavior of the wave front over the coronal cavity.« less

Quasinormal modes and strong cosmic censorship in near-extremal Kerr-Newman-de Sitter black-hole spacetimes

NASA Astrophysics Data System (ADS)

Hod, Shahar

2018-05-01

The quasinormal resonant modes of massless neutral fields in near-extremal Kerr-Newman-de Sitter black-hole spacetimes are calculated in the eikonal regime. It is explicitly proved that, in the angular momentum regime a bar >√{1 - 2 Λ bar/4 + Λ bar / 3 }, the black-hole spacetimes are characterized by slowly decaying resonant modes which are described by the compact formula ℑ ω (n) =κ+ ṡ (n + 1/2 ) [here the physical parameters { a bar ,κ+ , Λ bar , n } are respectively the dimensionless angular momentum of the black hole, its characteristic surface gravity, the dimensionless cosmological constant of the spacetime, and the integer resonance parameter]. Our results support the validity of the Penrose strong cosmic censorship conjecture in these black-hole spacetimes.

A Framework for Final Drive Simultaneous Failure Diagnosis Based on Fuzzy Entropy and Sparse Bayesian Extreme Learning Machine

PubMed Central

Ye, Qing; Pan, Hao; Liu, Changhua

2015-01-01

This research proposes a novel framework of final drive simultaneous failure diagnosis containing feature extraction, training paired diagnostic models, generating decision threshold, and recognizing simultaneous failure modes. In feature extraction module, adopt wavelet package transform and fuzzy entropy to reduce noise interference and extract representative features of failure mode. Use single failure sample to construct probability classifiers based on paired sparse Bayesian extreme learning machine which is trained only by single failure modes and have high generalization and sparsity of sparse Bayesian learning approach. To generate optimal decision threshold which can convert probability output obtained from classifiers into final simultaneous failure modes, this research proposes using samples containing both single and simultaneous failure modes and Grid search method which is superior to traditional techniques in global optimization. Compared with other frequently used diagnostic approaches based on support vector machine and probability neural networks, experiment results based on F 1-measure value verify that the diagnostic accuracy and efficiency of the proposed framework which are crucial for simultaneous failure diagnosis are superior to the existing approach. PMID:25722717

34 CFR 396.4 - What definitions apply?

Code of Federal Regulations, 2013 CFR

2013-07-01

... primarily upon visual modes, such as sign language, lip reading, and gestures, or reading and writing to... impairments described in paragraphs (1)(i) and (ii) of this definition causes extreme difficulty in attaining... and visual disabilities that cause extreme difficulty in attaining independence in daily life...

34 CFR 396.4 - What definitions apply?

Code of Federal Regulations, 2011 CFR

2011-07-01

... primarily upon visual modes, such as sign language, lip reading, and gestures, or reading and writing to... impairments described in paragraphs (1)(i) and (ii) of this definition causes extreme difficulty in attaining... and visual disabilities that cause extreme difficulty in attaining independence in daily life...

34 CFR 396.4 - What definitions apply?

Code of Federal Regulations, 2014 CFR

2014-07-01

... primarily upon visual modes, such as sign language, lip reading, and gestures, or reading and writing to... impairments described in paragraphs (1)(i) and (ii) of this definition causes extreme difficulty in attaining... and visual disabilities that cause extreme difficulty in attaining independence in daily life...

Understanding consumer and clinician preferences and decision making for rehabilitation following arthroplasty in the private sector.

PubMed

Buhagiar, Mark A; Naylor, Justine M; Simpson, Grahame; Harris, Ian A; Kohler, Friedbert

2017-06-19

To understand private consumer and clinician preferences towards different rehabilitation modes following knee or hip arthroplasty, and identify factors which influence the chosen rehabilitation pathway. Mixed methods cross-sectional study involving 95 semi-structured interviews of consumers (patients and carers) and clinicians (arthroplasty surgeons, physiotherapists and rehabilitation physicians) in Sydney, Australia, during 2014-2015. Participants were asked about the acceptability of different modes of rehabilitation provision, and factors influencing their chosen rehabilitation pathway. Interviews were in person or via the telephone. Qualitative analysis software was used to electronically manage qualitative data. An analytical approach guided data analysis. Pre-operative preferences strongly influenced the type of rehabilitation chosen by consumers. Key factors that influenced this were both intrinsic and extrinsic, including; the previous experience of self or known others, the perceived benefits of the chosen mode, a sense of entitlement, the role of orthopaedic surgeons and influence of patient preference, a patient's clinical status post-surgery, the private hospital business model and insurance provider involvement. The acceptability of rehabilitation modes varied between clinician groups. No one rehabilitation mode provided following arthroplasty is singularly preferred by stakeholders. Factors other than the belief that a particular mode was more effective than another appear to dominate the pathway followed by private arthroplasty consumers, indicating evidence-based policies around rehabilitation provision may have limited appeal in the private sector.

Apoptosis-like death, an extreme SOS response in Escherichia coli.

PubMed

Erental, Ariel; Kalderon, Ziva; Saada, Ann; Smith, Yoav; Engelberg-Kulka, Hanna

2014-07-15

In bacteria, SOS is a global response to DNA damage, mediated by the recA-lexA genes, resulting in cell cycle arrest, DNA repair, and mutagenesis. Previously, we reported that Escherichia coli responds to DNA damage via another recA-lexA-mediated pathway resulting in programmed cell death (PCD). We called it apoptosis-like death (ALD) because it is characterized by membrane depolarization and DNA fragmentation, which are hallmarks of eukaryotic mitochondrial apoptosis. Here, we show that ALD is an extreme SOS response that occurs only under conditions of severe DNA damage. Furthermore, we found that ALD is characterized by additional hallmarks of eukaryotic mitochondrial apoptosis, including (i) rRNA degradation by the endoribonuclease YbeY, (ii) upregulation of a unique set of genes that we called extensive-damage-induced (Edin) genes, (iii) a decrease in the activities of complexes I and II of the electron transport chain, and (iv) the formation of high levels of OH˙ through the Fenton reaction, eventually resulting in cell death. Our genetic and molecular studies on ALD provide additional insight for the evolution of mitochondria and the apoptotic pathway in eukaryotes. Importance: The SOS response is the first described and the most studied bacterial response to DNA damage. It is mediated by a set of two genes, recA-lexA, and it results in DNA repair and thereby in the survival of the bacterial culture. We have shown that Escherichia coli responds to DNA damage by an additional recA-lexA-mediated pathway resulting in an apoptosis-like death (ALD). Apoptosis is a mode of cell death that has previously been reported only in eukaryotes. We found that E. coli ALD is characterized by several hallmarks of eukaryotic mitochondrial apoptosis. Altogether, our results revealed that recA-lexA is a DNA damage response coordinator that permits two opposite responses: life, mediated by the SOS, and death, mediated by the ALD. The choice seems to be a function of the degree of DNA damage in the cell. Copyright © 2014 Erental et al.

A combination mode of climate variability responsible for extremely poor recruitment of the Japanese eel (Anguilla japonica)

NASA Astrophysics Data System (ADS)

Lin, Yong-Fu; Wu, Chau-Ron; Han, Yu-San

2017-03-01

Satellite data and assimilation products are used to investigate fluctuations in the catch of Japanese eel (Anguilla japonica) in eastern Asian countries. It has been reported that the salinity front has extended farther south, which has shifted the eel’s spawning grounds to a lower latitude, resulting in smaller eel catches in 1983, 1992, and 1998. This study demonstrates that interannual variability in the eel catch is strongly correlated with the combination mode (C-mode), but not with the El Niño-Southern Oscillation. These eels continue to spawn within the North Equatorial Current (NEC), but the salinity front shifts south during a canonical El Niño. On the other hand, the spawning grounds accompanied by the salinity front extend farther south during the C-mode of climate variability, and eel larvae fail to join the nursery in the NEC, resulting in extremely poor recruitment in East Asia. We propose an appropriate sea surface temperature index to project Japanese eel larval catch.

Quasinormal Modes and Strong Cosmic Censorship.

PubMed

Cardoso, Vitor; Costa, João L; Destounis, Kyriakos; Hintz, Peter; Jansen, Aron

2018-01-19

The fate of Cauchy horizons, such as those found inside charged black holes, is intrinsically connected to the decay of small perturbations exterior to the event horizon. As such, the validity of the strong cosmic censorship (SCC) conjecture is tied to how effectively the exterior damps fluctuations. Here, we study massless scalar fields in the exterior of Reissner-Nordström-de Sitter black holes. Their decay rates are governed by quasinormal modes of the black hole. We identify three families of modes in these spacetimes: one directly linked to the photon sphere, well described by standard WKB-type tools; another family whose existence and time scale is closely related to the de Sitter horizon; finally, a third family which dominates for near-extremally charged black holes and which is also present in asymptotically flat spacetimes. The last two families of modes seem to have gone unnoticed in the literature. We give a detailed description of linear scalar perturbations of such black holes, and conjecture that SCC is violated in the near extremal regime.

Quasinormal Modes and Strong Cosmic Censorship

NASA Astrophysics Data System (ADS)

Cardoso, Vitor; Costa, João L.; Destounis, Kyriakos; Hintz, Peter; Jansen, Aron

2018-01-01

The fate of Cauchy horizons, such as those found inside charged black holes, is intrinsically connected to the decay of small perturbations exterior to the event horizon. As such, the validity of the strong cosmic censorship (SCC) conjecture is tied to how effectively the exterior damps fluctuations. Here, we study massless scalar fields in the exterior of Reissner-Nordström-de Sitter black holes. Their decay rates are governed by quasinormal modes of the black hole. We identify three families of modes in these spacetimes: one directly linked to the photon sphere, well described by standard WKB-type tools; another family whose existence and time scale is closely related to the de Sitter horizon; finally, a third family which dominates for near-extremally charged black holes and which is also present in asymptotically flat spacetimes. The last two families of modes seem to have gone unnoticed in the literature. We give a detailed description of linear scalar perturbations of such black holes, and conjecture that SCC is violated in the near extremal regime.

Chip Scale Ultra-Stable Clocks: Miniaturized Phonon Trap Timing Units for PNT of CubeSats

NASA Technical Reports Server (NTRS)

Rais-Zadeh, Mina; Altunc, Serhat; Hunter, Roger C.; Petro, Andrew

2016-01-01

The Chip Scale Ultra-Stable Clocks (CSUSC) project aims to provide a superior alternative to current solutions for low size, weight, and power timing devices. Currently available quartz-based clocks have problems adjusting to the high temperature and extreme acceleration found in space applications, especially when scaled down to match small spacecraft size, weight, and power requirements. The CSUSC project aims to utilize dual-mode resonators on an ovenized platform to achieve the exceptional temperature stability required for these systems. The dual-mode architecture utilizes a temperature sensitive and temperature stable mode simultaneously driven on the same device volume to eliminate ovenization error while maintaining extremely high performance. Using this technology it is possible to achieve parts-per-billion (ppb) levels of temperature stability with multiple orders of magnitude smaller size, weight, and power.

The Coincident Coherence of Extreme Doppler Velocity Events with p-mode Patches in the Solar Photosphere.

NASA Astrophysics Data System (ADS)

McClure, Rachel Lee

2018-06-01

Observations of the solar photosphere show many spatially compact Doppler velocity events with short life spans and extreme values. In the IMaX spectropolarimetric inversion data of the first flight of the SUNRISE balloon in 2009 these striking flashes in the intergranule lanes and complementary outstanding values in the centers of granules have line of sight Doppler velocity values in excess of 4 sigma from the mean. We conclude that values outside 4 sigma are a result from the superposition of the granulation flows and the p-modes.To determine how granulation and p-modes contribute to these outstanding Doppler events, I separate the two components using the Fast Fourier Transform. I produce the power spectrum of the spatial wave frequencies and their corresponding frequency in time for each image, and create a k-omega filter to separate the two components. Using the filtered data, test the hypothesis that extreme events occur because of strict superposition between the p-mode Doppler velocities and the granular velocities. I compare event counts from the observational data to those produced by random superposition of the two flow components and find that the observational event counts are consistent with the model event counts in the limit of small number statistics. Poisson count probabilities of event numbers observed are consistent with expected model count probability distributions.

Causing Factors for Extreme Precipitation in the Western Saudi-Arabian Peninsula

NASA Astrophysics Data System (ADS)

Alharbi, M. M.; Leckebusch, G. C.

2015-12-01

In the western coast of Saudi Arabia the climate is in general semi-arid but extreme precipitation events occur on a regular basis: e.g., on 26th November 2009, when 122 people were killed and 350 reported missing in Jeddah following more than 90mm in just four hours. Our investigation will a) analyse major drivers of the generation of extremes and b) investigate major responsible modes of variability for the occurrence of extremes. Firstly, we present a systematic analysis of station based observations of the most relevant extreme events (1985-2013) for 5 stations (Gizan, Makkah, Jeddah, Yenbo and Wejh). Secondly, we investigate the responsible mechanism on the synoptic to large-scale leading to the generation of extremes and will analyse factors for the time variability of extreme event occurrence. Extreme events for each station are identified in the wet season (Nov-Jan): 122 events show intensity above the respective 90th percentile. The most extreme events are systematically investigated with respect to the responsible forcing conditions which we can identify as: The influence of the Soudan Low, active Red-Sea-Trough situations established via interactions with mid-latitude tropospheric wave activity, low pressure systems over the Mediterranean, the influence of the North Africa High, the Arabian Anticyclone and the influence of the Indian monsoon trough. We investigate the role of dynamical forcing factors like the STJ and the upper-troposphere geopotential conditions and the relation to smaller local low-pressure systems. By means of an empirical orthogonal function (EOF) analysis based on MSLP we investigate the possibility to objectively quantify the influence of existing major variability modes and their role for the generation of extreme precipitation events.

Mode competition and hopping in optomechanical nano-oscillators

NASA Astrophysics Data System (ADS)

Zhang, Xingwang; Lin, Tong; Tian, Feng; Du, Han; Zou, Yongchao; Chau, Fook Siong; Zhou, Guangya

2018-04-01

We investigate the inter-mode nonlinear interaction in the multi-mode optomechanical nano-oscillator which consists of coupled silicon nanocantilevers, where the integrated photonic crystal nanocavities provide the coupling between the optical and mechanical modes. Due to the self-saturation and cross-saturation of the mechanical gain, the inter-mode competition is observed, which leads to the bistable operation of the optomechanical nano-oscillator: only one of the mechanical modes can oscillate at any one time, and the oscillation of one mode extremely suppresses that of the other with a side mode suppression ratio (SMSR) up to 40 dB. In the meantime, mode hopping, i.e., the optomechanical oscillation switches from one mode to the other, is also observed and found to be able to be provoked by excitation laser fluctuations.

Simultaneous excitation of extremely high-Q-factor trapped and octupolar modes in terahertz metamaterials.

PubMed

Yang, Shengyan; Tang, Chengchun; Liu, Zhe; Wang, Bo; Wang, Chun; Li, Junjie; Wang, Li; Gu, Changzhi

2017-07-10

Achieving high-Q-factor resonances allows dramatic enhancement of performance of many plasmonic devices. However, the excitation of high-Q-factor resonance, especially multiple high-Q-factor resonances, has been a big challenge in traditional metamaterials due to the ohmic and radiation losses. Here, we experimentally demonstrate simultaneous excitation of double extremely sharp resonances in a terahertz metamaterial composed of mirror-symmetric-broken double split ring resonators (MBDSRRs). In a regular mirror-arranged SRR array, only the low-Q-factor dipole resonance can be excited with the external electric field perpendicular to the SRR gap. Breaking the mirror-symmetry of the metamaterial leads to the occurrence of two distinct otherwise inaccessible ultrahigh-Q-factor modes, which consists of one trapped mode in addition to an octupolar mode. By tuning the asymmetry parameter, the Q factor of the trapped mode can be linearly modulated, while the Q factor of the octupolar mode can be tailored exponentially. For specific degree of asymmetry, our simulations revealed a significantly high Q factor (Q>100) for the octupolar mode, which is more than one order of magnitude larger than that of conventional metamaterials. The mirror-symmetry-broken metamaterial offers the advantage of enabling access to two distinct high-Q-factor resonances which could be exploited for ultrasensitive sensors, multiband filters, and slow light devices.

A systematic review of pathways to and processes associated with radicalization and extremism amongst Muslims in Western societies.

PubMed

McGilloway, Angela; Ghosh, Priyo; Bhui, Kamaldeep

2015-02-01

Following the terrorist attacks of 9/11 in the USA and 7/7 in the UK, academic interest in factors involved in radicalization and terrorism has increased dramatically. Many related social and psychological theories have been put forward, however terrorism literature still lacks empirical research. In particular, little is known about the early processes and pathways to radicalization. Our aim is to investigate original research on pathways and processes associated with radicalization and extremism amongst people of Muslim heritage living in Western societies, that is, the group prioritized by counter-terrorism policy. Studies included in the review were original qualitative or quantitative primary research published in peer-reviewed journals, identified by searching research databases. All disciplines of journals were included. No single cause or pathway was implicated in radicalization and violent extremism. Individuals may demonstrate vulnerabilities that increase exposure to radicalization; however, the only common characteristic determined that terrorists are generally well-integrated, 'normal' individuals. Engagement in such activity is dependent on a wide range of interacting variables influenced by personal, localized and externalized factors. Further research should examine broader determinants of radicalization in susceptible populations. Future policy should follow this public health approach rather than constructing from perpetrators already committed to engaging in terrorism.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ostensen, R. H.; Degroote, P.; Vos, J.

We introduce the first g-mode pulsator found to reside on the classical blue horizontal branch. One year of Kepler observations of KIC 1718290 reveals a rich spectrum of low-amplitude modes with periods between 1 and 12 hr, most of which follow a regular spacing of 276.3 s. This mode structure strongly resembles that of the V1093 Her pulsators, with only a slight shift toward longer periods. Our spectroscopy, however, reveals KIC 1718290 to be quite distinct from the sdB stars that show V1093 Her pulsations, which all have surface gravities higher than log g = 5.1 and helium abundances depletedmore » by at least an order of magnitude relative to the solar composition. We find that KIC 1718290 has T{sub eff} = 22,100 K, log g = 4.72, and a super-solar helium abundance (log N{sub He}/N{sub H} = -0.45). This places it well above the extreme horizontal branch, rather on the very blue end of the classical horizontal branch, where shell hydrogen burning is present. We conclude that KIC 1718290 must have suffered extreme mass loss during its first giant stage, but not sufficient to reach the extreme horizontal branch.« less

Global changes of extreme coastal wave energy fluxes triggered by intensified teleconnection patterns

NASA Astrophysics Data System (ADS)

Mentaschi, Lorenzo; Vousdoukas, Michalis I.; Voukouvalas, Evangelos; Dosio, Alessandro; Feyen, Luc

2017-03-01

In this study we conducted a comprehensive modeling analysis to identify global trends in extreme wave energy flux (WEF) along coastlines in the 21st century under a high emission pathway (Representative Concentration Pathways 8.5). For the end of the century, results show a significant increase up to 30% in 100 year return level WEF for the majority of the coastal areas of the southern temperate zone, while in the Northern Hemisphere large coastal areas are characterized by a significant negative trend. We show that the most significant long-term trends of extreme WEF can be explained by intensification of teleconnection patterns such as the Antarctic Oscillation, El Niño-Southern Oscillation, and North Atlantic Oscillation. The projected changes will have broad implications for ocean engineering applications and disaster risk management. Especially low-lying coastal countries in the Southern Hemisphere will be particularly vulnerable due to the combined effects of projected relative sea level rise and more extreme wave activities.

Extreme Events in China under Climate Change: Uncertainty and related impacts (CSSP-FOREX)

NASA Astrophysics Data System (ADS)

Leckebusch, Gregor C.; Befort, Daniel J.; Hodges, Kevin I.

2016-04-01

Suitable adaptation strategies or the timely initiation of related mitigation efforts in East Asia will strongly depend on robust and comprehensive information about future near-term as well as long-term potential changes in the climate system. Therefore, understanding the driving mechanisms associated with the East Asian climate is of major importance. The FOREX project (Fostering Regional Decision Making by the Assessment of Uncertainties of Future Regional Extremes and their Linkage to Global Climate System Variability for China and East Asia) focuses on the investigation of extreme wind and rainfall related events over Eastern Asia and their possible future changes. Here, analyses focus on the link between local extreme events and their driving weather systems. This includes the coupling between local rainfall extremes and tropical cyclones, the Meiyu frontal system, extra-tropical teleconnections and monsoonal activity. Furthermore, the relation between these driving weather systems and large-scale variability modes, e.g. NAO, PDO, ENSO is analysed. Thus, beside analysing future changes of local extreme events, the temporal variability of their driving weather systems and related large-scale variability modes will be assessed in current CMIP5 global model simulations to obtain more robust results. Beyond an overview of FOREX itself, first results regarding the link between local extremes and their steering weather systems based on observational and reanalysis data are shown. Special focus is laid on the contribution of monsoonal activity, tropical cyclones and the Meiyu frontal system on the inter-annual variability of the East Asian summer rainfall.

Independent evolution of baleen whale gigantism linked to Plio-Pleistocene ocean dynamics

PubMed Central

Goldbogen, Jeremy A.

2017-01-01

Vertebrates have evolved to gigantic sizes repeatedly over the past 250 Myr, reaching their extreme in today's baleen whales (Mysticeti). Hypotheses for the evolution of exceptionally large size in mysticetes range from niche partitioning to predator avoidance, but there has been no quantitative examination of body size evolutionary dynamics in this clade and it remains unclear when, why or how gigantism evolved. By fitting phylogenetic macroevolutionary models to a dataset consisting of living and extinct species, we show that mysticetes underwent a clade-wide shift in their mode of body size evolution during the Plio-Pleistocene. This transition, from Brownian motion-like dynamics to a trended random walk towards larger size, is temporally linked to the onset of seasonally intensified upwelling along coastal ecosystems. High prey densities resulting from wind-driven upwelling, rather than abundant resources alone, are the primary determinant of efficient foraging in extant mysticetes and Late Pliocene changes in ocean dynamics may have provided an ecological pathway to gigantism in multiple independent lineages. PMID:28539520

Independent evolution of baleen whale gigantism linked to Plio-Pleistocene ocean dynamics.

PubMed

Slater, Graham J; Goldbogen, Jeremy A; Pyenson, Nicholas D

2017-05-31

Vertebrates have evolved to gigantic sizes repeatedly over the past 250 Myr, reaching their extreme in today's baleen whales (Mysticeti). Hypotheses for the evolution of exceptionally large size in mysticetes range from niche partitioning to predator avoidance, but there has been no quantitative examination of body size evolutionary dynamics in this clade and it remains unclear when, why or how gigantism evolved. By fitting phylogenetic macroevolutionary models to a dataset consisting of living and extinct species, we show that mysticetes underwent a clade-wide shift in their mode of body size evolution during the Plio-Pleistocene. This transition, from Brownian motion-like dynamics to a trended random walk towards larger size, is temporally linked to the onset of seasonally intensified upwelling along coastal ecosystems. High prey densities resulting from wind-driven upwelling, rather than abundant resources alone, are the primary determinant of efficient foraging in extant mysticetes and Late Pliocene changes in ocean dynamics may have provided an ecological pathway to gigantism in multiple independent lineages. © 2017 The Author(s).

Probe design

NASA Technical Reports Server (NTRS)

Cowan, W.

1974-01-01

Outer planetary probe designs consider mission characteristics, structural configuration, delivery mode, scientific payload, environmental extremes, mass properties, and the launch vehicle and spacecraft interface.

Origin and dynamics of depositionary subduction margins

USGS Publications Warehouse

Vannucchi, Paola; Morgan, Jason P.; Silver, Eli; Kluesner, Jared W.

2016-01-01

Here we propose a new framework for forearc evolution that focuses on the potential feedbacks between subduction tectonics, sedimentation, and geomorphology that take place during an extreme event of subduction erosion. These feedbacks can lead to the creation of a “depositionary forearc,” a forearc structure that extends the traditional division of forearcs into accretionary or erosive subduction margins by demonstrating a mode of rapid basin accretion during an erosive event at a subduction margin. A depositionary mode of forearc evolution occurs when terrigenous sediments are deposited directly on the forearc while it is being removed from below by subduction erosion. In the most extreme case, an entire forearc can be removed by a single subduction erosion event followed by depositionary replacement without involving transfer of sediments from the incoming plate. We need to further recognize that subduction forearcs are often shaped by interactions between slow, long-term processes, and sudden extreme events reflecting the sudden influences of large-scale morphological variations in the incoming plate. Both types of processes contribute to the large-scale architecture of the forearc, with extreme events associated with a replacive depositionary mode that rapidly creates sections of a typical forearc margin. The persistent upward diversion of the megathrust is likely to affect its geometry, frictional nature, and hydrogeology. Therefore, the stresses along the fault and individual earthquake rupture characteristics are also expected to be more variable in these erosive systems than in systems with long-lived megathrust surfaces.

Changes in extreme events and the potential impacts on human health.

PubMed

Bell, Jesse E; Brown, Claudia Langford; Conlon, Kathryn; Herring, Stephanie; Kunkel, Kenneth E; Lawrimore, Jay; Luber, George; Schreck, Carl; Smith, Adam; Uejio, Christopher

2018-04-01

Extreme weather and climate-related events affect human health by causing death, injury, and illness, as well as having large socioeconomic impacts. Climate change has caused changes in extreme event frequency, intensity, and geographic distribution, and will continue to be a driver for change in the future. Some of these events include heat waves, droughts, wildfires, dust storms, flooding rains, coastal flooding, storm surges, and hurricanes. The pathways connecting extreme events to health outcomes and economic losses can be diverse and complex. The difficulty in predicting these relationships comes from the local societal and environmental factors that affect disease burden. More information is needed about the impacts of climate change on public health and economies to effectively plan for and adapt to climate change. This paper describes some of the ways extreme events are changing and provides examples of the potential impacts on human health and infrastructure. It also identifies key research gaps to be addressed to improve the resilience of public health to extreme events in the future. Extreme weather and climate events affect human health by causing death, injury, and illness, as well as having large socioeconomic impacts. Climate change has caused changes in extreme event frequency, intensity, and geographic distribution, and will continue to be a driver for change in the future. Some of these events include heat waves, droughts, wildfires, flooding rains, coastal flooding, surges, and hurricanes. The pathways connecting extreme events to health outcomes and economic losses can be diverse and complex. The difficulty in predicting these relationships comes from the local societal and environmental factors that affect disease burden.

Correlations, soliton modes, and non-Hermitian linear mode transmutation in the one-dimensional noisy Burgers equation.

PubMed

Fogedby, Hans C

2003-08-01

Using the previously developed canonical phase space approach applied to the noisy Burgers equation in one dimension, we discuss in detail the growth morphology in terms of nonlinear soliton modes and superimposed linear modes. We moreover analyze the non-Hermitian character of the linear mode spectrum and the associated dynamical pinning, and mode transmutation from diffusive to propagating behavior induced by the solitons. We discuss the anomalous diffusion of growth modes, switching and pathways, correlations in the multisoliton sector, and in detail the correlations and scaling properties in the two-soliton sector.

DIFFICULTY OF MODE OF ACTION DETERMINATION FOR TRICHLOROETHYLENE: AN EXAMPLE OF COMPLEX INTERACTIONS OF METABOLITES AND OTHER CHEMICAL EXPOSURES (Journal Article)

EPA Science Inventory

The mode(s) of action (MOA) of a pollutant for adverse health effects may be dependent on the mixture of metabolites resulting from exposure to a single agent and may also be affected by co-exposure to pollutants that have similar targets or affected pathways. Trichloroethylene ...

Observations of core-mantle boundary Stoneley modes

NASA Astrophysics Data System (ADS)

Koelemeijer, Paula; Deuss, Arwen; Ritsema, Jeroen

2013-06-01

Core-mantle boundary (CMB) Stoneley modes represent a unique class of normal modes with extremely strong sensitivity to wave speed and density variations in the D" region. We measure splitting functions of eight CMB Stoneley modes using modal spectra from 93 events with Mw> 7.4 between 1976 and 2011. The obtained splitting function maps correlate well with the predicted splitting calculated for S20RTS+Crust5.1 structure and the distribution of Sdiff and Pdiff travel time anomalies, suggesting that they are robust. We illustrate how our new CMB Stoneley mode splitting functions can be used to estimate density variations in the Earth's lowermost mantle.

Tales from the Paleoclimate Underground: Lessons Learned from Reconstructing Extreme Events

NASA Astrophysics Data System (ADS)

Frappier, A. E.

2017-12-01

Tracing patterns of paleoclimate extremes over the past two millennia is becoming ever more important in the effort to understand and predict costly weather hazards and their varied societal impacts. I present three paleoclimate vignettes from the past ten years of different paleotempestology projects I have worked on closely, illustrating our collective challenges and productive pathways in reconstructing rainfall extremes: temporal, spatial, and combining information from disparate proxies. Finally, I aim to share new results from modeling multiple extremes and hazards in Yucatan, a climate change hotspot.

TECA: A Parallel Toolkit for Extreme Climate Analysis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Prabhat, Mr; Ruebel, Oliver; Byna, Surendra

2012-03-12

We present TECA, a parallel toolkit for detecting extreme events in large climate datasets. Modern climate datasets expose parallelism across a number of dimensions: spatial locations, timesteps and ensemble members. We design TECA to exploit these modes of parallelism and demonstrate a prototype implementation for detecting and tracking three classes of extreme events: tropical cyclones, extra-tropical cyclones and atmospheric rivers. We process a modern TB-sized CAM5 simulation dataset with TECA, and demonstrate good runtime performance for the three case studies.

Design of graded refractive index profile for silica multimode optical fibers with improved effective modal bandwidth for short-distance laser-based multi-Gigabit data transmission over "O"-band

NASA Astrophysics Data System (ADS)

Bourdine, Anton V.; Zhukov, Alexander E.

2017-04-01

High bit rate laser-based data transmission over silica optical fibers with enlarged core diameter in comparison with standard singlemode fibers is found variety infocommunication applications. Since IEEE 802.3z standard was ratified on 1998 this technique started to be widely used for short-range in-premises distributed multi-Gigabit networks based on new generation laser optimized multimode fibers 50/125 of Cat. OM2…OM4. Nowadays it becomes to be in demand for on-board cable systems and industrial network applications requiring 1Gps and more bit rates over fibers with extremely enlarged core diameter up to 100 μm. This work presents an alternative method for design the special refractive index profiles of silica few-mode fibers with extremely enlarged core diameter, that provides modal bandwidth enhancing under a few-mode regime of laser-based data optical transmission. Here some results are presented concerning with refractive index profile synthesis for few-mode fibers with reduced differential mode delay for "O"-band central region, as well as computed differential mode delay spectral curves corresponding to profiles for fibers 50/125 and 100/125 for in-premises and on-board/industrial cable systems.

Excited-state lifetimes of far-infrared collective modes in proteins.

PubMed

Xie, Aihua; van der Meer, Alexander F G; Austin, Robert H

2002-01-07

Vibrational excitations of low frequency collective modes are essential for functionally important conformational transitions in proteins. Here we report the first direct measurement on the lifetime of vibrational excitations of the collective modes at 87 microm (115 cm(-1)) in bacteriorhodopsin, a transmembrane protein. The data show that these modes have extremely long lifetime of vibrational excitations, over 500 ps, accommodating 1500 vibrations. We suggest that there is a connection between this relatively slow anharmonic relaxation rate of approximately 10(9) sec(-1) and the similar observed rate of conformational transitions in proteins, which require multilevel vibrational excitations.

Survival and Energy Producing Strategies of Alkane Degraders Under Extreme Conditions and Their Biotechnological Potential.

PubMed

Park, Chulwoo; Park, Woojun

2018-01-01

Many petroleum-polluted areas are considered as extreme environments because of co-occurrence of low and high temperatures, high salt, and acidic and anaerobic conditions. Alkanes, which are major constituents of crude oils, can be degraded under extreme conditions, both aerobically and anaerobically by bacteria and archaea of different phyla. Alkane degraders possess exclusive metabolic pathways and survival strategies, which involve the use of protein and RNA chaperones, compatible solutes, biosurfactants, and exopolysaccharide production for self-protection during harsh environmental conditions such as oxidative and osmotic stress, and ionic nutrient-shortage. Recent findings suggest that the thermophilic sulfate-reducing archaeon Archaeoglobus fulgidus uses a novel alkylsuccinate synthase for long-chain alkane degradation, and the thermophilic Candidatus Syntrophoarchaeum butanivorans anaerobically oxidizes butane via alkyl-coenzyme M formation. In addition, gene expression data suggest that extremophiles produce energy via the glyoxylate shunt and the Pta-AckA pathway when grown on a diverse range of alkanes under stress conditions. Alkane degraders possess biotechnological potential for bioremediation because of their unusual characteristics. This review will provide genomic and molecular insights on alkane degraders under extreme conditions.

Novel Self-Heated Gas Sensors Using on-Chip Networked Nanowires with Ultralow Power Consumption.

PubMed

Tan, Ha Minh; Manh Hung, Chu; Ngoc, Trinh Minh; Nguyen, Hugo; Duc Hoa, Nguyen; Van Duy, Nguyen; Hieu, Nguyen Van

2017-02-22

The length of single crystalline nanowires (NWs) offers a perfect pathway for electron transfer, while the small diameter of the NWs hampers thermal losses to tje environment, substrate, and metal electrodes. Therefore, Joule self-heating effect is nearly ideal for operating NW gas sensors at ultralow power consumption, without additional heaters. The realization of the self-heated NW sensors using the "pick and place" approach is complex, hardly reproducible, low yield, and not applicable for mass production. Here, we present the sensing capability of the self-heated networked SnO 2 NWs effectively prepared by on-chip growth. Our developed self-heated sensors exhibit a good response of 25.6 to 2.5 ppm NO 2 gas, while the response to 500 ppm H 2 , 100 ppm NH 3 , 100 ppm H 2 S, and 500 ppm C 2 H 5 OH is very low, indicating the good selectivity of the sensors to NO 2 gas. Furthermore, the detection limit is very low, down to 82 parts-per-trillion. As-obtained sensing performance under self-heating mode is nearly identical to that under external heating mode. While the power consumption under self-heating mode is extremely low, around hundreds of microwatts, as scaled-down the size of the electrode is below 10 μm. The selectivity of the sensors can be controlled simply by tuning the loading power that enables simple detection of NO 2 in mixed gases. Remarkable performance together with a significantly facile fabrication process of the present sensors enhances the potential application of NW sensors in next generation technologies such as electronic noses, the Internet of Things, and smartphone sensing.

Improving pathways to transit for persons with disabilities.

DOT National Transportation Integrated Search

2016-08-01

Persons with disabilities can achieve a greater degree of freedom when they have full access to a variety of transit modes, but this : can only be achieved when the pathways to transit the infrastructure and conditions in the built environment ...

Pathway-Based Concentration Response Profiles from Toxicogenomics Data

EPA Science Inventory

Microarray analysis of gene expression of in vitro systems could be a powerful tool for assessing chemical hazard. Differentially expressed genes specific to cells, chemicals, and concentrations can be organized into molecular pathways that inform mode of action. An important par...

Climate extremes, land–climate feedbacks and land-use forcing at 1.5°C

DOE Office of Scientific and Technical Information (OSTI.GOV)

Seneviratne, Sonia I.; Wartenburger, Richard; Guillod, Benoit P.

This article investigates projected changes in temperature and water cycle extremes at 1.5°C global warming, and highlights the role of land processes and land-use changes (LUC) for these projections. We provide new comparisons of changes in climate at 1.5°C vs 2°C based on empirical sampling analyses of transient simulations vs simulations from the 'Half a degree Additional warming, Prognosis and Projected Impacts' (HAPPI) multi-model experiment. The two approaches yield overall similar results regarding changes in climate extremes on land, and reveal a substantial difference in regional extremes occurrence at 1.5°C vs 2°C. Land processes mediated through soil moisture feedbacks andmore » land-use forcing play a major role for projected changes in extremes at 1.5°C in most mid-latitude regions, including densely populated areas in North America, Europe and Asia. This has important implications for low-emissions scenarios derived from Integrated Assessment Models (IAMs), which include major LUC in ambitious mitigation pathways (e.g. associated with increased bioenergy use), but are also shown to differ in the simulated LUC patterns. Biogeophysical effects from LUC are not considered in the development of IAM scenarios, but play an important role for projected regional changes in climate extremes, and are thus of high relevance for sustainable development pathways.« less

Climate extremes, land–climate feedbacks and land-use forcing at 1.5°C

DOE PAGES

Seneviratne, Sonia I.; Wartenburger, Richard; Guillod, Benoit P.; ...

2018-04-02

Here, this article investigates projected changes in temperature and water cycle extremes at 1.5°C of global warming, and highlights the role of land processes and land-use changes (LUCs) for these projections. We provide new comparisons of changes in climate at 1.5°C versus 2°C based on empirical sampling analyses of transient simulations versus simulations from the ‘Half a degree Additional warming, Prognosis and Projected Impacts’ (HAPPI) multi-model experiment. The two approaches yield similar overall results regarding changes in climate extremes on land, and reveal a substantial difference in the occurrence of regional extremes at 1.5°C versus 2°C. Land processes mediated throughmore » soil moisture feedbacks and land-use forcing play a major role for projected changes in extremes at 1.5°C in most mid-latitude regions, including densely populated areas in North America, Europe and Asia. This has important implications for low-emissions scenarios derived from integrated assessment models (IAMs), which include major LUCs in ambitious mitigation pathways (e.g. associated with increased bioenergy use), but are also shown to differ in the simulated LUC patterns. Biogeophysical effects from LUCs are not considered in the development of IAM scenarios, but play an important role for projected regional changes in climate extremes, and are thus of high relevance for sustainable development pathways.« less

Acute Bouts of Assisted Cycling Improves Cognitive and Upper Extremity Movement Functions in Adolescents with Down Syndrome

ERIC Educational Resources Information Center

Ringenbach, Shannon D. R; Albert, Andrew R.; Chen, Chih-Chia; Alberts, Jay L.

2014-01-01

The aim of this study was to examine the effectiveness of 2 modes of exercise on cognitive and upper extremity movement functioning in adolescents with Down syndrome (DS). Nine participants randomly completed 3 interventions over 3 consecutive weeks. The interventions were: (a) voluntary cycling (VC), in which participants cycled at their…

Climate extremes, land–climate feedbacks and land-use forcing at 1.5°C

DOE Office of Scientific and Technical Information (OSTI.GOV)

Seneviratne, Sonia I.; Wartenburger, Richard; Guillod, Benoit P.

Here, this article investigates projected changes in temperature and water cycle extremes at 1.5°C of global warming, and highlights the role of land processes and land-use changes (LUCs) for these projections. We provide new comparisons of changes in climate at 1.5°C versus 2°C based on empirical sampling analyses of transient simulations versus simulations from the ‘Half a degree Additional warming, Prognosis and Projected Impacts’ (HAPPI) multi-model experiment. The two approaches yield similar overall results regarding changes in climate extremes on land, and reveal a substantial difference in the occurrence of regional extremes at 1.5°C versus 2°C. Land processes mediated throughmore » soil moisture feedbacks and land-use forcing play a major role for projected changes in extremes at 1.5°C in most mid-latitude regions, including densely populated areas in North America, Europe and Asia. This has important implications for low-emissions scenarios derived from integrated assessment models (IAMs), which include major LUCs in ambitious mitigation pathways (e.g. associated with increased bioenergy use), but are also shown to differ in the simulated LUC patterns. Biogeophysical effects from LUCs are not considered in the development of IAM scenarios, but play an important role for projected regional changes in climate extremes, and are thus of high relevance for sustainable development pathways.« less

Dissipation of hydrological tracers and the herbicide S-metolachlor in batch and continuous-flow wetlands.

PubMed

Maillard, Elodie; Lange, Jens; Schreiber, Steffi; Dollinger, Jeanne; Herbstritt, Barbara; Millet, Maurice; Imfeld, Gwenaël

2016-02-01

Pesticide dissipation in wetland systems with regard to hydrological conditions and operational modes is poorly known. Here, we investigated in artificial wetlands the impact of batch versus continuous-flow modes on the dissipation of the chiral herbicide S-metolachlor (S-MET) and hydrological tracers (bromide, uranine and sulforhodamine B). The wetlands received water contaminated with the commercial formulation Mercantor Gold(®) (960 g L(-1) of S-MET, 87% of the S-enantiomer). The tracer mass budget revealed that plant uptake, sorption, photo- and presumably biodegradation were prominent under batch mode (i.e. characterized by alternating oxic-anoxic conditions), in agreement with large dissipation of S-MET (90%) under batch mode. Degradation was the main dissipation pathway of S-MET in the wetlands. The degradate metolachlor oxanilic acid (MOXA) mainly formed under batch mode, whereas metolachlor ethanesulfonic acid (MESA) prevailed under continuous-flow mode, suggesting distinct degradation pathways in each wetland. R-enantiomer was preferentially degraded under batch mode, which indicated enantioselective biodegradation. The release of MESA and MOXA by the wetlands as well as the potential persistence of S-MET compared to R-MET under both oxic and anoxic conditions may be relevant for groundwater and ecotoxicological risk assessment. This study shows the effect of batch versus continuous modes on pollutant dissipation in wetlands, and that alternate biogeochemical conditions under batch mode enhance S-MET biodegradation. Copyright © 2015 Elsevier Ltd. All rights reserved.

Rewiring and regulation of cross-compartmentalized metabolism in protists

PubMed Central

Ginger, Michael L.; McFadden, Geoffrey I.; Michels, Paul A. M.

2010-01-01

Plastid acquisition, endosymbiotic associations, lateral gene transfer, organelle degeneracy or even organelle loss influence metabolic capabilities in many different protists. Thus, metabolic diversity is sculpted through the gain of new metabolic functions and moderation or loss of pathways that are often essential in the majority of eukaryotes. What is perhaps less apparent to the casual observer is that the sub-compartmentalization of ubiquitous pathways has been repeatedly remodelled during eukaryotic evolution, and the textbook pictures of intermediary metabolism established for animals, yeast and plants are not conserved in many protists. Moreover, metabolic remodelling can strongly influence the regulatory mechanisms that control carbon flux through the major metabolic pathways. Here, we provide an overview of how core metabolism has been reorganized in various unicellular eukaryotes, focusing in particular on one near universal catabolic pathway (glycolysis) and one ancient anabolic pathway (isoprenoid biosynthesis). For the example of isoprenoid biosynthesis, the compartmentalization of this process in protists often appears to have been influenced by plastid acquisition and loss, whereas for glycolysis several unexpected modes of compartmentalization have emerged. Significantly, the example of trypanosomatid glycolysis illustrates nicely how mathematical modelling and systems biology can be used to uncover or understand novel modes of pathway regulation. PMID:20124348

Detection of phytohormones in temperate forest fungi predicts consistent abscisic acid production and a common pathway for cytokinin biosynthesis.

PubMed

Morrison, Erin N; Knowles, Sarah; Hayward, Allison; Thorn, R Greg; Saville, Barry J; Emery, R J N

2015-01-01

The phytohormones, abscisic acid and cytokinin, once were thought to be present uniquely in plants, but increasing evidence suggests that these hormones are present in a wide variety of organisms. Few studies have examined fungi for the presence of these "plant" hormones or addressed whether their levels differ based on the nutrition mode of the fungus. This study examined 20 temperate forest fungi of differing nutritional modes (ectomycorrhizal, wood-rotting, saprotrophic). Abscisic acid and cytokinin were present in all fungi sampled; this indicated that the sampled fungi have the capacity to synthesize these two classes of phytohormones. Of the 27 cytokinins analyzed by HPLC-ESI MS/MS, seven were present in all fungi sampled. This suggested the existence of a common cytokinin metabolic pathway in fungi that does not vary among different nutritional modes. Predictions regarding the source of isopentenyl, cis-zeatin and methylthiol CK production stemming from the tRNA degradation pathway among fungi are discussed. © 2015 by The Mycological Society of America.

Influence of North Atlantic modes on European climate extremes

NASA Astrophysics Data System (ADS)

Proemmel, K.; Cubasch, U.

2017-12-01

It is well known that the North Atlantic strongly influences European climate. Only few studies exist that focus on its impact on climate extremes. We are interested in these extremes and the processes and mechanisms behind it. For the analysis of the North Atlantic Oscillation (NAO) we use simulations performed with the Max Planck Institute for Meteorology Earth System Model (MPI-ESM). The NAO has a strong impact especially on European winter and the changes in minimum temperature are even larger than in maximum temperature. The impact of the Atlantic Multi-decadal Variability (AMV) on climate extremes is analyzed in ECHAM6 simulations forced with AMV warm and AMV cold sea surface temperature patterns. We analyze different extreme indices and try to understand the processes.

Exploring metabolic pathways in genome-scale networks via generating flux modes.

PubMed

Rezola, A; de Figueiredo, L F; Brock, M; Pey, J; Podhorski, A; Wittmann, C; Schuster, S; Bockmayr, A; Planes, F J

2011-02-15

The reconstruction of metabolic networks at the genome scale has allowed the analysis of metabolic pathways at an unprecedented level of complexity. Elementary flux modes (EFMs) are an appropriate concept for such analysis. However, their number grows in a combinatorial fashion as the size of the metabolic network increases, which renders the application of EFMs approach to large metabolic networks difficult. Novel methods are expected to deal with such complexity. In this article, we present a novel optimization-based method for determining a minimal generating set of EFMs, i.e. a convex basis. We show that a subset of elements of this convex basis can be effectively computed even in large metabolic networks. Our method was applied to examine the structure of pathways producing lysine in Escherichia coli. We obtained a more varied and informative set of pathways in comparison with existing methods. In addition, an alternative pathway to produce lysine was identified using a detour via propionyl-CoA, which shows the predictive power of our novel approach. The source code in C++ is available upon request.

Climate extremes and the carbon cycle.

PubMed

Reichstein, Markus; Bahn, Michael; Ciais, Philippe; Frank, Dorothea; Mahecha, Miguel D; Seneviratne, Sonia I; Zscheischler, Jakob; Beer, Christian; Buchmann, Nina; Frank, David C; Papale, Dario; Rammig, Anja; Smith, Pete; Thonicke, Kirsten; van der Velde, Marijn; Vicca, Sara; Walz, Ariane; Wattenbach, Martin

2013-08-15

The terrestrial biosphere is a key component of the global carbon cycle and its carbon balance is strongly influenced by climate. Continuing environmental changes are thought to increase global terrestrial carbon uptake. But evidence is mounting that climate extremes such as droughts or storms can lead to a decrease in regional ecosystem carbon stocks and therefore have the potential to negate an expected increase in terrestrial carbon uptake. Here we explore the mechanisms and impacts of climate extremes on the terrestrial carbon cycle, and propose a pathway to improve our understanding of present and future impacts of climate extremes on the terrestrial carbon budget.

Extreme sensitivity biosensing platform based on hyperbolic metamaterials

NASA Astrophysics Data System (ADS)

Sreekanth, Kandammathe Valiyaveedu; Alapan, Yunus; Elkabbash, Mohamed; Ilker, Efe; Hinczewski, Michael; Gurkan, Umut A.; de Luca, Antonio; Strangi, Giuseppe

2016-06-01

Optical sensor technology offers significant opportunities in the field of medical research and clinical diagnostics, particularly for the detection of small numbers of molecules in highly diluted solutions. Several methods have been developed for this purpose, including label-free plasmonic biosensors based on metamaterials. However, the detection of lower-molecular-weight (<500 Da) biomolecules in highly diluted solutions is still a challenging issue owing to their lower polarizability. In this context, we have developed a miniaturized plasmonic biosensor platform based on a hyperbolic metamaterial that can support highly confined bulk plasmon guided modes over a broad wavelength range from visible to near infrared. By exciting these modes using a grating-coupling technique, we achieved different extreme sensitivity modes with a maximum of 30,000 nm per refractive index unit (RIU) and a record figure of merit (FOM) of 590. We report the ability of the metamaterial platform to detect ultralow-molecular-weight (244 Da) biomolecules at picomolar concentrations using a standard affinity model streptavidin-biotin.

Extremely Low-Frequency Waves Inside the Diamagnetic Cavity of Comet 67P/Churyumov-Gerasimenko

NASA Astrophysics Data System (ADS)

Madsen, B.; Wedlund, C. Simon; Eriksson, A.; Goetz, C.; Karlsson, T.; Gunell, H.; Spicher, A.; Henri, P.; Vallières, X.; Miloch, W. J.

2018-05-01

The European Space Agency/Rosetta mission to comet 67P/Churyumov-Gerasimenko has provided several hundred observations of the cometary diamagnetic cavity induced by the interaction between outgassed cometary particles, cometary ions, and the solar wind magnetic field. Here we present the first electric field measurements of four preperihelion and postperihelion cavity crossings on 28 May 2015 and 17 February 2016, using the dual-probe electric field mode of the Langmuir probe (LAP) instrument of the Rosetta Plasma Consortium. We find that on large scales, variations in the electric field fluctuations capture the cavity and boundary regions observed in the already well-studied magnetic field, suggesting the electric field mode of the LAP instrument as a reliable tool to image cavity crossings. In addition, the LAP electric field mode unravels for the first time extremely low-frequency waves within two cavities. These low-frequency electrostatic waves are likely triggered by lower-hybrid waves observed in the surrounding magnetized plasma.

Extreme Wave-Induced Oscillation in Paradip Port Under the Resonance Conditions

NASA Astrophysics Data System (ADS)

Kumar, Prashant; Gulshan

2017-12-01

A mathematical model is constructed to analyze the long wave-induced oscillation in Paradip Port, Odisha, India under the resonance conditions to avert any extreme wave hazards. Boundary element method (BEM) with corner contribution is utilized to solve the Helmholtz equation under the partial reflection boundary conditions. Furthermore, convergence analysis is also performed for the boundary element scheme with uniform and non-uniform discretization of the boundary. The numerical scheme is also validated with analytic approximation and existing studies based on harbor resonance. Then, the amplification factor is estimated at six key record stations in the Paradip Port with multidirectional incident waves and resonance modes are also estimated at the boundary of the port. Ocean surface wave field is predicted in the interior of Paradip Port for the different directional incident wave at various resonance modes. Moreover, the safe locations in the port have been identified for loading and unloading of moored ship with different resonance modes and directional incident waves.

Study of Complex Plasmas with Magnetic Dipoles

DTIC Science & Technology

2017-10-10

variety of collective behavior manifested in a plasma, especially oscillations or waves characterized by high frequency accompanied by the motion of...behavior manifested in a plasma, especially oscillations or waves characterized by high frequency accompanied by the motion of electrons and/or ions...particles characterized by extremely low frequency modes and the collection of plasma particles characterized by high frequency modes. The interaction of

EXPRESSION PROFILING OF FIVE RAT STRAINS REVEAL TRANSCRIPTIONAL MODES IN THE ANTIGEN PROCESSING PATHWAY

EPA Science Inventory

Comparative gene expression profiling of rat strains with genetic predisposition to diverse cardiovascular diseases can help decode the transcriptional program that governs cellular behavior. We hypothesized that co-transcribed, intra-pathway, functionally coherent genes can be r...

Adverse Outcome Pathways: From Research to Regulation - Scientific Workshop Report

EPA Science Inventory

An adverse outcome pathway (AOP) organizes existing knowledge on chemical mode of action, starting with a molecular initiating event such as receptor binding, continuing through key events, and ending with an adverse outcome such as reproductive impairment. AOPs can help identify...

Gene expression profiles following exposure to a developmental neurotoxicant, Aroclor 1254: Pathway analysis for possible mode(s) of action.

EPA Science Inventory

Epidemiological studies indicate that low levels of polychlorinated biphenyl (PCB) exposure can adversely affect neurocognitive development. In animal models, perturbations in calcium signaling, neurotransmitters, and thyroid hormones have been postulated as potential mechanisms...

DOE Office of Scientific and Technical Information (OSTI.GOV)

Seneviratne, Sonia I.; Wartenburger, Richard; Guillod, Benoit

This article investigates projected changes in temperature and water cycle extremes at 1.5°C global warming, and highlights the role of land processes and land-use changes (LUC) for these projections. We provide new comparisons of changes in climate at 1.5°C vs 2°C based on empirical sampling analyses of transient simulations vs simulations from the “Half a degree Additional warming, Prognosis and Projected Impacts” (HAPPI) multi-model experiment. The two approaches yield overall similar results regarding changes in climate extremes on land, and reveal a substantial difference in regional extremes occurrence at 1.5°C vs 2°C. Land processes mediated through soil moisture feedbacks andmore » land-use forcing play a major role for projected changes in extremes at 1.5°C in most mid-latitude regions, including densely populated areas in North America, Europe and Asia. This has important implications for low-emissions scenarios derived from Integrated Assessment Models (IAMs), which include major LUC in ambitious mitigation pathways (e.g. associated with increased bioenergy use), but are also shown to differ in the simulated LUC patterns. Biogeophysical effects from LUC are not considered in the development of IAM scenarios, but play an important role for projected regional changes in climate extremes, and are thus of high relevance for sustainable development pathways.« less

Pathway modeling of microarray data: A case study of pathway activity changes in the testis following in utero exposure to dibutyl phthalate (DBP)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ovacik, Meric A.; Sen, Banalata; Euling, Susan Y.

Pathway activity level analysis, the approach pursued in this study, focuses on all genes that are known to be members of metabolic and signaling pathways as defined by the KEGG database. The pathway activity level analysis entails singular value decomposition (SVD) of the expression data of the genes constituting a given pathway. We explore an extension of the pathway activity methodology for application to time-course microarray data. We show that pathway analysis enhances our ability to detect biologically relevant changes in pathway activity using synthetic data. As a case study, we apply the pathway activity level formulation coupled with significancemore » analysis to microarray data from two different rat testes exposed in utero to Dibutyl Phthalate (DBP). In utero DBP exposure in the rat results in developmental toxicity of a number of male reproductive organs, including the testes. One well-characterized mode of action for DBP and the male reproductive developmental effects is the repression of expression of genes involved in cholesterol transport, steroid biosynthesis and testosterone synthesis that lead to a decreased fetal testicular testosterone. Previous analyses of DBP testes microarray data focused on either individual gene expression changes or changes in the expression of specific genes that are hypothesized, or known, to be important in testicular development and testosterone synthesis. However, a pathway analysis may inform whether there are additional affected pathways that could inform additional modes of action linked to DBP developmental toxicity. We show that Pathway activity analysis may be considered for a more comprehensive analysis of microarray data.« less

Performing Complex Tasks by Users With Upper-Extremity Disabilities Using a 6-DOF Robotic Arm: A Study.

PubMed

Al-Halimi, Reem K; Moussa, Medhat

2017-06-01

In this paper, we report on the results of a study that was conducted to examine how users suffering from severe upper-extremity disabilities can control a 6 degrees-of-freedom (DOF) robotics arm to complete complex activities of daily living. The focus of the study is not on assessing the robot arm but on examining the human-robot interaction patterns. Three participants were recruited. Each participant was asked to perform three tasks: eating three pieces of pre-cut bread from a plate, drinking three sips of soup from a bowl, and opening a right-handed door with lever handle. Each of these tasks was repeated three times. The arm was mounted on the participant's wheelchair, and the participants were free to move the arm as they wish to complete these tasks. Each task consisted of a sequence of modes where a mode is defined as arm movement in one DOF. Results show that participants used a total of 938 mode movements with an average of 75.5 (std 10.2) modes for the eating task, 70 (std 8.8) modes for the soup task, and 18.7 (std 4.5) modes for the door opening task. Tasks were then segmented into smaller subtasks. It was found that there are patterns of usage per participant and per subtask. These patterns can potentially allow a robot to learn from user's demonstration what is the task being executed and by whom and respond accordingly to reduce user effort.

Cellular homeostasis in fungi: impact on the aging process.

PubMed

Scheckhuber, Christian Q; Hamann, Andrea; Brust, Diana; Osiewacz, Heinz D

2012-01-01

Cellular quality control pathways are needed for maintaining the biological function of organisms. If these pathways become compromised, the results are usually highly detrimental. Functional impairments of cell components can lead to diseases and in extreme cases to organismal death. Dysfunction of cells can be induced by a number of toxic by-products that are formed during metabolic activity, like reactive oxygen and nitrogen species, for example. A key source of reactive oxygen species (ROS) are the organelles of oxidative phosphorylation, mitochondria. Therefore mitochondrial function is also directly affected by ROS, especially if there is a compromised ROS-scavenging capacity. Biological systems therefore depend on several lines of defence to counteract the toxic effects of ROS and other damaging agents. The first level is active at the molecular level and consists of various proteases that bind and degrade abnormally modified and / or aggregated mitochondrial proteins. The second level is concerned with maintaining the quality of whole mitochondria. Among the pathways of this level are mitochondrial dynamics and autophagy (mitophagy). Mitochondrial dynamics describes the time-dependent fusion and fission of mitochondria. It is argued that this kind of organellar dynamics has the power to restore the function of impaired organelles by content mixing with intact organelles. If the first and second lines of defence against damage fail and mitochondria become damaged too severely, there is the option to remove affected cells before they can elicit more damage to their surrounding environment by apoptosis. This form of programmed cell death is strictly regulated by a complex network of interacting components and can be divided into mitochondria-dependent and mitochondria-independent modes of action. In this review we give an overview on various biological quality control systems in fungi (yeasts and filamentous fungi) with an emphasis on autophagy (mitophagy) and apoptosis and how these pathways allow fungal organisms to maintain a balanced cellular homeostasis.

Complementary structure for designer localized surface plasmons

NASA Astrophysics Data System (ADS)

Gao, Zhen; Gao, Fei; Zhang, Youming; Zhang, Baile

2015-11-01

Magnetic localized surface plasmons (LSPs) supported on metallic structures corrugated by very long and curved grooves have been recently proposed and demonstrated on an extremely thin metallic spiral structure (MSS) in the microwave regime. However, the mode profile for the magnetic LSPs was demonstrated by measuring only the electric field, not the magnetic field. Here, based on Babinet's principle, we propose a Babinet-inverted, or complementary MSS whose electric/magnetic mode profiles match the magnetic/electric mode profiles of MSS. This complementarity of mode profiles allows mapping the magnetic field distribution of magnetic LSP mode profile on MSS by measuring the electric field distribution of the corresponding mode on complementary MSS. Experiment at microwave frequencies also demonstrate the use of complementary MSS in sensing refractive-index change in the environment.

Efficient coupling of starlight into single mode photonics using Adaptive Injection (AI)

NASA Astrophysics Data System (ADS)

Norris, Barnaby; Cvetojevic, Nick; Gross, Simon; Arriola, Alexander; Tuthill, Peter; Lawrence, Jon; Richards, Samuel; Goodwin, Michael; Zheng, Jessica

2016-08-01

Using single-mode fibres in astronomy enables revolutionary techniques including single-mode interferometry and spectroscopy. However, injection of seeing-limited starlight into single mode photonics is extremely difficult. One solution is Adaptive Injection (AI). The telescope pupil is segmented into a number of smaller subapertures each with size r0, such that seeing can be approximated as a single tip / tilt / piston term for each subaperture, and then injected into a separate fibre via a facet of a segmented MEMS deformable mirror. The injection problem is then reduced to a set of individual tip tilt loops, resulting in high overall coupling efficiency.

A dynamical systems approach to studying midlatitude weather extremes

NASA Astrophysics Data System (ADS)

Messori, Gabriele; Caballero, Rodrigo; Faranda, Davide

2017-04-01

Extreme weather occurrences carry enormous social and economic costs and routinely garner widespread scientific and media coverage. The ability to predict these events is therefore a topic of crucial importance. Here we propose a novel predictability pathway for extreme events, by building upon recent advances in dynamical systems theory. We show that simple dynamical systems metrics can be used to identify sets of large-scale atmospheric flow patterns with similar spatial structure and temporal evolution on time scales of several days to a week. In regions where these patterns favor extreme weather, they afford a particularly good predictability of the extremes. We specifically test this technique on the atmospheric circulation in the North Atlantic region, where it provides predictability of large-scale wintertime surface temperature extremes in Europe up to 1 week in advance.

Information Flow in Interaction Networks II: Channels, Path Lengths, and Potentials

PubMed Central

Stojmirović, Aleksandar

2012-01-01

Abstract In our previous publication, a framework for information flow in interaction networks based on random walks with damping was formulated with two fundamental modes: emitting and absorbing. While many other network analysis methods based on random walks or equivalent notions have been developed before and after our earlier work, one can show that they can all be mapped to one of the two modes. In addition to these two fundamental modes, a major strength of our earlier formalism was its accommodation of context-specific directed information flow that yielded plausible and meaningful biological interpretation of protein functions and pathways. However, the directed flow from origins to destinations was induced via a potential function that was heuristic. Here, with a theoretically sound approach called the channel mode, we extend our earlier work for directed information flow. This is achieved by constructing a potential function facilitating a purely probabilistic interpretation of the channel mode. For each network node, the channel mode combines the solutions of emitting and absorbing modes in the same context, producing what we call a channel tensor. The entries of the channel tensor at each node can be interpreted as the amount of flow passing through that node from an origin to a destination. Similarly to our earlier model, the channel mode encompasses damping as a free parameter that controls the locality of information flow. Through examples involving the yeast pheromone response pathway, we illustrate the versatility and stability of our new framework. PMID:22409812

Extreme Events in Urban Streams Leading to Extreme Temperatures in Birmingham, UK

NASA Astrophysics Data System (ADS)

Rangecroft, S.; Croghan, D.; Van Loon, A.; Sadler, J. P.; Hannah, D. M.

2016-12-01

Extreme flows and high water temperature events act as critical stressors on the ecological health of rivers. Urban headwater streams are considered particularly vulnerable to the effects of these extreme events. Despite this, such catchments remain poorly characterised and the effect of differences in land use is rarely quantified, especially in relation to water temperature. Thus a key research gap has emerged in understanding the patterns of water temperature during extreme events within contrasting urban, headwater catchments. We studied the headwaters of two bordering urban catchments of contrasting land use within Birmingham, UK. To characterise response to extreme events, precipitation and flow were analysed for the period of 1970-2016. To analyse the effects of extreme events on water temperature, 10 temperature loggers recording at 15 minute intervals were placed within each catchment covering a range of land use for the period May 2016 - present. During peak over threshold flood events higher average peaks were observed in the less urbanised catchment; however highest maximum flow peaks took place in the more densely urbanised catchment. Very similar average drought durations were observed between the two catchments with average flow drought durations of 27 days in the most urbanised catchment, and 29 in the less urbanised catchment. Flashier water temperature regimes were observed within the more urbanised catchment and increases of up to 5 degrees were apparent within 30 minutes during certain storms at the most upstream sites. Only in the most extreme events did the more densely urban stream appear more susceptible to both extreme high flows and extreme water temperature events, possibly resultant from overland flow emerging as the dominant flow pathway during intense precipitation events. Water temperature surges tended to be highly spatially variable indicating the importance of local land use. During smaller events, water temperature was less changeable and spatially variable, suggesting that overland flow may not the dominant flow pathway in such events. During drought events, the effect of catchment land use on water temperature was less apparent.

Asteroid Origins Satellite (AOSAT) I: An On-orbit Centrifuge Science Laboratory

NASA Astrophysics Data System (ADS)

Lightholder, Jack; Thoesen, Andrew; Adamson, Eric; Jakubowski, Jeremy; Nallapu, Ravi; Smallwood, Sarah; Raura, Laksh; Klesh, Andrew; Asphaug, Erik; Thangavelautham, Jekan

2017-04-01

Exploration of asteroids, comets and small moons (small bodies) can answer fundamental questions relating to the formation of the solar system, the availability of resources, and the nature of impact hazards. Near-earth asteroids and the small moons of Mars are potential targets of human exploration. But as illustrated by recent missions, small body surface exploration remains challenging, expensive, and fraught with risk. Despite their small size, they are among the most extreme planetary environments, with low and irregular gravity, loosely bound regolith, extreme temperature variation, and the presence of electrically charged dust. Here we describe the Asteroid Origins Satellite (AOSAT-I), an on-orbit, 3U CubeSat centrifuge using a sandwich-sized bed of crushed meteorite fragments to replicate asteroid surface conditions. Demonstration of this CubeSat will provide a low-cost pathway to physical asteroid model validation, shed light on the origin and geophysics of asteroids, and constrain the design of future landers, rovers, resource extractors, and human missions. AOSAT-I will conduct scientific experiments within its payload chamber while operating in two distinct modes: (1) as a nonrotating microgravity laboratory to investigate primary accretion, and (2) as a rotating centrifuge producing artificial milligravity to simulate surface conditions on asteroids, comets and small moons. AOSAT-I takes advantage of low-cost, off-the-shelf components, modular design, and the rapid assembly and instrumentation of the CubeSat standard, to answer fundamental questions in planetary science and reduce cost and risk of future exploration.

Interaction partners of PSD-93 studied by X-ray crystallography and fluorescence polarization spectroscopy.

PubMed

Fiorentini, Monica; Bach, Anders; Strømgaard, Kristian; Kastrup, Jette S; Gajhede, Michael

2013-04-01

PSD-93 (chapsyn-110, DLG2) is a member of the family of membrane-associated guanylate kinase (MAGUK) proteins. The MAGUK proteins are involved in receptor localization and signalling pathways. The best characterized MAGUK protein, PSD-95, is known to be involved in NMDA receptor signalling via its PDZ domains. The PDZ domains of PSD-95 and PSD-93 are structurally very similar, but relatively little is known about the function of PSD-93. PSD-93 has been suggested to interact with GluD2 from the family of ionotropic glutamate receptors. Here, the interactions of four residues (GTSI) representing the extreme C-terminus of GluD2 with PSD-93 PDZ1 have been investigated in the crystalline phase. Two different binding modes of these residues were observed, suggesting that the peptide is not tightly bound to PSD-93 PDZ1. In accordance, the two N-terminal PSD-93 PDZ domains show no appreciable binding affinity for a GluD2-derived C-terminal octapeptide, whereas micromolar affinity was observed for a GluN2B-derived C-terminal octapeptide. This indicates that if present, the interactions between GluD2 and PSD-93 involve more than the extreme terminus of the receptor. In contrast, the tumour-suppressor protein SCRIB PDZ3 shows low micromolar affinity towards the GluD2-derived octapeptide, which is in agreement with previous findings using high-throughput assays.

Gaussian measures of entanglement versus negativities: Ordering of two-mode Gaussian states

DOE Office of Scientific and Technical Information (OSTI.GOV)

Adesso, Gerardo; Illuminati, Fabrizio; INFN Sezione di Napoli-Gruppo Collegato di Salerno, Via S. Allende, 84081 Baronissi, SA

2005-09-15

We study the entanglement of general (pure or mixed) two-mode Gaussian states of continuous-variable systems by comparing the two available classes of computable measures of entanglement: entropy-inspired Gaussian convex-roof measures and positive partial transposition-inspired measures (negativity and logarithmic negativity). We first review the formalism of Gaussian measures of entanglement, adopting the framework introduced in M. M. Wolf et al., Phys. Rev. A 69, 052320 (2004), where the Gaussian entanglement of formation was defined. We compute explicitly Gaussian measures of entanglement for two important families of nonsymmetric two-mode Gaussian state: namely, the states of extremal (maximal and minimal) negativities at fixedmore » global and local purities, introduced in G. Adesso et al., Phys. Rev. Lett. 92, 087901 (2004). This analysis allows us to compare the different orderings induced on the set of entangled two-mode Gaussian states by the negativities and by the Gaussian measures of entanglement. We find that in a certain range of values of the global and local purities (characterizing the covariance matrix of the corresponding extremal states), states of minimum negativity can have more Gaussian entanglement of formation than states of maximum negativity. Consequently, Gaussian measures and negativities are definitely inequivalent measures of entanglement on nonsymmetric two-mode Gaussian states, even when restricted to a class of extremal states. On the other hand, the two families of entanglement measures are completely equivalent on symmetric states, for which the Gaussian entanglement of formation coincides with the true entanglement of formation. Finally, we show that the inequivalence between the two families of continuous-variable entanglement measures is somehow limited. Namely, we rigorously prove that, at fixed negativities, the Gaussian measures of entanglement are bounded from below. Moreover, we provide some strong evidence suggesting that they are as well bounded from above.« less

Cycles till failure of silver-zinc cells with completing failures modes: Preliminary data analysis

NASA Technical Reports Server (NTRS)

Sidik, S. M.; Leibecki, H. F.; Bozek, J. M.

1980-01-01

One hundred and twenty nine cells were run through charge-discharge cycles until failure. The experiment design was a variant of a central composite factorial in five factors. Preliminary data analysis consisted of response surface estimation of life. Batteries fail under two basic modes; a low voltage condition and an internal shorting condition. A competing failure modes analysis using maximum likelihood estimation for the extreme value life distribution was performed. Extensive diagnostics such as residual plotting and probability plotting were employed to verify data quality and choice of model.

(DARPA) Optical Radiation Cooling and Heating In Integrated Devices: Circuit cavity optomechanics for cooling and amplification on a silicon chip

DTIC Science & Technology

2015-07-16

0.02(λ/ n )3 modal volumes while preserving optical cavity Q up to5×106 [Fig. 4(f)-(i)]. The mechanical mode is modeled to have fundamental resonance Qm...addition, a 30.64-MHz resonance is observed and identified as one of the wineglass modes (circumferential number n = 4, “square” mode [40]) with a measured...main challenge is that mechanical resonators operating at high frequencies are extremely stiff, having spring constant on the order of 107 N /m. This

Cycles till failure of silver-zinc cells with competing failure modes - Preliminary data analysis

NASA Technical Reports Server (NTRS)

Sidik, S. M.; Leibecki, H. F.; Bozek, J. M.

1980-01-01

The data analysis of cycles to failure of silver-zinc electrochemical cells with competing failure modes is presented. The test ran 129 cells through charge-discharge cycles until failure; preliminary data analysis consisted of response surface estimate of life. Batteries fail through low voltage condition and an internal shorting condition; a competing failure modes analysis was made using maximum likelihood estimation for the extreme value life distribution. Extensive residual plotting and probability plotting were used to verify data quality and selection of model.

A common mechanism involving the TORC1 pathway can lead to amphotericin B-persistence in biofilm and planktonic Saccharomyces cerevisiae populations.

PubMed

Bojsen, Rasmus; Regenberg, Birgitte; Gresham, David; Folkesson, Anders

2016-02-23

Fungal infections are an increasing clinical problem. Decreased treatment effectiveness is associated with biofilm formation and drug recalcitrance is thought to be biofilm specific. However, no systematic investigations have tested whether resistance mechanisms are shared between biofilm and planktonic populations. We performed multiplexed barcode sequencing (Bar-seq) screening of a pooled collection of gene-deletion mutants cultivated as biofilm and planktonic cells. Screening for resistance to the ergosterol-targeting fungicide amphotericin B (AmB) revealed that the two growth modes had significant overlap in AmB-persistent mutants. Mutants defective in sterol metabolism, ribosome biosynthesis, and the TORC1 and Ras pathways showed increased persistence when treated with AmB. The ras1, ras2 and tor1 mutants had a high-persister phenotype similar to wild-type biofilm and planktonic cells exposed to the TORC1 pathway inhibitor rapamycin. Inhibition of TORC1 with rapamycin also increased the proportion of persisters in Candida albicans and Candida glabrata. We propose that decreased TORC1-mediated induction of ribosome biosynthesis via Ras can lead to formation of AmB-persister cells regardless of whether the cells are in planktonic or biofilm growth mode. Identification of common pathways leading to growth mode-independent persister formation is important for developing novel strategies for treating fungal infections.

Porting the synthetic D-glucaric acid pathway from Escherichia coli to Saccharomyces cerevisiae.

PubMed

Gupta, Amita; Hicks, Michael A; Manchester, Shawn P; Prather, Kristala L J

2016-09-01

D-Glucaric acid can be produced as a value-added chemical from biomass through a de novo pathway in Escherichia coli. However, previous studies have identified pH-mediated toxicity at product concentrations of 5 g/L and have also found the eukaryotic myo-inositol oxygenase (MIOX) enzyme to be rate-limiting. We ported this pathway to Saccaromyces cerevisiae, which is naturally acid-tolerant and evaluate a codon-optimized MIOX homologue. We constructed two engineered yeast strains that were distinguished solely by their MIOX gene - either the previous version from Mus musculus or a homologue from Arabidopsis thaliana codon-optimized for expression in S. cerevisiae - in order to identify the rate-limiting steps for D-glucaric acid production both from a fermentative and non-fermentative carbon source. myo-Inositol availability was found to be rate-limiting from glucose in both strains and demonstrated to be dependent on growth rate, whereas the previously used M. musculus MIOX activity was found to be rate-limiting from glycerol. Maximum titers were 0.56 g/L from glucose in batch mode, 0.98 g/L from glucose in fed-batch mode, and 1.6 g/L from glucose supplemented with myo-inositol. Future work focusing on the MIOX enzyme, the interplay between growth and production modes, and promoting aerobic respiration should further improve this pathway. Copyright © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Dose and Effect Thresholds for Early Key Events in a Mode of PPARa-Mediated Action

EPA Science Inventory

ABSTRACT Strategies for predicting adverse health outcomes of environmental chemicals are centered on early key events in toxicity pathways. However, quantitative relationships between early molecular changes in a given pathway and later health effects are often poorly defined. T...

Normal mode analysis and applications in biological physics.

PubMed

Dykeman, Eric C; Sankey, Otto F

2010-10-27

Normal mode analysis has become a popular and often used theoretical tool in the study of functional motions in enzymes, viruses, and large protein assemblies. The use of normal modes in the study of these motions is often extremely fruitful since many of the functional motions of large proteins can be described using just a few normal modes which are intimately related to the overall structure of the protein. In this review, we present a broad overview of several popular methods used in the study of normal modes in biological physics including continuum elastic theory, the elastic network model, and a new all-atom method, recently developed, which is capable of computing a subset of the low frequency vibrational modes exactly. After a review of the various methods, we present several examples of applications of normal modes in the study of functional motions, with an emphasis on viral capsids.

Multi-scale fluctuation analysis of precipitation in Beijing by Extreme-point Symmetric Mode Decomposition

NASA Astrophysics Data System (ADS)

Li, Jiqing; Duan, Zhipeng; Huang, Jing

2018-06-01

With the aggravation of the global climate change, the shortage of water resources in China is becoming more and more serious. Using reasonable methods to study changes in precipitation is very important for planning and management of water resources. Based on the time series of precipitation in Beijing from 1951 to 2015, the multi-scale features of precipitation are analyzed by the Extreme-point Symmetric Mode Decomposition (ESMD) method to forecast the precipitation shift. The results show that the precipitation series have periodic changes of 2.6, 4.3, 14 and 21.7 years, and the variance contribution rate of each modal component shows that the inter-annual variation dominates the precipitation in Beijing. It is predicted that precipitation in Beijing will continue to decrease in the near future.

Energy transport pathway in proteins: Insights from non-equilibrium molecular dynamics with elastic network model.

PubMed

Wang, Wei Bu; Liang, Yu; Zhang, Jing; Wu, Yi Dong; Du, Jian Jun; Li, Qi Ming; Zhu, Jian Zhuo; Su, Ji Guo

2018-06-22

Intra-molecular energy transport between distant functional sites plays important roles in allosterically regulating the biochemical activity of proteins. How to identify the specific intra-molecular signaling pathway from protein tertiary structure remains a challenging problem. In the present work, a non-equilibrium dynamics method based on the elastic network model (ENM) was proposed to simulate the energy propagation process and identify the specific signaling pathways within proteins. In this method, a given residue was perturbed and the propagation of energy was simulated by non-equilibrium dynamics in the normal modes space of ENM. After that, the simulation results were transformed from the normal modes space to the Cartesian coordinate space to identify the intra-protein energy transduction pathways. The proposed method was applied to myosin and the third PDZ domain (PDZ3) of PSD-95 as case studies. For myosin, two signaling pathways were identified, which mediate the energy transductions form the nucleotide binding site to the 50 kDa cleft and the converter subdomain, respectively. For PDZ3, one specific signaling pathway was identified, through which the intra-protein energy was transduced from ligand binding site to the distant opposite side of the protein. It is also found that comparing with the commonly used cross-correlation analysis method, the proposed method can identify the anisotropic energy transduction pathways more effectively.

Extreme fluctuations in stochastic network coordination with time delays

NASA Astrophysics Data System (ADS)

Hunt, D.; Molnár, F.; Szymanski, B. K.; Korniss, G.

2015-12-01

We study the effects of uniform time delays on the extreme fluctuations in stochastic synchronization and coordination problems with linear couplings in complex networks. We obtain the average size of the fluctuations at the nodes from the behavior of the underlying modes of the network. We then obtain the scaling behavior of the extreme fluctuations with system size, as well as the distribution of the extremes on complex networks, and compare them to those on regular one-dimensional lattices. For large complex networks, when the delay is not too close to the critical one, fluctuations at the nodes effectively decouple, and the limit distributions converge to the Fisher-Tippett-Gumbel density. In contrast, fluctuations in low-dimensional spatial graphs are strongly correlated, and the limit distribution of the extremes is the Airy density. Finally, we also explore the effects of nonlinear couplings on the stability and on the extremes of the synchronization landscapes.

On Functional Module Detection in Metabolic Networks

PubMed Central

Koch, Ina; Ackermann, Jörg

2013-01-01

Functional modules of metabolic networks are essential for understanding the metabolism of an organism as a whole. With the vast amount of experimental data and the construction of complex and large-scale, often genome-wide, models, the computer-aided identification of functional modules becomes more and more important. Since steady states play a key role in biology, many methods have been developed in that context, for example, elementary flux modes, extreme pathways, transition invariants and place invariants. Metabolic networks can be studied also from the point of view of graph theory, and algorithms for graph decomposition have been applied for the identification of functional modules. A prominent and currently intensively discussed field of methods in graph theory addresses the Q-modularity. In this paper, we recall known concepts of module detection based on the steady-state assumption, focusing on transition-invariants (elementary modes) and their computation as minimal solutions of systems of Diophantine equations. We present the Fourier-Motzkin algorithm in detail. Afterwards, we introduce the Q-modularity as an example for a useful non-steady-state method and its application to metabolic networks. To illustrate and discuss the concepts of invariants and Q-modularity, we apply a part of the central carbon metabolism in potato tubers (Solanum tuberosum) as running example. The intention of the paper is to give a compact presentation of known steady-state concepts from a graph-theoretical viewpoint in the context of network decomposition and reduction and to introduce the application of Q-modularity to metabolic Petri net models. PMID:24958145

Nanosatellite High-Precision Magnetic Missions Enabled by Advances in a Stand-Alone Scalar/Vector Absolute Magnetometer

NASA Astrophysics Data System (ADS)

Hulot, G.; Leger, J. M.; Vigneron, P.; Jager, T.; Bertrand, F.; Coisson, P.; Deram, P.; Boness, A.; Tomasini, L.; Faure, B.

2017-12-01

Satellites of the ESA Swarm mission currently in operation carry a new generation of Absolute Scalar Magnetometers (ASM), which nominally deliver 1 Hz scalar for calibrating the relative flux gate magnetometers that complete the magnetometry payload (together with star cameras, STR, for attitude restitution) and providing extremely accurate scalar measurements of the magnetic field for science investigations. These ASM instruments, however, can also operate in two additional modes, a high-frequency 250 Hz scalar mode and a 1 Hz absolute dual-purpose scalar/vector mode. The 250 Hz scalar mode already allowed the detection of until now very poorly documented extremely low frequency whistler signals produced by lightning in the atmosphere, while the 1 Hz scalar/vector mode has provided data that, combined with attitude restitution from the STR, could be used to produce scientifically relevant core field and lithospheric field models. Both ASM modes have thus now been fully validated for science applications. Efforts towards developing an improved and miniaturized version of this instrument is now well under way with CNES support in the context of the preparation of a 12U nanosatellite mission (NanoMagSat) proposed to be launched to complement the Swarm satellite constellation. This advanced miniaturized ASM could potentially operate in an even more useful mode, simultaneously providing high frequency (possibly beyond 500 Hz) absolute scalar data and self-calibrated 1 Hz vector data, thus providing scientifically valuable data for multiple science applications. In this presentation, we will illustrate the science such an instrument taken on board a nanosatellite could enable, and report on the current status of the NanoMagSat project that intends to take advantage of it.

Merging Adverse Outcome Pathway (AOP) and Mode of Action (MOA) Frameworks: Assembling Knowledge for Use in Risk Assessment

EPA Science Inventory

The Adverse Outcome Pathway has emerged as an internationally harmonized mechanism for organizing biological information in a chemical agnostic manner. This construct is valuable for interpreting the results from high-throughput toxicity (HTT) assessment by providing a mechanisti...

Developing and applying the adverse outcome pathway concept for understanding and predicting neurotoxicity

EPA Science Inventory

To support a paradigm shift in regulatory toxicology testing and risk assessment, the Adverse Outcome Pathway (AOP) concept has recently been proposed. This concept is similar to that for Mode of Action (MOA), describing a sequence of measurable key events triggered by a molecula...

Coherent perfect absorption and laser modes in a cylindrical structure of conjugate metamaterials

NASA Astrophysics Data System (ADS)

Fu, Yangyang; Xu, Yadong; Chen, Huanyang; Cummer, Steven A.

2018-01-01

In this work, we theoretically find that coherent perfect absorption (CPA) and laser modes can be realized in a two-dimensional cylindrical structure composed of conjugate metamaterials (CMs). The required phase factors of CMs for achieving CPA and laser modes are determined by the geometric size of the CM cylinder, which is a unique feature compared with other non-Hermitian optical systems. Based on this property, we also demonstrate that CPA and laser modes can exist simultaneously in a CM cylinder with an extremely large size, where the excitations of CPA and laser modes depend on the angular momentum of coherent incident light. Therefore, compared with the well known parity time symmetry, our work opens up a brand-new path to obtaining CPA and laser modes, and is a significant advance in non-Hermitian optical systems.

Characterization of photomultiplier tubes in a novel operation mode for Secondary Emission Ionization Calorimetry

NASA Astrophysics Data System (ADS)

Tiras, E.; Dilsiz, K.; Ogul, H.; Southwick, D.; Bilki, B.; Wetzel, J.; Nachtman, J.; Onel, Y.; Winn, D.

2016-10-01

Hamamatsu single anode R7761 and multi-anode R5900-00-M16 Photomultiplier Tubes have been characterized for use in a Secondary Emission (SE) Ionization Calorimetry study. SE Ionization Calorimetry is a novel technique to measure electromagnetic shower particles in extreme radiation environments. The different operation modes used in these tests were developed by modifying the conventional PMT bias circuit. These modifications were simple changes to the arrangement of the voltage dividers of the baseboard circuits. The PMTs with modified bases, referred to as operating in SE mode, are used as an SE detector module in an SE calorimeter prototype, and placed between absorber materials (Fe, Cu, Pb, W, etc.). Here, the technical design of different operation modes, as well as the characterization measurements of both SE modes and the conventional PMT mode are reported.

Did BICEP2 see vector modes? First B-mode constraints on cosmic defects.

PubMed

Moss, Adam; Pogosian, Levon

2014-05-02

Scaling networks of cosmic defects, such as strings and textures, actively generate scalar, vector, and tensor metric perturbations throughout the history of the Universe. In particular, vector modes sourced by defects are an efficient source of the cosmic microwave background B-mode polarization. We use the recently released BICEP2 and POLARBEAR B-mode polarization spectra to constrain properties of a wide range of different types of cosmic strings networks. We find that in order for strings to provide a satisfactory fit on their own, the effective interstring distance needs to be extremely large--spectra that fit the data best are more representative of global strings and textures. When a local string contribution is considered together with the inflationary B-mode spectrum, the fit is improved. We discuss implications of these results for theories that predict cosmic defects.

Early tetrapod evolution and the progressive integration of Permo-Carboniferous terrestrial ecosystems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Beerbower, J.R.; Olson, E.C.; Hotton, N. III

1992-01-01

Variation among Permo-Carboniferous tetrapod assemblages demonstrates major transformations in pathways and rates of energy and nutrient transfer, in integration of terrestrial ecosystems and in predominant ecologic modes. Early Carboniferous pathways were through plant detritus to aquatic and terrestrial detritivores and thence to arthropod and vertebrate meso-and macro-predators. Transfer rates (and efficiency) were low as was ecosystem integration; the principal ecologic mode was conservation. Late Carboniferous and Early Permian assemblages demonstrate an expansion in herbivory, primarily in utilization of low-fiber plant tissue by insects. But transfer rates, efficiency and integration were still limited because the larger portion of plant biomass, high-fibermore » tissues, still went into detrital pathways; high-fiber'' herbivores, i.e., tetrapods, were neither abundant or diverse, reflecting limited resources, intense predation and limited capabilities for processing fiber-rich food. The abundance and diversity of tetrapod herbivores in upper Permian assemblages suggests a considerable transfer of energy from high-fiber tissues through these animals to tetrapod predators and thus higher transfer rates and efficiencies. It also brought a shift in ecological mode toward acquisition and regulation and tightened ecosystem integration.« less

Global resilience analysis of water distribution systems.

PubMed

Diao, Kegong; Sweetapple, Chris; Farmani, Raziyeh; Fu, Guangtao; Ward, Sarah; Butler, David

2016-12-01

Evaluating and enhancing resilience in water infrastructure is a crucial step towards more sustainable urban water management. As a prerequisite to enhancing resilience, a detailed understanding is required of the inherent resilience of the underlying system. Differing from traditional risk analysis, here we propose a global resilience analysis (GRA) approach that shifts the objective from analysing multiple and unknown threats to analysing the more identifiable and measurable system responses to extreme conditions, i.e. potential failure modes. GRA aims to evaluate a system's resilience to a possible failure mode regardless of the causal threat(s) (known or unknown, external or internal). The method is applied to test the resilience of four water distribution systems (WDSs) with various features to three typical failure modes (pipe failure, excess demand, and substance intrusion). The study reveals GRA provides an overview of a water system's resilience to various failure modes. For each failure mode, it identifies the range of corresponding failure impacts and reveals extreme scenarios (e.g. the complete loss of water supply with only 5% pipe failure, or still meeting 80% of demand despite over 70% of pipes failing). GRA also reveals that increased resilience to one failure mode may decrease resilience to another and increasing system capacity may delay the system's recovery in some situations. It is also shown that selecting an appropriate level of detail for hydraulic models is of great importance in resilience analysis. The method can be used as a comprehensive diagnostic framework to evaluate a range of interventions for improving system resilience in future studies. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

Interannual hydroclimatic variability and the 2009-2011 extreme ENSO phases in Colombia: from Andean glaciers to Caribbean lowlands

NASA Astrophysics Data System (ADS)

Bedoya-Soto, Juan Mauricio; Poveda, Germán; Trenberth, Kevin E.; Vélez-Upegui, Jorge Julián

2018-03-01

During 2009-2011, Colombia experienced extreme hydroclimatic events associated with the extreme phases of El Niño-Southern Oscillation (ENSO). Here, we study the dynamics of diverse land-atmosphere phenomena involved in such anomalous events at continental, regional, and local scales. Standardized anomalies of precipitation, 2-m temperature, total column water (TCW), volumetric soil water (VSW), temperature at 925 hPa, surface sensible heat (SSH), latent heat (SLH), evaporation (EVP), and liquid water equivalent thickness (LWET) are analyzed to assess atmosphere-land controls and relationships over tropical South America (TropSA) during 1986-2013 (long term) and 2009-2011 (ENSO extreme phases). An assessment of the interannual covariability between precipitation and 2-m temperature is performed using singular value decomposition (SVD) to identify the dominant spatiotemporal modes of hydroclimatic variability over the region's largest river basins (Amazon, Orinoco, Tocantins, Magdalena-Cauca, and Essequibo). ENSO, its evolution in time, and strong and consistent spatial structures emerge as the dominant mode of variability. In situ anomalies during both extreme phases of ENSO 2009-2011 over the Magdalena-Cauca River basins are linked at the continental scale. The ENSO-driven hydroclimatic effects extend from the diurnal cycle to interannual timescales, as reflected in temperature data from tropical glaciers and the rain-snow boundary in the highest peaks of the Central Andes of Colombia to river levels along the Caribbean lowlands of the Magdalena-Cauca River basin.

The role of angular momentum in the superrotor theory for rovibrational motion of extremely flexible molecules

NASA Astrophysics Data System (ADS)

Schmiedt, Hanno; Jensen, Per; Schlemmer, Stephan

2017-12-01

Recently, we proposed a novel approach to the description of the rotation-vibration motion for extremely flexible molecules (Schmiedt et al., 2016, 2017). Such molecules have multiple very "soft" vibrational modes and so, they lack a well-defined equilibrium structure. We have applied the new superrotor model to the prototype example of an extremely flexible molecule, CH5+, for which we combine two, essentially free vibrational modes (describing internal rotation) with the over-all rotation of the molecule and consider the resulting motion as a free rotation in five-dimensional space, with a Hamiltonian whose symmetry is described by SO(5), the five-dimensional rotation group. In the present work we discuss the correlation between the superrotor energies and those obtained in the more usual situation of the internal and over-all rotations being separable, and we give an initial discussion of the selection rules for electric dipole transitions obtained in the superrotor approach. Such selection rules are required for a detailed comparison between the superrotor predictions and the available, experimentally derived energy spacings (Asvany et al., 2015; Brackertz, 2016).

Parallel Histories of Horizontal Gene Transfer Facilitated Extreme Reduction of Endosymbiont Genomes in Sap-Feeding Insects

PubMed Central

Sloan, Daniel B.; Nakabachi, Atsushi; Richards, Stephen; Qu, Jiaxin; Murali, Shwetha Canchi; Gibbs, Richard A.; Moran, Nancy A.

2014-01-01

Bacteria confined to intracellular environments experience extensive genome reduction. In extreme cases, insect endosymbionts have evolved genomes that are so gene-poor that they blur the distinction between bacteria and endosymbiotically derived organelles such as mitochondria and plastids. To understand the host’s role in this extreme gene loss, we analyzed gene content and expression in the nuclear genome of the psyllid Pachypsylla venusta, a sap-feeding insect that harbors an ancient endosymbiont (Carsonella) with one of the most reduced bacterial genomes ever identified. Carsonella retains many genes required for synthesis of essential amino acids that are scarce in plant sap, but most of these biosynthetic pathways have been disrupted by gene loss. Host genes that are upregulated in psyllid cells housing Carsonella appear to compensate for endosymbiont gene losses, resulting in highly integrated metabolic pathways that mirror those observed in other sap-feeding insects. The host contribution to these pathways is mediated by a combination of native eukaryotic genes and bacterial genes that were horizontally transferred from multiple donor lineages early in the evolution of psyllids, including one gene that appears to have been directly acquired from Carsonella. By comparing the psyllid genome to a recent analysis of mealybugs, we found that a remarkably similar set of functional pathways have been shaped by independent transfers of bacterial genes to the two hosts. These results show that horizontal gene transfer is an important and recurring mechanism driving coevolution between insects and their bacterial endosymbionts and highlight interesting similarities and contrasts with the evolutionary history of mitochondria and plastids. PMID:24398322

A Model of the Pulsating Extremely Low-mass White Dwarf Precursor WASP 0247-25B

NASA Astrophysics Data System (ADS)

Istrate, A. G.; Fontaine, G.; Heuser, C.

2017-10-01

We present an analysis of the evolutionary and pulsation properties of the extremely low-mass white dwarf precursor (B) component of the double-lined eclipsing system WASP 0247-25. Given that the fundamental parameters of that star have been obtained previously at a unique level of precision, WASP 0247-25B represents the ideal case for testing evolutionary models of this newly found category of pulsators. Taking into account the known constraints on the mass, orbital period, effective temperature, surface gravity, and atmospheric composition, we present a model that is compatible with these constraints and show pulsation modes that have periods very close to the observed values. Importantly, these modes are predicted to be excited. Although the overall consistency remains perfectible, the observable properties of WASP 0247-25B are closely reproduced. A key ingredient of our binary evolutionary models is represented by rotational mixing as the main competitor against gravitational settling. Depending on assumptions made about the values of the degree index ℓ for the observed pulsation modes, we found three possible seismic solutions. We discuss two tests, rotational splitting and multicolor photometry, that should readily identify the modes and discriminate between these solutions. However, this will require improved temporal resolution and higher S/N observations, which are currently unavailable.

Three-year experience with neonatal ventilation from a tertiary care hospital in Delhi.

PubMed

Singh, M; Deorari, A K; Paul, V K; Mittal, M; Shanker, S; Munshi, U; Jain, Y

1993-06-01

Ninety neonates were ventilated over a period of 33 months of whom 50 (55.5%) survived. Fifty seven babies received IPPV while 33 CPAP. IPPV mode was being used more frequently recently and survival rates have steadily improved over past 3 years. Survival was cent per cent in babies above 1.5 kg on CPAP mode while 16/26 (57.7%) survived on IPPV mode. Of 22 extremely VLBW (< 1 kg) babies, six survived. HMD was the commonest indication of ventilation (50%), of which 53% (24/45) survived. The other important indications of ventilation were apnea in 13 and transient tachypnea in 11 babies. All babies requiring ventilation for transient tachypnea survived. Nosocomial infections were common in association with ventilation 34/90 (37.7%), out of which in 14 was responsible for about a third of deaths. Pulmonary air leaks developed in 12 babies of which 6 died. Two babies developed BPD and one ROP. Neonatal ventilation should be ventured in centres where basic facilities for level II care already exist. It may not be cost effective to ventilate extremely low birth weight neonates.

Neurophysiological model of the normal and abnormal human pupil

NASA Technical Reports Server (NTRS)

Krenz, W.; Robin, M.; Barez, S.; Stark, L.

1985-01-01

Anatomical, experimental, and computer simulation studies were used to determine the structure of the neurophysiological model of the pupil size control system. The computer simulation of this model demonstrates the role played by each of the elements in the neurological pathways influencing the size of the pupil. Simulations of the effect of drugs and common abnormalities in the system help to illustrate the workings of the pathways and processes involved. The simulation program allows the user to select pupil condition (normal or an abnormality), specific site along the neurological pathway (retina, hypothalamus, etc.) drug class input (barbiturate, narcotic, etc.), stimulus/response mode, display mode, stimulus type and input waveform, stimulus or background intensity and frequency, the input and output conditions, and the response at the neuroanatomical site. The model can be used as a teaching aid or as a tool for testing hypotheses regarding the system.

Transcriptional responses in the rat nasal epithelium following subchronic inhalation of naphthalene vapor

DOE Office of Scientific and Technical Information (OSTI.GOV)

Clewell, H.J., E-mail: hclewell@thehamner.org; Efremenko, A.; Campbell, J.L.

Male and female Fischer 344 rats were exposed to naphthalene vapors at 0 (controls), 0.1, 1, 10, and 30 ppm for 6 h/d, 5 d/wk, over a 90-day period. Following exposure, the respiratory epithelium and olfactory epithelium from the nasal cavity were dissected separately, RNA was isolated, and gene expression microarray analysis was conducted. Only a few significant gene expression changes were observed in the olfactory or respiratory epithelium of either gender at the lowest concentration (0.1 ppm). At the 1.0 ppm concentration there was limited evidence of an oxidative stress response in the respiratory epithelium, but not in themore » olfactory epithelium. In contrast, a large number of significantly enriched cellular pathway responses were observed in both tissues at the two highest concentrations (10 and 30 ppm, which correspond to tumorigenic concentrations in the NTP bioassay). The nature of these responses supports a mode of action involving oxidative stress, inflammation and proliferation. These results are consistent with a dose-dependent transition in the mode of action for naphthalene toxicity/carcinogenicity between 1.0 and 10 ppm in the rat. In the female olfactory epithelium (the gender/site with the highest incidences of neuroblastomas in the NTP bioassay), the lowest concentration at which any signaling pathway was significantly affected, as characterized by the median pathway benchmark dose (BMD) or its 95% lower bound (BMDL) was 6.0 or 3.7 ppm, respectively, while the lowest female olfactory BMD values for pathways related to glutathione homeostasis, inflammation, and proliferation were 16.1, 11.1, and 8.4 ppm, respectively. In the male respiratory epithelium (the gender/site with the highest incidences of adenomas in the NTP bioassay), the lowest pathway BMD and BMDL were 0.4 and 0.3 ppm, respectively, and the lowest male respiratory BMD values for pathways related to glutathione homeostasis, inflammation, and proliferation were 0.5, 0.7, and 0.9 ppm, respectively. Using a published physiologically based pharmacokinetic (PBPK) model to estimate target tissue dose relevant to the proposed mode of action (total naphthalene metabolism per gram nasal tissue), the lowest transcriptional BMDLs from this analysis equate to human continuous naphthalene exposure at approximately 0.3 ppm. It is unlikely that significant effects of naphthalene or its metabolites will occur at exposures below this concentration. - Highlights: • We investigated mode of action for carcinogenicity of inhaled naphthalene in rats. • Gene expression changes were measured in rat nasal tissues after 90 day exposures. • Support a non-linear mode of action (oxidative stress, inflammation, and proliferation) • Suggest a dose-dependent transition in the mode of action between 1.0 and 10 ppm • Transcriptional benchmark doses could inform point of departure for risk assessment.« less

Phonon Transport at Crystalline Si/Ge Interfaces: The Role of Interfacial Modes of Vibration

PubMed Central

Gordiz, Kiarash; Henry, Asegun

2016-01-01

We studied the modal contributions to heat conduction at crystalline Si and crystalline Ge interfaces and found that more than 15% of the interface conductance arises from less than 0.1% of the modes in the structure. Using the recently developed interface conductance modal analysis (ICMA) method along with a new complimentary methodology, we mapped the correlations between modes, which revealed that a small group of interfacial modes, which exist between 12–13 THz, exhibit extremely strong correlation with other modes in the system. It is found that these interfacial modes (e.g., modes with large eigen vectors for interfacial atoms) are enabled by the degree of anharmonicity near the interface, which is higher than in the bulk, and therefore allows this small group of modes to couple to all others. The analysis sheds light on the nature of localized vibrations at interfaces and can be enlightening for other investigations of localization. PMID:26979787

Thermally controlled comb generation and soliton modelocking in microresonators.

PubMed

Joshi, Chaitanya; Jang, Jae K; Luke, Kevin; Ji, Xingchen; Miller, Steven A; Klenner, Alexander; Okawachi, Yoshitomo; Lipson, Michal; Gaeta, Alexander L

2016-06-01

We report, to the best of our knowledge, the first demonstration of thermally controlled soliton mode-locked frequency comb generation in microresonators. By controlling the electric current through heaters integrated with silicon nitride microresonators, we demonstrate a systematic and repeatable pathway to single- and multi-soliton mode-locked states without adjusting the pump laser wavelength. Such an approach could greatly simplify the generation of mode-locked frequency combs and facilitate applications such as chip-based dual-comb spectroscopy.

Defense Science Board Task Force on Military Satellite Communication and Tactical Networking. Executive Summary

DTIC Science & Technology

2017-03-01

Communications SMC Space and Missile Systems Center SEV Space Enterprise Vision SHF Super High Frequency SINCGARS Single Channel Ground-Air Radio...Appendix D:Acronyms A2/AD Anti-Access/Area Denial ADNS Automated Digital Network System AEHF Advanced Extremely High Frequency AFSPC Air Force Space ...medium-rate modes of defense extremely high frequency (EHF) SATCOM. This reality should be considered a crisis to be dealt with immediately. In

Climate extremes, land–climate feedbacks and land-use forcing at 1.5°C

PubMed Central

Wartenburger, Richard; Guillod, Benoit P.; Hirsch, Annette L.; Vogel, Martha M.; Brovkin, Victor; van Vuuren, Detlef P.; Schaller, Nathalie; Boysen, Lena; Calvin, Katherine V.; Doelman, Jonathan; Greve, Peter; Havlik, Petr; Humpenöder, Florian; Krisztin, Tamas; Mitchell, Daniel; Popp, Alexander; Riahi, Keywan; Rogelj, Joeri; Schleussner, Carl-Friedrich; Sillmann, Jana; Stehfest, Elke

2018-01-01

This article investigates projected changes in temperature and water cycle extremes at 1.5°C of global warming, and highlights the role of land processes and land-use changes (LUCs) for these projections. We provide new comparisons of changes in climate at 1.5°C versus 2°C based on empirical sampling analyses of transient simulations versus simulations from the ‘Half a degree Additional warming, Prognosis and Projected Impacts’ (HAPPI) multi-model experiment. The two approaches yield similar overall results regarding changes in climate extremes on land, and reveal a substantial difference in the occurrence of regional extremes at 1.5°C versus 2°C. Land processes mediated through soil moisture feedbacks and land-use forcing play a major role for projected changes in extremes at 1.5°C in most mid-latitude regions, including densely populated areas in North America, Europe and Asia. This has important implications for low-emissions scenarios derived from integrated assessment models (IAMs), which include major LUCs in ambitious mitigation pathways (e.g. associated with increased bioenergy use), but are also shown to differ in the simulated LUC patterns. Biogeophysical effects from LUCs are not considered in the development of IAM scenarios, but play an important role for projected regional changes in climate extremes, and are thus of high relevance for sustainable development pathways. This article is part of the theme issue ‘The Paris Agreement: understanding the physical and social challenges for a warming world of 1.5°C above pre-industrial levels'. PMID:29610382

Climate extremes, land-climate feedbacks and land-use forcing at 1.5°C.

PubMed

Seneviratne, Sonia I; Wartenburger, Richard; Guillod, Benoit P; Hirsch, Annette L; Vogel, Martha M; Brovkin, Victor; van Vuuren, Detlef P; Schaller, Nathalie; Boysen, Lena; Calvin, Katherine V; Doelman, Jonathan; Greve, Peter; Havlik, Petr; Humpenöder, Florian; Krisztin, Tamas; Mitchell, Daniel; Popp, Alexander; Riahi, Keywan; Rogelj, Joeri; Schleussner, Carl-Friedrich; Sillmann, Jana; Stehfest, Elke

2018-05-13

This article investigates projected changes in temperature and water cycle extremes at 1.5°C of global warming, and highlights the role of land processes and land-use changes (LUCs) for these projections. We provide new comparisons of changes in climate at 1.5°C versus 2°C based on empirical sampling analyses of transient simulations versus simulations from the 'Half a degree Additional warming, Prognosis and Projected Impacts' (HAPPI) multi-model experiment. The two approaches yield similar overall results regarding changes in climate extremes on land, and reveal a substantial difference in the occurrence of regional extremes at 1.5°C versus 2°C. Land processes mediated through soil moisture feedbacks and land-use forcing play a major role for projected changes in extremes at 1.5°C in most mid-latitude regions, including densely populated areas in North America, Europe and Asia. This has important implications for low-emissions scenarios derived from integrated assessment models (IAMs), which include major LUCs in ambitious mitigation pathways (e.g. associated with increased bioenergy use), but are also shown to differ in the simulated LUC patterns. Biogeophysical effects from LUCs are not considered in the development of IAM scenarios, but play an important role for projected regional changes in climate extremes, and are thus of high relevance for sustainable development pathways.This article is part of the theme issue 'The Paris Agreement: understanding the physical and social challenges for a warming world of 1.5°C above pre-industrial levels'. © 2018 The Authors.

Climate extremes, land-climate feedbacks and land-use forcing at 1.5°C

NASA Astrophysics Data System (ADS)

Seneviratne, Sonia I.; Wartenburger, Richard; Guillod, Benoit P.; Hirsch, Annette L.; Vogel, Martha M.; Brovkin, Victor; van Vuuren, Detlef P.; Schaller, Nathalie; Boysen, Lena; Calvin, Katherine V.; Doelman, Jonathan; Greve, Peter; Havlik, Petr; Humpenöder, Florian; Krisztin, Tamas; Mitchell, Daniel; Popp, Alexander; Riahi, Keywan; Rogelj, Joeri; Schleussner, Carl-Friedrich; Sillmann, Jana; Stehfest, Elke

2018-05-01

This article investigates projected changes in temperature and water cycle extremes at 1.5°C of global warming, and highlights the role of land processes and land-use changes (LUCs) for these projections. We provide new comparisons of changes in climate at 1.5°C versus 2°C based on empirical sampling analyses of transient simulations versus simulations from the `Half a degree Additional warming, Prognosis and Projected Impacts' (HAPPI) multi-model experiment. The two approaches yield similar overall results regarding changes in climate extremes on land, and reveal a substantial difference in the occurrence of regional extremes at 1.5°C versus 2°C. Land processes mediated through soil moisture feedbacks and land-use forcing play a major role for projected changes in extremes at 1.5°C in most mid-latitude regions, including densely populated areas in North America, Europe and Asia. This has important implications for low-emissions scenarios derived from integrated assessment models (IAMs), which include major LUCs in ambitious mitigation pathways (e.g. associated with increased bioenergy use), but are also shown to differ in the simulated LUC patterns. Biogeophysical effects from LUCs are not considered in the development of IAM scenarios, but play an important role for projected regional changes in climate extremes, and are thus of high relevance for sustainable development pathways. This article is part of the theme issue `The Paris Agreement: understanding the physical and social challenges for a warming world of 1.5°C above pre-industrial levels'.

Spectral-structural characteristics of the extremely scarce silver arsenic sulfosalts, proustite, smithite, trechmannite and xanthoconite: μ-Raman spectroscopy evidence

NASA Astrophysics Data System (ADS)

Kharbish, S.

2017-04-01

The spectral - structural features of the rare silver arsenic (Ag-As) sulfosalts, proustite, Ag3AsS3, and the extremely scarce smithite, AgAsS2, trechmannite, AgAsS2 and xanthoconite, Ag3AsS3, were studied by the μ-Raman technique. Stretching - bending vibrations of the pyramidal isolated and interconnected AsS3 groups were responsible for the Raman spectra of the studied sulfosalts. The symmetric and asymmetric stretching modes appear between 380 and 350 cm- 1, whereas those of bending (Ssbnd Assbnd S) vibrations between 335 and 280 cm- 1. The Assbnd S longer bond lengths absolutely demonstrate the red shift (i.e. decrease in energy) from xanthoconite to trechmannite, smithite and proustite and the lowering in FWHM in comparable vibrational modes.

Modes of failure in disordered solids

NASA Astrophysics Data System (ADS)

Roy, Subhadeep; Biswas, Soumyajyoti; Ray, Purusattam

2017-12-01

The two principal ingredients determining the failure modes of disordered solids are the strength of heterogeneity and the length scale of the region affected in the solid following a local failure. While the latter facilitates damage nucleation, the former leads to diffused damage—the two extreme natures of the failure modes. In this study, using the random fiber bundle model as a prototype for disordered solids, we classify all failure modes that are the results of interplay between these two effects. We obtain scaling criteria for the different modes and propose a general phase diagram that provides a framework for understanding previous theoretical and experimental attempts of interpolation between these modes. As the fiber bundle model is a long-standing model for interpreting various features of stressed disordered solids, the general phase diagram can serve as a guiding principle in anticipating the responses of disordered solids in general.

Stability properties and fast ion confinement of hybrid tokamak plasma configurations

NASA Astrophysics Data System (ADS)

Graves, J. P.; Brunetti, D.; Pfefferle, D.; Faustin, J. M. P.; Cooper, W. A.; Kleiner, A.; Lanthaler, S.; Patten, H. W.; Raghunathan, M.

2015-11-01

In hybrid scenarios with flat q just above unity, extremely fast growing tearing modes are born from toroidal sidebands of the near resonant ideal internal kink mode. New scalings of the growth rate with the magnetic Reynolds number arise from two fluid effects and sheared toroidal flow. Non-linear saturated 1/1 dominant modes obtained from initial value stability calculation agree with the amplitude of the 1/1 component of a 3D VMEC equilibrium calculation. Viable and realistic equilibrium representation of such internal kink modes allow fast ion studies to be accurately established. Calculations of MAST neutral beam ion distributions using the VENUS-LEVIS code show very good agreement of observed impaired core fast ion confinement when long lived modes occur. The 3D ICRH code SCENIC also enables the establishment of minority RF distributions in hybrid plasmas susceptible to saturated near resonant internal kink modes.

A review on ductile mode cutting of brittle materials

NASA Astrophysics Data System (ADS)

Antwi, Elijah Kwabena; Liu, Kui; Wang, Hao

2018-06-01

Brittle materials have been widely employed for industrial applications due to their excellent mechanical, optical, physical and chemical properties. But obtaining smooth and damage-free surface on brittle materials by traditional machining methods like grinding, lapping and polishing is very costly and extremely time consuming. Ductile mode cutting is a very promising way to achieve high quality and crack-free surfaces of brittle materials. Thus the study of ductile mode cutting of brittle materials has been attracting more and more efforts. This paper provides an overview of ductile mode cutting of brittle materials including ductile nature and plasticity of brittle materials, cutting mechanism, cutting characteristics, molecular dynamic simulation, critical undeformed chip thickness, brittle-ductile transition, subsurface damage, as well as a detailed discussion of ductile mode cutting enhancement. It is believed that ductile mode cutting of brittle materials could be achieved when both crack-free and no subsurface damage are obtained simultaneously.

Final Technical Report for DE-SC0005467

DOE Office of Scientific and Technical Information (OSTI.GOV)

Broccoli, Anthony J.

2014-09-14

The objective of this project is to gain a comprehensive understanding of the key atmospheric mechanisms and physical processes associated with temperature extremes in order to better interpret and constrain uncertainty in climate model simulations of future extreme temperatures. To achieve this objective, we first used climate observations and a reanalysis product to identify the key atmospheric circulation patterns associated with extreme temperature days over North America during the late twentieth century. We found that temperature extremes were associated with distinctive signatures in near-surface and mid-tropospheric circulation. The orientations and spatial scales of these circulation anomalies vary with latitude, season,more » and proximity to important geographic features such as mountains and coastlines. We next examined the associations between daily and monthly temperature extremes and large-scale, recurrent modes of climate variability, including the Pacific-North American (PNA) pattern, the northern annular mode (NAM), and the El Niño-Southern Oscillation (ENSO). The strength of the associations are strongest with the PNA and NAM and weaker for ENSO, and also depend upon season, time scale, and location. The associations are stronger in winter than summer, stronger for monthly than daily extremes, and stronger in the vicinity of the centers of action of the PNA and NAM patterns. In the final stage of this project, we compared climate model simulations of the circulation patterns associated with extreme temperature days over North America with those obtained from observations. Using a variety of metrics and self-organizing maps, we found the multi-model ensemble and the majority of individual models from phase 5 of the Coupled Model Intercomparison Project (CMIP5) generally capture the observed patterns well, including their strength and as well as variations with latitude and season. The results from this project indicate that current models are capable of simulating the large-scale meteorological patterns associated with daily temperature extremes and they suggest that such models can be used to evaluate the extent to which changes in atmospheric circulation will influence future changes in temperature extremes.« less

Global gene expression and Ingenuity biological functions analysis on PCBs 153 and 138 induced human PBMC in vitro reveals differential mode(s) of action in developing toxicities.

PubMed

Ghosh, Somiranjan; Zang, Shizhu; Mitra, Partha S; Ghimbovschi, Svetlana; Hoffman, Eric P; Dutta, Sisir K

2011-07-01

Several reports have indicated that low level of polychlorinated biphenyl (PCB) exposure can adversely affect a multitude of physiological disorders and diseases in in vitro, in vivo, and as reported in epidemiological studies. This investigation is focused on the possible contribution of two most prevalent PCB congeners in vitro in developing toxicities. We used PCBs 138 and 153 at the human equivalence level as model agents to test their specificity in developing toxicities. We chose a global approach using oligonucleotide microarray technology to investigate modulated gene expression for biological effects, upon exposure of PCBs, followed by Ingenuity Pathway Analysis (IPA), to understand the underlying consequence in developing disease and disorders. We performed in vitro studies with human peripheral blood mononuclear cells (PBMC), where PBMC cells were exposed to respective PCBs for 48 h. Overall, our observation on gene expression indicated that PCB produces a unique signature affecting different pathways, specific for each congener. While analyzing these data through IPA, the prominent and interesting disease and disorders were neurological disease, cancer, cardiovascular disease, respiratory disease, as well as endocrine system disorders, genetic disorders, and reproductive system disease. They showed strong resemblances with in vitro, in vivo, and in the epidemiological studies. A distinct difference was observed in renal and urological diseases, organisimal injury and abnormalities, dental disease, ophthalmic disease, and psychological disorders, which are only revealed by PCB 138 exposure, but not in PCB 153. The present study emphasizes the challenges of global gene expression in vitro and was correlated with the results of exposed human population. The microarray results give a molecular mechanistic insight and functional effects, following PCB exposure. The extent of changes in genes related to several possible mode(s) of action highlights the changes in cellular functions and signaling pathways that play major roles. In addition to understanding the pathways related to mode of action for chemicals, these data could lead to the identification of genomic signatures that could be used for screening of chemicals for their potential to cause disease and developmental disorders. Copyright © 2011 Elsevier Ltd. All rights reserved.

Mode of action for reproductive and hepatic toxicity inferred from a genomic study of triazole antifungals.

PubMed

Goetz, Amber K; Dix, David J

2009-08-01

The mode of action for the reproductive toxicity of some triazole antifungals has been characterized as an increase in serum testosterone and hepatic response, and reduced insemination and fertility indices. In order to refine our mechanistic understanding of these potential modes of action, gene expression profiling was conducted on liver and testis from male Wistar Han IGS rats exposed to myclobutanil (500, 2000 ppm), propiconazole (500, 2500 ppm), or triadimefon (500, 1800 ppm) from gestation day six to postnatal day 92. Gene expression profiles indicated that all three triazoles significantly perturbed the fatty acid, steroid, and xenobiotic metabolism pathways in the male rat liver. In addition, triadimefon modulated expression of genes in the liver from the sterol biosynthesis pathway. Although expression of individual genes were affected, there were no common pathways modulated by all three triazoles in the testis. The pathways identified in the liver included numerous genes involved in phase I-III metabolism (Aldh1a1, Cyp1a1, Cyp2b2, Cyp3a1, Cyp3a2, Slco1a4, Udpgtr2), fatty acid metabolism (Cyp4a10, Pcx, Ppap2b), and steroid metabolism (Ugt1a1, Ugt2a1) for which expression was altered by the triazoles. These differentially expressed genes form part of a network involving lipid, sterol, and steroid homeostatic pathways regulated by the constitutive androstane (CAR), pregnane X (PXR), peroxisome proliferator-activated alpha, and other nuclear receptors in liver. These relatively high dose and long-term exposures to triazole antifungals appeared to perturb fatty acid and steroid metabolism in the male rat liver predominantly through the CAR and PXR signaling pathways. These toxicogenomic effects describe a plausible series of key events contributing to the disruption in steroid homeostasis and reproductive toxicity of select triazole antifungals.

White matter anisotropy in the ventral language pathway predicts sound-to-word learning success

PubMed Central

Wong, Francis C. K.; Chandrasekaran, Bharath; Garibaldi, Kyla; Wong, Patrick C. M.

2011-01-01

According to the dual stream model of auditory language processing, the dorsal stream is responsible for mapping sound to articulation while the ventral stream plays the role of mapping sound to meaning. Most researchers agree that the arcuate fasciculus (AF) is the neuroanatomical correlate of the dorsal steam, however, less is known about what constitutes the ventral one. Nevertheless two hypotheses exist, one suggests that the segment of the AF that terminates in middle temporal gyrus corresponds to the ventral stream and the other suggests that it is the extreme capsule that underlies this sound to meaning pathway. The goal of this study is to evaluate these two competing hypotheses. We trained participants with a sound-to-word learning paradigm in which they learned to use a foreign phonetic contrast for signaling word meaning. Using diffusion tensor imaging (DTI), a brain imaging tool to investigate white matter connectivity in humans, we found that fractional anisotropy in the left parietal-temporal region positively correlated with the performance in sound-to-word learning. In addition, fiber tracking revealed a ventral pathway, composed of the extreme capsule and the inferior longitudinal fasciculus, that mediated auditory comprehension. Our findings provide converging evidence supporting the importance of the ventral steam, an extreme capsule system, in the frontal-temporal language network. Implications for current models of speech processing will also be discussed. PMID:21677162

Genome Wide Association Study of Sepsis in Extremely Premature Infants

PubMed Central

Srinivasan, Lakshmi; Page, Grier; Kirpalani, Haresh; Murray, Jeffrey C.; Das, Abhik; Higgins, Rosemary D.; Carlo, Waldemar A.; Bell, Edward F.; Goldberg, Ronald N.; Schibler, Kurt; Sood, Beena G.; Stevenson, David K.; Stoll, Barbara J.; Van Meurs, Krisa P.; Johnson, Karen J.; Levy, Joshua; McDonald, Scott A.; Zaterka-Baxter, Kristin M.; Kennedy, Kathleen A.; Sánchez, Pablo J.; Duara, Shahnaz; Walsh, Michele C.; Shankaran, Seetha; Wynn, James L.; Cotten, C. Michael

2017-01-01

Objective To identify genetic variants associated with sepsis (early and late-onset) using a genome wide association (GWA) analysis in a cohort of extremely premature infants. Study Design Previously generated GWA data from the Neonatal Research Network’s anonymized genomic database biorepository of extremely premature infants were used for this study. Sepsis was defined as culture-positive early-onset or late-onset sepsis or culture-proven meningitis. Genomic and whole genome amplified DNA was genotyped for 1.2 million single nucleotide polymorphisms (SNPs); 91% of SNPs were successfully genotyped. We imputed 7.2 million additional SNPs. P values and false discovery rates were calculated from multivariate logistic regression analysis adjusting for gender, gestational age and ancestry. Target statistical value was p<10−5. Secondary analyses assessed associations of SNPs with pathogen type. Pathway analyses were also run on primary and secondary end points. Results Data from 757 extremely premature infants were included: 351 infants with sepsis and 406 infants without sepsis. No SNPs reached genome-wide significance levels (5×10−8); two SNPs in proximity to FOXC2 and FOXL1 genes achieved target levels of significance. In secondary analyses, SNPs for ELMO1, IRAK2 (Gram positive sepsis), RALA, IMMP2L (Gram negative sepsis) and PIEZO2 (fungal sepsis) met target significance levels. Pathways associated with sepsis and Gram negative sepsis included gap junctions, fibroblast growth factor receptors, regulators of cell division and Interleukin-1 associated receptor kinase 2 (p values<0.001 and FDR<20%). Conclusions No SNPs met genome-wide significance in this cohort of ELBW infants; however, areas of potential association and pathways meriting further study were identified. PMID:28283553

Metagenomic Analysis of Hot Springs in Central India Reveals Hydrocarbon Degrading Thermophiles and Pathways Essential for Survival in Extreme Environments.

PubMed

Saxena, Rituja; Dhakan, Darshan B; Mittal, Parul; Waiker, Prashant; Chowdhury, Anirban; Ghatak, Arundhuti; Sharma, Vineet K

2016-01-01

Extreme ecosystems such as hot springs are of great interest as a source of novel extremophilic species, enzymes, metabolic functions for survival and biotechnological products. India harbors hundreds of hot springs, the majority of which are not yet explored and require comprehensive studies to unravel their unknown and untapped phylogenetic and functional diversity. The aim of this study was to perform a large-scale metagenomic analysis of three major hot springs located in central India namely, Badi Anhoni, Chhoti Anhoni, and Tattapani at two geographically distinct regions (Anhoni and Tattapani), to uncover the resident microbial community and their metabolic traits. Samples were collected from seven distinct sites of the three hot spring locations with temperature ranging from 43.5 to 98°C. The 16S rRNA gene amplicon sequencing of V3 hypervariable region and shotgun metagenome sequencing uncovered a unique taxonomic and metabolic diversity of the resident thermophilic microbial community in these hot springs. Genes associated with hydrocarbon degradation pathways, such as benzoate, xylene, toluene, and benzene were observed to be abundant in the Anhoni hot springs (43.5-55°C), dominated by Pseudomonas stutzeri and Acidovorax sp., suggesting the presence of chemoorganotrophic thermophilic community with the ability to utilize complex hydrocarbons as a source of energy. A high abundance of genes belonging to methane metabolism pathway was observed at Chhoti Anhoni hot spring, where methane is reported to constitute >80% of all the emitted gases, which was marked by the high abundance of Methylococcus capsulatus . The Tattapani hot spring, with a high-temperature range (61.5-98°C), displayed a lower microbial diversity and was primarily dominated by a nitrate-reducing archaeal species Pyrobaculum aerophilum . A higher abundance of cell metabolism pathways essential for the microbial survival in extreme conditions was observed at Tattapani. Taken together, the results of this study reveal a novel consortium of microbes, genes, and pathways associated with the hot spring environment.

On the Bimodality of ENSO Cycle Extremes

NASA Technical Reports Server (NTRS)

Wilson, Robert M.

1999-01-01

On the basis of sea surface temperature in the Nino 3.4 region (5 deg N-5 deg S, 120 deg- 170 deg W) during the interval of 1950-1997, Kevin Trenberth previously has identified some 16 El Nino and 10 La Nina, these 26 events representing the extremes of the quasi-periodic El Nino-Southern Oscillation (ENSO) cycle. Runs testing shows that the duration and recurrence period associated with these extremes vary randomly, as does the sequencing of the extremes. Hence, the frequency of occurrence of these events during the 1990s, especially, for El Nino should not be construed as being significantly different from that of previous epochs. Additionally, the distribution of duration for both El Nino and La Nina looks bimodal, consisting of two preferred modes - about 8 and 16 months in length for El Nino and about 9 and 18 months in length for La Nina. Likewise, the distribution of recurrence period, especially, for El Nino looks bimodal, consisting of two preferred modes - about 21 and 50 months in length. Scatter plots of the recurrence period versus duration for El Nino strongly suggest preferential associations between them, linking shorter (longer) duration with shorter (longer) recurrence period. Because the last known onset of El Nino occurred in April 1997 and the event was of longer than average duration, one infers that the onset of the next expected El Nino will not occur until February 2000 or later.

On the Bimodality of ENSO Cycle Extremes

NASA Technical Reports Server (NTRS)

Wilson, Robert M.

2000-01-01

On the basis of sea surface temperature in the El Nino 3.4 region (5 deg. N.,-5 deg. S., 120-170 deg. W.) during the interval of 1950-1997, Kevin Trenberth previously has identified some 16 El Nino and 10 La Nina, these 26 events representing the extremes of the quasi-periodic El Nino-Southern Oscillation (ENSO) cycle. Runs testing shows that the duration, recurrence period, and sequencing of these extremes vary randomly. Hence, the decade of the 1990's, especially for El Nino, is not significantly different from that of previous decadal epochs, at least, on the basis of the frequency of onsets of ENSO extremes. Additionally, the distribution of duration for both El Nino and La Nina looks strikingly bimodal, each consisting of two preferred modes, about 8- and 16-mo long for El Nino and about 9- and 18-mo long for La Nina, as does the distribution of the recurrence period for El Nino, consisting of two preferred modes about 21- and 50-mo long. Scatterplots of the recurrence period versus duration for El Nino are found to be statistically important, displaying preferential associations that link shorter (longer) duration with shorter (longer) recurrence periods. Because the last onset of El Nino occurred in April 1997 and the event was of longer than average duration, onset of the next anticipated El Nino is not expected until February 2000 or later.

On The Bimodality of ENSO Cycle Extremes

NASA Technical Reports Server (NTRS)

Wilson, Robert M.

2000-01-01

On the basis of sea surface temperature in the El Nino 3.4 region (5N.-5S., 120-170W.) during the interval of 1950-1997, Kevin Trenberth previously has identified some 16 El Nino and 10 La Nina, these 26 events representing the extremes of the quasi-periodic El Nino-Southern Oscillation (ENSO) cycle. Runs testing shows that the duration, recurrence period, and sequencing of these extremes vary randomly. Hence, the decade of the 1990's, especially for El Nino, is not significantly different from that of previous decadal epochs, at least, on the basis of the frequency of onsets of ENSO extremes. Additionally, the distribution of duration for both El Nino and La Nina looks strikingly bimodal, each consisting of two preferred modes, about 8- and 16-months long for El Nino and about 9- and 18-months long for La Nina, as does the distribution of the recurrence period for El Nino, consisting of two preferred modes about 21- and 50- mo long. Scatterplots of the recurrence period versus duration for El Nino are found to be statistically important, displaying preferential associations that link shorter (longer) duration with shorter (longer) recurrence periods. Because the last onset of El Nino occurred in April 1997 and the event was of longer than average duration, onset of the next anticipated El Nino is not expected until February 2000 or later.

Selection of experimental modal data sets for damage detection via model update

NASA Technical Reports Server (NTRS)

Doebling, S. W.; Hemez, F. M.; Barlow, M. S.; Peterson, L. D.; Farhat, C.

1993-01-01

When using a finite element model update algorithm for detecting damage in structures, it is important that the experimental modal data sets used in the update be selected in a coherent manner. In the case of a structure with extremely localized modal behavior, it is necessary to use both low and high frequency modes, but many of the modes in between may be excluded. In this paper, we examine two different mode selection strategies based on modal strain energy, and compare their success to the choice of an equal number of modes based merely on lowest frequency. Additionally, some parameters are introduced to enable a quantitative assessment of the success of our damage detection algorithm when using the various set selection criteria.

Long-term reactions of plants and macroinvertebrates to extreme floods in floodplain grasslands.

PubMed

Ilg, Christiane; Dziock, Frank; Foeckler, Francis; Follner, Klaus; Gerisch, Michael; Glaeser, Judith; Rink, Anke; Schanowski, Arno; Scholz, Mathias; Deichner, Oskar; Henle, Klaus

2008-09-01

Extreme summertime flood events are expected to become more frequent in European rivers due to climate change. In temperate areas, where winter floods are common, extreme floods occurring in summer, a period of high physiological activity, may seriously impact floodplain ecosystems. Here we report on the effects of the 2002 extreme summer flood on flora and fauna of the riverine grasslands of the Middle Elbe (Germany), comparing pre- and post-flooding data collected by identical methods. Plants, mollusks, and carabid beetles differed considerably in their response in terms of abundance and diversity. Plants and mollusks, displaying morphological and behavioral adaptations to flooding, showed higher survival rates than the carabid beetles, the adaptation strategies of which were mainly linked to life history. Our results illustrate the complexity of responses of floodplain organisms to extreme flood events. They demonstrate that the efficiency of resistance and resilience strategies is widely dependent on the mode of adaptation.

Multicolor Photometry and Time-resolved Spectroscopy of Two sdBV Stars

NASA Astrophysics Data System (ADS)

Reed, M. D.; O'Toole, S. J.; Telting, J. H.; Østensen, R. H.; Heber, U.; Barlow, B. N.; Reichart, D. E.; Nysewander, M. C.; LaCluyze, A. P.; Ivarsen, K. M.; Haislip, J. B.; Bean, J.

2012-03-01

Observational mode constraints have mostly been lacking for short period pulsating sdB stars, yet such identifications are vital to constrain models. Time-resolved spectroscopy and multicolor photometry have been employed with mixed results for short-period pulsating sdB stars. Time-resolved spectroscopy has successfully measured radial velocity, temperature, and gravity variations in six pulsators, yet interpreting results is far from straightforward. Multicolor photometry requires extremely high precision to discern between low-degree modes, yet has been used effectively to eliminate high-degree modes. Combining radial velocity (RV) and multicolor measurements has also been shown as an effective means of constraining mode identifications. We present preliminary results for Feige 48 and EC 01541-1409 using both time-resolved spectroscopy and multicolor photometry and an initial examination of their pulsation modes using the atmospheric codes BRUCE and KYLIE.

Pathways of nitrogen loss following land clearing in a humid tropical forest

NASA Technical Reports Server (NTRS)

Matson, Pamela; Vitousek, Peter

1985-01-01

Tropical deforestation generally leads to large losses of carbon and nitrogen. The Premontane Wet Forest Life Zone is subject to the highest rate of deforestation in Central America, and carbon and nutrient losses in from these fertile soils is very rapid and extreme. Losses of 2000 to 3000 kgN/ha have been reported. Losses of this magnitude could be extremely significant on a regional or global scale if even a small proportion of this nitrogen is lost as nitrous oxide to the atmosphere or through leaching of nitrate to rivers. This study seeks to measure the rates and regulation of nitrogen transformations, and the pathways of nitrogen losses following land clearing and burning at a site in the Premontane Wet Forest Life Zone near Turrialba, Costa Rica.

Cellular and molecular pathways of extremely-low-frequency electromagnetic field interactions with living systems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tenforde, T.S.

1992-06-01

There is growing evidence that environmental electric and magnetic fields in the extremely-low-frequency (ELF) band below 300 Hz can influence biological functions by mechanisms that are only poorly understood at the present time. The primary objectives of this paper are to review the physical properties of ELF fields, their interactions with living systems at the tissue, cellular, and subcellular levels, and the key role of cell membranes ;in the transduction of signals from imposed ELF fields. Topics of discussion include signal-to-noise ratios for single cells and cell aggregates, resonance phenomena involving a combination of static and ELF magnetic fields, andmore » the possible influence of ELF fields on molecular signaling pathways that involve membrane receptors and cytoplasmic second messengers.« less

Dynamical systems proxies of atmospheric predictability and mid-latitude extremes

NASA Astrophysics Data System (ADS)

Messori, Gabriele; Faranda, Davide; Caballero, Rodrigo; Yiou, Pascal

2017-04-01

Extreme weather ocurrences carry enormous social and economic costs and routinely garner widespread scientific and media coverage. Many extremes (for e.g. storms, heatwaves, cold spells, heavy precipitation) are tied to specific patterns of midlatitude atmospheric circulation. The ability to identify these patterns and use them to enhance the predictability of the extremes is therefore a topic of crucial societal and economic value. We propose a novel predictability pathway for extreme events, by building upon recent advances in dynamical systems theory. We use two simple dynamical systems metrics - local dimension and persistence - to identify sets of similar large-scale atmospheric flow patterns which present a coherent temporal evolution. When these patterns correspond to weather extremes, they therefore afford a particularly good forward predictability. We specifically test this technique on European winter temperatures, whose variability largely depends on the atmospheric circulation in the North Atlantic region. We find that our dynamical systems approach provides predictability of large-scale temperature extremes up to one week in advance.

The effects of two different ganoderma species (Lingzhi) on gene expression in human monocytic THP-1 cells.

PubMed

Cheng, Chun-Huai; Leung, Albert Y; Chen, Chin-Fu

2010-01-01

Lingzhi (ganoderma) is an important woody mushroom that is known for its medicinal benefits in China since ancient times. The mode of action in humans is still not clear. Using microarray technology, we have compared the ethanol extracts of two different lingzhi (red lingzhi, G. lucidum; and purple lingzhi, G. sinense) for their effects on gene expression profile in human monocytic cells. Our results suggest that at best approximately 25% of target genes are common to the two lingzhi: functionally ranging from cell development, negative regulation of cellular process, and cellular protein metabolic process to signal transduction and transcription. The pathways mediated by purple lingzhi focus on inflammation and immune response, whereas red lingzhi modestly increases levels of expression for genes involved in macromolecule metabolism. Furthermore, our ethanolic extracts of both red and purple lingzhi do not inhibit monocytic cell growth. The extract of red lingzhi does not have significant effect on the genes in the nuclear factor kappa B (NFkappaB) pathway (an important inflammation pathway), whereas the extract of purple lingzhi can increase multiple key genes in the NFkappaB pathway. Altogether, our results suggest that the common mode of action for lingzhi is complex; and different species of Ganoderma can modulate different pathways in human cells.

Splenium Development and Early Spoken Language in Human Infants

ERIC Educational Resources Information Center

Swanson, Meghan R.; Wolff, Jason J.; Elison, Jed T.; Gu, Hongbin; Hazlett, Heather C.; Botteron, Kelly; Styner, Martin; Paterson, Sarah; Gerig, Guido; Constantino, John; Dager, Stephen; Estes, Annette; Vachet, Clement; Piven, Joseph

2017-01-01

The association between developmental trajectories of language-related white matter fiber pathways from 6 to 24 months of age and individual differences in language production at 24 months of age was investigated. The splenium of the corpus callosum, a fiber pathway projecting through the posterior hub of the default mode network to occipital…

The J-Staff System, Network Synchronisation and Noise

DTIC Science & Technology

2014-06-01

GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) 5d. PROJECT NUMBER 5e. TASK NUMBER 5f. WORK UNIT NUMBER 7. PERFORMING ORGANIZATION NAME(S... work . A key challenge of such structures is their tendency to fall into extreme dynamical modes. One is a ‘two-speed’ mode, where units interacting with...longer term planning, led by the J5 Planning Branch, fall into a slow cycle of work , while those entities interacting predominately with operations

Management Information Systems Design Implications: The Effect of Cognitive Style and Information Presentation on Problem Solving.

DTIC Science & Technology

1987-12-01

my thesis advisor, Dr Dennis E Campbell. Without his expert advice and extreme patience with an INTP like myself, this research would not have been...research was to identify a relationship between psychological type and mode of presentation of information. The * type theory developed ty Carl Jung and...preference rankings for seven differewnt modes of presentation of data. The statistical analyses showed no relationship betveen personality type and

A Model of the Pulsating Extremely Low-mass White Dwarf Precursor WASP 0247–25B

DOE Office of Scientific and Technical Information (OSTI.GOV)

Istrate, A. G.; Fontaine, G.; Heuser, C., E-mail: istrate@uwm.edu

We present an analysis of the evolutionary and pulsation properties of the extremely low-mass white dwarf precursor (B) component of the double-lined eclipsing system WASP 0247−25. Given that the fundamental parameters of that star have been obtained previously at a unique level of precision, WASP 0247−25B represents the ideal case for testing evolutionary models of this newly found category of pulsators. Taking into account the known constraints on the mass, orbital period, effective temperature, surface gravity, and atmospheric composition, we present a model that is compatible with these constraints and show pulsation modes that have periods very close to themore » observed values. Importantly, these modes are predicted to be excited. Although the overall consistency remains perfectible, the observable properties of WASP 0247−25B are closely reproduced. A key ingredient of our binary evolutionary models is represented by rotational mixing as the main competitor against gravitational settling. Depending on assumptions made about the values of the degree index ℓ for the observed pulsation modes, we found three possible seismic solutions. We discuss two tests, rotational splitting and multicolor photometry, that should readily identify the modes and discriminate between these solutions. However, this will require improved temporal resolution and higher S/N observations, which are currently unavailable.« less

Einstein-Podolsky-Rosen steering and Bell nonlocality of two macroscopic mechanical oscillators in optomechanical systems

NASA Astrophysics Data System (ADS)

Li, Jie; Zhu, Shi-Yao

2017-12-01

We investigate under which conditions quantum nonlocal manifestations such as Einstein-Podolsky-Rosen steering or Bell nonlocality can manifest themselves even at the macroscopic level of two mechanical resonators in optomechanical systems. We adopt the powerful scheme of reservoir engineering, implemented by driving a cavity mode with a properly chosen two-tone field, to prepare two mechanical oscillators in an entangled state. We show that large and robust (both one-way and two-way) steering could be achieved in the steady state with realistic parameters. We analyze the mechanism of the asymmetric nature of steering in our system of a two-mode Gaussian state. However, unlike steering, a Bell nonlocality is present under much more stringent conditions. We consider two types of measurements, displaced parity and on-off detection, respectively. We show that for both the measurements the Bell violation requires very low environmental temperature. For the parity detection, a large Bell violation is observed only in the transient state when the mechanical modes decouple from the optical mode and with extremely small cavity losses and mechanical damping. However, for the on-off detection, a moderate Bell violation is found in the steady state and is robust against cavity losses and mechanical damping. Although a Bell violation with parity detection seems extremely challenging to demonstrate experimentally, the conditions required for violating Bell inequalities with the on-off detection are much less demanding.

White matter integrity deficits in prefrontal-amygdala pathways in Williams syndrome.

PubMed

Avery, Suzanne N; Thornton-Wells, Tricia A; Anderson, Adam W; Blackford, Jennifer Urbano

2012-01-16

Williams syndrome is a neurodevelopmental disorder associated with significant non-social fears. Consistent with this elevated non-social fear, individuals with Williams syndrome have an abnormally elevated amygdala response when viewing threatening non-social stimuli. In typically-developing individuals, amygdala activity is inhibited through dense, reciprocal white matter connections with the prefrontal cortex. Neuroimaging studies suggest a functional uncoupling of normal prefrontal-amygdala inhibition in individuals with Williams syndrome, which might underlie both the extreme amygdala activity and non-social fears. This functional uncoupling might be caused by structural deficits in underlying white matter pathways; however, prefrontal-amygdala white matter deficits have yet to be explored in Williams syndrome. We used diffusion tensor imaging to investigate prefrontal-amygdala white matter integrity differences in individuals with Williams syndrome and typically-developing controls with high levels of non-social fear. White matter pathways between the amygdala and several prefrontal regions were isolated using probabilistic tractography. Within each pathway, we tested for between-group differences in three measures of white matter integrity: fractional anisotropy (FA), radial diffusivity (RD), and parallel diffusivity (λ(1)). Individuals with Williams syndrome had lower FA, compared to controls, in several of the prefrontal-amygdala pathways investigated, indicating a reduction in white matter integrity. Lower FA in Williams syndrome was explained by significantly higher RD, with no differences in λ(1), suggestive of lower fiber density or axon myelination in prefrontal-amygdala pathways. These results suggest that deficits in the structural integrity of prefrontal-amygdala white matter pathways might underlie the increased amygdala activity and extreme non-social fears observed in Williams syndrome. Copyright © 2011 Elsevier Inc. All rights reserved.

Revealing Extremely Low Energy Amplitude Modes in the Charge-Density-Wave Compound LaAgSb_{2}.

PubMed

Chen, R Y; Zhang, S J; Zhang, M Y; Dong, T; Wang, N L

2017-03-10

Using infrared spectroscopy and ultrafast pump probe measurement, we have studied the two charge-density-wave (CDW) instabilities in the layered compound LaAgSb_{2}. The development of CDW energy gaps was clearly observed by optical spectroscopy, which removed most of the free carrier spectral weight. More interestingly, our time-resolved measurements revealed two coherent oscillations that softened by approaching the two phase transition temperatures, respectively. We addressed that these two oscillations come from the amplitude modes of CDW collective excitations, the surprisingly low energies (0.12 THz and 0.34 THz for the higher and lower temperature ones, respectively) of which are associated with the extremely small nesting wave vectors. Additionally, the amplitude and relaxation time of photoinduced reflectivity of LaAgSb_{2} single crystals stayed unchanged across the CDW phase transitions, which is quite rare and deserves further investigation.

Guide to Surgical Specialists

MedlinePlus

... also treat problems affecting the eye and its structures, the eyelids, the orbit, the visual pathway, and ... and function of the extremities, spine, and associated structures by medical, surgical, and physical means. Specialized care ...

Pathway Based Toxicology and Fit-for-Purpose Assays.

PubMed

Clewell, Rebecca A; McMullen, Patrick D; Adeleye, Yeyejide; Carmichael, Paul L; Andersen, Melvin E

The field of toxicity testing for non-pharmaceutical chemicals is in flux with multiple initiatives in North America and the EU to move away from animal testing to mode-of-action based in vitro assays. In this arena, there are still obstacles to overcome, such as developing appropriate cellular assays, creating pathway-based dose-response models and refining in vitro-in vivo extrapolation (IVIVE) tools. Overall, it is necessary to provide assurances that these new approaches are adequately protective of human and ecological health. Another major challenge for individual scientists and regulatory agencies is developing a cultural willingness to shed old biases developed around animal tests and become more comfortable with mode-of-action based assays in human cells. At present, most initiatives focus on developing in vitro alternatives and assessing how well these alternative methods reproduce past results related to predicting organism level toxicity in intact animals. The path forward requires looking beyond benchmarking against high dose animal studies. We need to develop targeted cellular assays, new cell biology-based extrapolation models for assessing regions of safety for chemical exposures in human populations, and mode-of-action-based approaches which are constructed on an understanding of human biology. Furthermore, it is essential that assay developers have the flexibility to 'validate' against the most appropriate mode-of-action data rather than against apical endpoints in high dose animal studies. This chapter demonstrates the principles of fit-for-purpose assay development using pathway-targeted case studies. The projects include p53-mdm2-mediated DNA-repair, estrogen receptor-mediated cell proliferation and PPARα receptor-mediated liver responses.

Abnormal brain activation in neurofibromatosis type 1: a link between visual processing and the default mode network.

PubMed

Violante, Inês R; Ribeiro, Maria J; Cunha, Gil; Bernardino, Inês; Duarte, João V; Ramos, Fabiana; Saraiva, Jorge; Silva, Eduardo; Castelo-Branco, Miguel

2012-01-01

Neurofibromatosis type 1 (NF1) is one of the most common single gene disorders affecting the human nervous system with a high incidence of cognitive deficits, particularly visuospatial. Nevertheless, neurophysiological alterations in low-level visual processing that could be relevant to explain the cognitive phenotype are poorly understood. Here we used functional magnetic resonance imaging (fMRI) to study early cortical visual pathways in children and adults with NF1. We employed two distinct stimulus types differing in contrast and spatial and temporal frequencies to evoke relatively different activation of the magnocellular (M) and parvocellular (P) pathways. Hemodynamic responses were investigated in retinotopically-defined regions V1, V2 and V3 and then over the acquired cortical volume. Relative to matched control subjects, patients with NF1 showed deficient activation of the low-level visual cortex to both stimulus types. Importantly, this finding was observed for children and adults with NF1, indicating that low-level visual processing deficits do not ameliorate with age. Moreover, only during M-biased stimulation patients with NF1 failed to deactivate or even activated anterior and posterior midline regions of the default mode network. The observation that the magnocellular visual pathway is impaired in NF1 in early visual processing and is specifically associated with a deficient deactivation of the default mode network may provide a neural explanation for high-order cognitive deficits present in NF1, particularly visuospatial and attentional. A link between magnocellular and default mode network processing may generalize to neuropsychiatric disorders where such deficits have been separately identified.

Evolution of newborn rapidly rotating magnetars: Effects of R-mode and fall-back accretion

NASA Astrophysics Data System (ADS)

Wang, Jie-Shuang; Dai, Zi-Gao

2017-06-01

In this paper we investigate effects of the r-mode instability on a newborn rapidly-rotating magnetar with fall-back accretion. Such a magnetar could usually occur in core-collapse supernovae and gamma-ray bursts. We find that the magnetar's spin and r-mode evolution are influenced by accretion. If the magnetar is sufficiently spun up to a few milliseconds, gravitational radiation leads to the growth of the r-mode amplitude significantly. The maximum r-mode amplitude reaches an order of 0.001 when the damping due to the growth of a toroidal magnetic field balances the growth of the r-mode amplitude. If such a sufficiently spun-up magnetar was located at a distance less than 1 Mpc, then gravitational waves would be detectable by the Einstein Telescope but would have an extremely low event rate. However, if the spin-up is insufficient, the growth of the r-mode amplitude is mainly due to the accretion torque. In this case, the maximum r-mode amplitude is of the order of 10-6-10-5.

Seismic Analysis of Pulsating Subdwarf B Star EPIC 212508753 Using the K2 Mission

NASA Astrophysics Data System (ADS)

Crooke, John; Reed, Michael D.; Baran, Andrzej; Telting, John H.; Østensen, Roy H.

2018-01-01

EPIC 212508753 is a subdwarf B (hot horizontal branch, sdB) star which has been observed by the Kepler Space Telescope during its extended mission, K2, in short cadence mode where a new image is obtained roughly every minute for about 75 days. Using time series analysis of the data we have found the star to be a rare hybrid pulsator with both g- and p-mode pulsations where most of the pulsations are p modes. These pulsators are extremely important as p modes sample near the surface and g modes can sample deeper, near to the core. This means that hybrid pulsators allow us to characterize the entire star. The hotter, predominantly p-mode pulsators are rarer so that makes EPIC 212508753 particularly interesting for seismic study. In this poster we will present preliminary results of our analysis of K2 data. We have discovered frequency multiplets in both the p- and g-mode regions which we use to identify pulsation modes and determine that EPIC 212508753 rotates like a solid body, in contrast to some other sdB stars.

bcc-to-hcp transformation pathways for iron versus hydrostatic pressure: Coupled shuffle and shear modes

NASA Astrophysics Data System (ADS)

Liu, J. B.; Johnson, D. D.

2009-04-01

Using density-functional theory, we calculate the potential-energy surface (PES), minimum-energy pathway (MEP), and transition state (TS) versus hydrostatic pressure σhyd for the reconstructive transformation in Fe from body-centered cubic (bcc) to hexagonal closed-packed (hcp). At fixed σhyd , the PES is described by coupled shear (γ) and shuffle (η) modes and is determined from structurally minimized hcp-bcc energy differences at a set of (η,γ) . We fit the PES using symmetry-adapted polynomials, permitting the MEP to be found analytically. The MEP is continuous and fully explains the transformation and its associated magnetization and volume discontinuity at TS. We show that σhyd (while not able to induce shear) dramatically alters the MEP to drive reconstruction by a shuffle-only mode at ≤30GPa , as observed. Finally, we relate our polynomial-based results to Landau and nudge-elastic-band approaches and show they yield incorrect MEP in general.

Problems in evaluating radiation dose via terrestrial and aquatic pathways.

PubMed Central

Vaughan, B E; Soldat, J K; Schreckhise, R G; Watson, E C; McKenzie, D H

1981-01-01

This review is concerned with exposure risk and the environmental pathways models used for predictive assessment of radiation dose. Exposure factors, the adequacy of available data, and the model subcomponents are critically reviewed from the standpoint of absolute error propagation. Although the models are inherently capable of better absolute accuracy, a calculated dose is usually overestimated by from two to six orders of magnitude, in practice. The principal reason for so large an error lies in using "generic" concentration ratios in situations where site specific data are needed. Major opinion of the model makers suggests a number midway between these extremes, with only a small likelihood of ever underestimating the radiation dose. Detailed evaluations are made of source considerations influencing dose (i.e., physical and chemical status of released material); dispersal mechanisms (atmospheric, hydrologic and biotic vector transport); mobilization and uptake mechanisms (i.e., chemical and other factors affecting the biological availability of radioelements); and critical pathways. Examples are shown of confounding in food-chain pathways, due to uncritical application of concentration ratios. Current thoughts of replacing the critical pathways approach to calculating dose with comprehensive model calculations are also shown to be ill-advised, given present limitations in the comprehensive data base. The pathways models may also require improved parametrization, as they are not at present structured adequately to lend themselves to validation. The extremely wide errors associated with predicting exposure stand in striking contrast to the error range associated with the extrapolation of animal effects data to the human being. PMID:7037381

Carry-over fluency induced by extreme prolongations: A new behavioral paradigm.

PubMed

Briley, P M; Barnes, M P; Kalinowski, J S

2016-04-01

Extreme prolongations, which can be generated via extreme delayed auditory feedback (DAF) (e.g., 250-500 ms) or mediated cognitively with timing applications (e.g., analog stopwatch) at 2 s per syllable, have long been behavioral techniques used to inhibit stuttering. Some therapies have used this rate solely to establish initial fluency, while others use extremely slowed speech to establish fluency and add other strategic techniques such as easy onsets and diaphragmatic breathing. Extreme prolongations generate effective, efficient, and immediate forward flowing fluent speech, removing the signature behaviors of discrete stuttering (i.e., syllable repetitions and audible and inaudible postural fixations). Prolonged use of extreme prolongations establishes carry-over fluency, which is spontaneous, effortless speech absent of most, if not all, overt and covert manifestations of stuttering. The creation of this immediate fluency and the immense potential of extreme prolongations to generate long periods of carry-over fluency have been overlooked by researchers and clinicians alike. Clinicians depart from these longer prolongation durations as they attempt to achieve the same fluent results at a near normal rate of speech. Clinicians assume they are re-teaching fluency and slow rates will give rise to more normal rates with less control, but without carry-over fluency, controls and cognitive mediation are always needed for the inherently unstable speech systems of persons who stutter to experience fluent speech. The assumption being that the speech system is untenable without some level of cognitive and motoric monitoring that is always necessary. The goal is omnipresent "near normal rate sounding fluency" with continuous mediation via cognitive and motoric processes. This pursuit of "normal sounding fluency" continues despite ever-present relapse. Relapse has become so common that acceptance of stuttering is the new therapy modality because relapse has come to be understood as somewhat inevitable. Researchers and clinicians fail to recognize that immediate amelioration of stuttering and its attendant carry-over fluency are signs of a different pathway to fluency. In this path, clinicians focus on extreme prolongations and the extent of their carry-over. While fluency is automatically generated under these extreme prolongations, the realization is that communication at this rate in routine speaking tasks is not feasible. The perceived solution is a systematic reduction in the duration of these prolongations, which attempts to approximate "normal speech." Typically, the reintroduction of speech at a normalized rate precipitates a laborious style that is undesirable to the person who stutters (PWS) and is discontinued, once departed from the comforts of the clinical setting. The inevitable typically occurs; the well-intentioned therapist instructs the PWS to focus on the techniques while speaking at a rate that is nearest normal speech, but the overlooked extreme prolongations are unlikely to ever be revisited. The foundation of this hypothesis is that the departure from fluency generators (e.g. extreme prolongations) is the cause of regression to the stuttering set point. In turn, we postulate that the continued use of extreme prolongations, as a solitary practice method, will establish and nurture different neural pathways that will create a modality of fluent speech, able to be experienced without cognitive or motoric mediation. This would therefore result in fewer occurrences of stuttering due to a phenomenon called carry-over fluency. Thus, we hypothesize that the use of extreme prolongations fosters neural pathways for fluent speech, which will result in carry-over fluency that does not require mediation by the speaker. Copyright © 2016 Elsevier Ltd. All rights reserved.

Measuring Transcription Factor–Binding Site Turnover: A Maximum Likelihood Approach Using Phylogenies

PubMed Central

Otto, Wolfgang; Stadler, Peter F.; López-Giraldéz, Francesc; Townsend, Jeffrey P.; Lynch, Vincent J.

2009-01-01

A major mode of gene expression evolution is based on changes in cis-regulatory elements (CREs) whose function critically depends on the presence of transcription factor–binding sites (TFBS). Because CREs experience extensive TFBS turnover even with conserved function, alignment-based studies of CRE sequence evolution are limited to very closely related species. Here, we propose an alternative approach based on a stochastic model of TFBS turnover. We implemented a maximum likelihood model that permits variable turnover rates in different parts of the species tree. This model can be used to detect changes in turnover rate as a proxy for differences in the selective pressures acting on TFBS in different clades. We applied this method to five TFBS in the fungi methionine biosynthesis pathway and three TFBS in the HoxA clusters of vertebrates. We find that the estimated turnover rate is generally high, with half-life ranging between ∼5 and 150 My and a mode around tens of millions of years. This rate is consistent with the finding that even functionally conserved enhancers can show very low sequence similarity. We also detect statistically significant differences in the equilibrium densities of estrogen- and progesterone-response elements in the HoxA clusters between mammal and nonmammal vertebrates. Even more extreme clade-specific differences were found in the fungal data. We conclude that stochastic models of TFBS turnover enable the detection of shifts in the selective pressures acting on CREs in different organisms. The analysis tool, called CRETO (Cis-Regulatory Element Turn-Over) can be downloaded from http://www.bioinf.uni-leipzig.de/Software/creto/. PMID:20333180

Critical exponents of extremal Kerr perturbations

NASA Astrophysics Data System (ADS)

Gralla, Samuel E.; Zimmerman, Peter

2018-05-01

We show that scalar, electromagnetic, and gravitational perturbations of extremal Kerr black holes are asymptotically self-similar under the near-horizon, late-time scaling symmetry of the background metric. This accounts for the Aretakis instability (growth of transverse derivatives) as a critical phenomenon associated with the emergent symmetry. We compute the critical exponent of each mode, which is equivalent to its decay rate. It follows from symmetry arguments that, despite the growth of transverse derivatives, all generally covariant scalar quantities decay to zero.

Extraordinary capabilities of optical devices incorporating guided-mode resonance gratings: application summary and recent examples

NASA Astrophysics Data System (ADS)

Magnusson, Robert; Yoon, Jae Woong; Amin, Mohammad Shyiq; Khaleque, Tanzina; Uddin, Mohammad Jalal

2014-03-01

For selected device concepts that are members of an evolving class of photonic devices enabled by guided-mode resonance (GMR) effects, we review physics of operation, design, fabrication, and characterization. We summarize the application potential of this field and provide new and emerging aspects. Our chosen examples include resonance elements with extremely wide reflection bands. Thus, in a multilevel structure with conformal germanium (Ge) films, reflectance exceeds 99% for spectral widths approaching 1100 nm. A simpler design, incorporating a partially etched single Ge layer on a glass substrate, exhibits a high-reflectance bandwidth close to 900 nm. We present a couple of interesting new device concepts enabled by GMRs coexisting with the Rayleigh anomaly. Our example Rayleigh reflector exhibits a wideband high-efficiency flattop spectrum and extremely rapid angular transitions. Moreover, we show that it is possible to fashion transmission filters by excitation of leaky resonant modes at the Rayleigh anomaly in a subwavelength nanograting. A unique transmission spectrum results, which is tightly delimited in angle and wavelength as experimentally demonstrated. We update our application list with new developments including GMR-based coherent perfect absorbers, multiparametric biosensors, and omnidirectional wideband absorbers.

Perinatal outcome and long-term follow-up of extremely low birth weight infants depending on the mode of delivery.

PubMed

Minguez-Milio, José Angel; Alcázar, Juan Luis; Aubá, María; Ruiz-Zambrana, Alvaro; Minguez, José

2011-10-01

To assess the effect of the mode of delivery (vaginal or cesarean section) on survival, morbidity, and long-term psychomotor development of extremely low birth weight (ELBW) infants. A longitudinal observational study including 138 ELBW infants (73 born by c-section and 65 vaginally) was conducted. We analyzed the survival and short-term morbidity. We also studied the long-term neurocognitive and motor development using the McCarthy Scales of Children's Abilities (MSCA). Mortality was significantly higher in newborns delivered vaginally (49.3%) than those delivered by c-section (23.1%). Newborns delivered vaginally had a higher incidence of retinopathy and peri-intraventricular hemorrhage (P-IVH). Children who died had lower gestational age at birth and lower birth weight. After multivariate analysis only birth weight, gestational age at birth and P-IVH were independently associated to mortality. Regarding the long-term evaluation (MSCA), we observed that children born by c-section had lower incidence of abnormal results. The mode of delivery does not affect survival. Cesarean section provides lower morbidity and better prognosis for neurodevelopment long-term outcome in ELBW infants.

Sliding Mode Tracking Control of a Wire-Driven Upper-Limb Rehabilitation Robot with Nonlinear Disturbance Observer.

PubMed

Niu, Jie; Yang, Qianqian; Wang, Xiaoyun; Song, Rong

2017-01-01

Robot-aided rehabilitation has become an important technology to restore and reinforce motor functions of patients with extremity impairment, whereas it can be extremely challenging to achieve satisfactory tracking performance due to uncertainties and disturbances during rehabilitation training. In this paper, a wire-driven rehabilitation robot that can work over a three-dimensional space is designed for upper-limb rehabilitation, and sliding mode control with nonlinear disturbance observer is designed for the robot to deal with the problem of unpredictable disturbances during robot-assisted training. Then, simulation and experiments of trajectory tracking are carried out to evaluate the performance of the system, the position errors, and the output forces of the designed control scheme are compared with those of the traditional sliding mode control (SMC) scheme. The results show that the designed control scheme can effectively reduce the tracking errors and chattering of the output forces as compared with the traditional SMC scheme, which indicates that the nonlinear disturbance observer can reduce the effect of unpredictable disturbances. The designed control scheme for the wire-driven rehabilitation robot has potential to assist patients with stroke in performing repetitive rehabilitation training.

Niclosamide is a proton carrier and targets acidic endosomes with broad antiviral effects.

PubMed

Jurgeit, Andreas; McDowell, Robert; Moese, Stefan; Meldrum, Eric; Schwendener, Reto; Greber, Urs F

2012-01-01

Viruses use a limited set of host pathways for infection. These pathways represent bona fide antiviral targets with low likelihood of viral resistance. We identified the salicylanilide niclosamide as a broad range antiviral agent targeting acidified endosomes. Niclosamide is approved for human use against helminthic infections, and has anti-neoplastic and antiviral effects. Its mode of action is unknown. Here, we show that niclosamide, which is a weak lipophilic acid inhibited infection with pH-dependent human rhinoviruses (HRV) and influenza virus. Structure-activity studies showed that antiviral efficacy and endolysosomal pH neutralization co-tracked, and acidification of the extracellular medium bypassed the virus entry block. Niclosamide did not affect the vacuolar H(+)-ATPase, but neutralized coated vesicles or synthetic liposomes, indicating a proton carrier mode-of-action independent of any protein target. This report demonstrates that physico-chemical interference with host pathways has broad range antiviral effects, and provides a proof of concept for the development of host-directed antivirals.

Cytidine derivatives as IspF inhibitors of Burkolderia pseudomallei

PubMed Central

Zhang, Zheng; Jakkaraju, Sriram; Blain, Joy; Gogol, Kenneth; Zhao, Lei; Hartley, Robert C.; Karlsson, Courtney A.; Staker, Bart L.; Stewart, Lance J.; Myler, Peter J.; Clare, Michael; Begley, Darren W.; Horn, James R.; Hagen, Timothy J

2013-01-01

Published biological data suggest that the methyl erythritol phosphate (MEP) pathway, a non-mevalonate isoprenoid biosynthetic pathway, is essential for certain bacteria and other infectious disease organisms. One highly conserved enzyme in the MEP pathway is 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (IspF). Fragment-bound complexes of IspF from Burkholderia pseudomallei were used to design and synthesize a series of molecules linking the cytidine moiety to different zinc pocket fragment binders. Testing by surface plasmon resonance (SPR) found one molecule in the series to possess binding affinity equal to that of cytidine diphosphate, despite lacking any metal-coordinating phosphate groups. Close inspection of the SPR data suggest different binding stoichiometries between IspF and test compounds. Crystallographic analysis shows important variations between the binding mode of one synthesized compound and the pose of the bound fragment from which it was designed. The binding modes of these molecules add to our structural knowledge base for IspF and suggest future refinements in this compound series. PMID:24157367

Anticipatory UPR Activation: A Protective Pathway and Target in Cancer

PubMed Central

Shapiro, David J.; Livezey, Mara; Yu, Liqun; Zheng, Xiaobin; Andruska, Neal

2016-01-01

The endoplasmic reticulum (EnR) stress sensor, the unfolded protein response (UPR), plays a key role in regulating intracellular protein homeostasis. The extensively studied reactive mode of UPR activation is characterized by unfolded protein, or other EnR stress, triggering UPR activation. Here we focus on the emerging anticipatory mode of UPR activation in which mitogenic steroid and peptide hormones and other effectors pre-activate the UPR and anticipate a future need for increased protein folding capacity. Mild UPR activation in breast cancer can be protective and contributes to antiestrogen resistance. Hyperactivation of the anticipatory UPR pathway in cancer cells with a small molecule converts it from cytoprotective to cytotoxic, highlighting its potential as a therapeutic target in estrogen receptor positive breast cancer. PMID:27354311

Time-resolved Spectroscopy and Multi-color Photometry Of The Pulsating and Short-period Binary Subdwarf B Star Feige 48

NASA Astrophysics Data System (ADS)

Reed, Mike; Baran, A.; O'Toole, S.

2012-05-01

Pulsating subdwarf B (sdB) stars can be used as probes of the helium fusing cores of horizontal branch stars. To probe these stars, asteroseismology must be able to observationally associate pulsation frequencies with modes. Time-resolved spectroscopy and multicolor photometry have been employed with mixed results for short-period pulsating sdB stars. Time-resolved spectroscopy has successfully measured radial velocity, temperature, and gravity variations in six pulsators, yet interpreting results is far from straightforward. Multicolor photometry requires extremely high precision to discern between low-degree modes, yet has been used effectively to eliminate high-degree modes. Combining RV and multicolor measurements has also been shows as an effective means of constraining mode identifications. I will present results for Feige 48 using both time-resolved spectroscopy and multicolor photometry and attempts to constrain their pulsation modes using the atmospheric codes BRUCE and KYLIE.

Hyperparametric effects in a whispering-gallery mode rutile dielectric resonator at liquid helium temperatures

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nand, Nitin R.; Goryachev, Maxim; Floch, Jean-Michel le

2014-10-07

We report the first observation of low power drive level sensitivity, hyperparametric amplification, and single-mode hyperparametric oscillations in a dielectric rutile whispering-gallery mode resonator at 4.2 K. The latter gives rise to a comb of sidebands at 19.756 GHz. Whereas, most frequency combs in the literature have been observed in optical systems using an ensemble of equally spaced modes in microresonators or fibers, the present work represents generation of a frequency comb using only a single-mode. The experimental observations are explained by an additional 1/2 degree-of-freedom originating from an intrinsic material nonlinearity at optical frequencies, which affects the microwave propertiesmore » due to the extremely low loss of rutile. Using a model based on lumped circuits, we demonstrate that the resonance between the photonic and material 1/2 degree-of-freedom, is responsible for the hyperparametric energy transfer in the system.« less

Predicting the Dominant Patterns of Subseasonal Variability of Wintertime Surface Air Temperature in Extratropical Northern Hemisphere

NASA Astrophysics Data System (ADS)

Lin, Hai

2018-05-01

Skillfully predicting persistent extreme temperature anomalies more than 10 days in advance remains a challenge although it is of great value to the society. Here the two leading modes of subseasonal variability of surface air temperature over the extratropical Northern Hemisphere in boreal winter are identified with pentad (5 days) averaged data. They are well separated geographically, dominating temperature variability in North America and Eurasia, respectively. There exists a two-pentad lagged correlation between these two modes, implying an intercontinental link of temperature variability. Forecast skill of these two modes is evaluated based on three operational subseasonal prediction models. The results show that useful forecasts of the Eurasian mode (EOF2) can be achieved four pentads in advance, which is more skillful than the North American mode (EOF1). EOF2 is found to benefit from the Madden-Julian Oscillation signal in the initial condition.

Chemical failure modes of AlQ3-based OLEDs: AlQ3 hydrolysis.

PubMed

Knox, John E; Halls, Mathew D; Hratchian, Hrant P; Schlegel, H Bernhard

2006-03-28

Tris(8-hydroxyquinoline)aluminum(III), AlQ3, is used in organic light-emitting diodes (OLEDs) as an electron-transport material and emitting layer. The reaction of AlQ3 with trace H2O has been implicated as a major failure pathway for AlQ3-based OLEDs. Hybrid density functional calculations have been carried out to characterize the hydrolysis of AlQ3. The thermochemical and atomistic details for this important reaction are reported for both the neutral and oxidized AlQ3/AlQ3+ systems. In support of experimental conclusions, the neutral hydrolysis reaction pathway is found to be a thermally activated process, having a classical barrier height of 24.2 kcal mol(-1). First-principles infrared and electronic absorption spectra are compared to further characterize AlQ3 and the hydrolysis pathway product, AlQ2OH. The activation energy for the cationic AlQ3 hydrolysis pathway is found to be 8.5 kcal mol(-1) lower than for the neutral reaction, which is significant since it suggests a role for charge imbalance in promoting chemical failure modes in OLED devices.

Millimeter wave experiment for ATS-F

NASA Technical Reports Server (NTRS)

Green, J. S.; Parisky, R. N.; Shapiro, S. S.

1973-01-01

A detailed description of spaceborne equipment is provided. The equipment consists of two transmitters radiating signals at 20 and 30 GHz from either U.S. coverage horn antennas or a narrow beam parabolic antenna. Three modes of operation are provided: a continuous wave mode, a multitone mode in which nine spectral lines having 180 MHz separation and spaced symmetrically about each carrier, and a communications mode in which communications signals from the main spacecraft transponder are modulated on the two carriers. Detailed performance attained in the flight/prototype model of the equipment is presented both under laboratory conditions and under environmental extremes. Provisions made for ensuring reliability in space operation are described. Also described the bench test equipment developed for use with the experiment, and a summary of the new technology is included.

Metaproteomics reveals differential modes of metabolic coupling among ubiquitous oxygen minimum zone microbes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hawley, Alyse K.; Brewer, Heather M.; Norbeck, Angela D.

2014-08-05

Oxygen minimum zones (OMZs) are intrinsic water column features arising from respiratory oxygen demand during organic matter degradation in stratified marine waters. Currently OMZs are expanding due to global climate change. This expansion alters marine ecosystem function and the productivity of fisheries due to habitat compression and changes in biogeochemical cycling leading to fixed nitrogen loss and greenhouse gas production. Here we use metaproteomics to chart spatial and temporal patterns of gene expression along defined redox gradients in a seasonally anoxic fjord, Saanich Inlet to better understand microbial community responses to OMZ expansion. The expression of metabolic pathway components formore » nitrification, anaerobic ammonium oxidation (anammox), denitrification and inorganic carbon fixation predominantly co-varied with abundance and distribution patterns of Thaumarchaeota, Nitrospira, Planctomycetes and SUP05/ARCTIC96BD-19 Gammaproteobacteria. Within these groups, pathways mediating inorganic carbon fixation and nitrogen and sulfur transformations were differentially expressed across the redoxcline. Nitrification and inorganic carbon fixation pathways affiliated with Thaumarchaeota dominated dysoxic waters and denitrification, sulfur-oxidation and inorganic carbon fixation pathways affiliated with SUP05 dominated suboxic and anoxic waters. Nitrite-oxidation and anammox pathways affiliated with Nitrospina and Planctomycetes respectively, also exhibited redox partitioning between dysoxic and suboxic waters. The differential expression of these pathways under changing water column redox conditions has quantitative implications for coupled biogeochemical cycling linking different modes of inorganic carbon fixation with distributed nitrogen and sulfur-based energy metabolism extensible to coastal and open ocean OMZs.« less

A mechanism of extreme growth and reliable signaling in sexually selected ornaments and weapons.

PubMed

Emlen, Douglas J; Warren, Ian A; Johns, Annika; Dworkin, Ian; Lavine, Laura Corley

2012-08-17

Many male animals wield ornaments or weapons of exaggerated proportions. We propose that increased cellular sensitivity to signaling through the insulin/insulin-like growth factor (IGF) pathway may be responsible for the extreme growth of these structures. We document how rhinoceros beetle horns, a sexually selected weapon, are more sensitive to nutrition and more responsive to perturbation of the insulin/IGF pathway than other body structures. We then illustrate how enhanced sensitivity to insulin/IGF signaling in a growing ornament or weapon would cause heightened condition sensitivity and increased variability in expression among individuals--critical properties of reliable signals of male quality. The possibility that reliable signaling arises as a by-product of the growth mechanism may explain why trait exaggeration has evolved so many different times in the context of sexual selection.

De Novo Transcriptome Sequencing and the Hypothetical Cold Response Mode of Saussurea involucrata in Extreme Cold Environments

PubMed Central

Li, Jin; Liu, Hailiang; Xia, Wenwen; Mu, Jianqiang; Feng, Yujie; Liu, Ruina; Yan, Panyao; Wang, Aiying; Lin, Zhongping; Guo, Yong; Zhu, Jianbo; Chen, Xianfeng

2017-01-01

Saussurea involucrata grows in high mountain areas covered by snow throughout the year. The temperature of this habitat can change drastically in one day. To gain a better understanding of the cold response signaling pathways and molecular metabolic reactions involved in cold stress tolerance, genome-wide transcriptional analyses were performed using RNA-Seq technologies. A total of 199,758 transcripts were assembled, producing 138,540 unigenes with 46.8 Gb clean data. Overall, 184,416 (92.32%) transcripts were successfully annotated. The 365 transcription factors identified (292 unigenes) belonged to 49 transcription factor families associated with cold stress responses. A total of 343 transcripts on the signal transduction (132 upregulated and 212 downregulated in at least any one of the conditions) were strongly affected by cold temperature, such as the CBL-interacting serine/threonine-protein kinase (CIPKs), receptor-like protein kinases, and protein kinases. The circadian rhythm pathway was activated by cold adaptation, which was necessary to endure the severe temperature changes within a day. There were 346 differentially expressed genes (DEGs) related to transport, of which 138 were upregulated and 22 were downregulated in at least any one of the conditions. Under cold stress conditions, transcriptional regulation, molecular transport, and signal transduction were involved in the adaptation to low temperature in S. involucrata. These findings contribute to our understanding of the adaptation of plants to harsh environments and the survival traits of S. involucrata. In addition, the present study provides insight into the molecular mechanisms of chilling and freezing tolerance. PMID:28590406

Navigating yeast genome maintenance with functional genomics.

PubMed

Measday, Vivien; Stirling, Peter C

2016-03-01

Maintenance of genome integrity is a fundamental requirement of all organisms. To address this, organisms have evolved extremely faithful modes of replication, DNA repair and chromosome segregation to combat the deleterious effects of an unstable genome. Nonetheless, a small amount of genome instability is the driver of evolutionary change and adaptation, and thus a low level of instability is permitted in populations. While defects in genome maintenance almost invariably reduce fitness in the short term, they can create an environment where beneficial mutations are more likely to occur. The importance of this fact is clearest in the development of human cancer, where genome instability is a well-established enabling characteristic of carcinogenesis. This raises the crucial question: what are the cellular pathways that promote genome maintenance and what are their mechanisms? Work in model organisms, in particular the yeast Saccharomyces cerevisiae, has provided the global foundations of genome maintenance mechanisms in eukaryotes. The development of pioneering genomic tools inS. cerevisiae, such as the systematic creation of mutants in all nonessential and essential genes, has enabled whole-genome approaches to identifying genes with roles in genome maintenance. Here, we review the extensive whole-genome approaches taken in yeast, with an emphasis on functional genomic screens, to understand the genetic basis of genome instability, highlighting a range of genetic and cytological screening modalities. By revealing the biological pathways and processes regulating genome integrity, these analyses contribute to the systems-level map of the yeast cell and inform studies of human disease, especially cancer. © The Author 2015. Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com.

Turbulent transport measurements with a laser Doppler velocimeter.

NASA Technical Reports Server (NTRS)

Edwards, R. V.; Angus, J. C.; Dunning, J. W., Jr.

1972-01-01

The power spectrum of phototube current from a laser Doppler velocimeter operating in the heterodyne mode has been computed. The spectral width and shape predicted by the theory are in agreement with experiment. For normal operating parameters the time-average spectrum contains information only for times shorter than the Lagrangian-integral time scale of the turbulence. To examine the long-time behavior, one must use either extremely small scattering angles, much-longer-wavelength radiation, or a different mode of signal analysis, e.g., FM detection.

Polarization rotation enhancement and scattering mechanisms in waveguide magnetophotonic crystals

NASA Astrophysics Data System (ADS)

Levy, Miguel; Li, Rong

2006-09-01

Intermodal coupling in photonic band gap optical channels in magnetic garnet films is found to leverage the nonreciprocal polarization rotation. Forward fundamental-mode to high-order mode backscattering yields the largest rotations. The underlying mechanism is traced to the dependence of the grating-coupling constant on the modal refractive index and profile of the propagating beam. Large changes in polarization near the band edges are observed in first and second orders. Extreme sensitivity to linear birefringence exists in second order.

Sliding Mode Control of Dynamic Voltage Restorer by Using a New Adaptive Reaching Law

NASA Astrophysics Data System (ADS)

Pandey, Achala; Agrawal, Rekha; Mandloi, Ravindra S.; Sarkar, Biswaroop

2017-12-01

This paper presents a new kind of adaptive reaching law for sliding mode control of Dynamic Voltage Restorer (DVR). Such an adaptive reaching law follows under-damped sinusoidal nature that causes the initial state to reach the sliding regime in extremely less time with negligible chattering. Moreover, it is robust in the sense the trajectory does not deviate from the sliding surface. This new approach is developed and successfully applied to DVR. The simulation results are presented that show its robustness.

Quantum key distribution over an installed multimode optical fiber local area network.

PubMed

Namekata, Naoto; Mori, Shigehiko; Inoue, Shuichiro

2005-12-12

We have investigated the possibility of a multimode fiber link for a quantum channel. Transmission of light in an extremely underfilled mode distribution promises a single-mode-like behavior in the multimode fiber. To demonstrate the performance of the fiber link we performed quantum key distribution, on the basis of the BB84 four-state protocol, over 550 m of an installed multimode optical fiber local area network, and the quantum-bit-error rate of 1.09 percent was achieved.

Superradiant instability of near extremal and extremal four-dimensional charged hairy black holes in anti-de Sitter spacetime

NASA Astrophysics Data System (ADS)

González, P. A.; Papantonopoulos, Eleftherios; Saavedra, Joel; Vásquez, Yerko

2017-03-01

We study the instability of near extremal and extremal four-dimensional anti-de Sitter charged hairy black holes to radial neutral massive and charged massless scalar field perturbations. We solve the scalar field equation by using the improved asymptotic iteration method and the time domain analysis, and we find the quasinormal frequencies. For the charged scalar perturbations, we find the superradiance condition by computing the reflection coefficient in the low-frequency limit, and we show that in the superradiance regime, which depends on the scalar hair charge, all modes of radial charged massless perturbations are unstable, indicating that the charged hairy black hole is superradiantly unstable. On the other hand, calculating the quasinormal frequencies of radial neutral scalar perturbations in this background, we find stability of the charged hairy black hole.

Tamm-plasmon and surface-plasmon hybrid-mode based refractometry in photonic bandgap structures.

PubMed

Das, Ritwick; Srivastava, Triranjita; Jha, Rajan

2014-02-15

The transverse magnetic (TM) polarized hybrid modes formed as a consequence of coupling between Tamm plasmon polariton (TM-TPP) mode and surface plasmon polariton (SPP) mode exhibit interesting dispersive features for realizing a highly sensitive and accurate surface plasmon resonance (SPR) sensor. We found that the TM-TPP modes, formed at the interface of distributed Bragg reflector and metal, are strongly dispersive as compared to SPP modes at optical frequencies. This causes an appreciably narrow interaction bandwidth between TM-TPP and SPP modes, which leads to highly accurate sensing. In addition, appropriate tailoring of dispersion characteristics of TM-TPP as well as SPP modes could ensure high sensitivity of a novel SPR platform. By suitably designing the Au/TiO₂/SiO₂-based geometry, we propose a TM-TPP/SPP hybrid-mode sensor and achieve a sensitivity ≥900  nm/RIU with high detection accuracy (≥30  μm⁻¹) for analyte refractive indices varying between 1.330 and 1.345 in 600-700 nm wavelength range. The possibility to achieve desired dispersive behavior in any spectral band makes the sensing configuration an extremely attractive candidate to design sensors depending on the availability of optical sources.

Seasonal precipitation extreme indices in mainland Portugal: trends and variability in the period 1941-2007

NASA Astrophysics Data System (ADS)

Santo, Fátima E.; Ramos, Alexandre M.; de Lima, M. Isabel P.; Trigo, Ricardo M.

2013-04-01

Changes in the precipitation regimes are expected to be accompanied by variations in the occurrence of extreme events, which in turn could be related to low frequency variability. The impact on the society and environment requires that the regional specificities are understood. For mainland Portugal, this work reports the results of the analysis of trends in selected precipitation indices calculated from daily precipitation data from 57 meteorological stations, recorded in the period 1941-2007; additionally we have also investigated the correlations between these indices and several modes of low frequency variability over the area. We focus on exploring regional differences and seasonal variations in the intensity, frequency and duration of extreme precipitation events. The precipitation indices were assessed at the seasonal scale and calculated at both the station and regional scales. Results sometimes highlight marked changes in seasonal precipitation and show that: i) trends in spring and autumn have opposite signals: statistically significant drying trends in the spring are accompanied by a reduction in precipitation extremes; in autumn, wetting trends are detected for all precipitation indices, although overall they are not significant at the 5% level; ii) there seems to be a tendency for a reduction in the duration of the rainy season; iii) the North Atlantic Oscillation (NAO) is the mode of variability that has the highest influence on precipitation extremes over mainland Portugal, particularly in the winter and autumn, and is one of the most important teleconnection patterns in all seasons. This work was partially supported by FEDER (Fundo Europeu de Desenvolvimento Regional) funds through the COMPETE (Programa Operacional Factores de Competitividade) and by national funds through FCT (Fundação para a Ciência e a Tecnologia, Portugal) through project STORMEx FCOMP-01-0124-FEDER-019524 (PTDC/AAC-CLI/121339/2010).

Extremal black holes in dynamical Chern-Simons gravity

NASA Astrophysics Data System (ADS)

McNees, Robert; Stein, Leo C.; Yunes, Nicolás

2016-12-01

Rapidly rotating black hole (BH) solutions in theories beyond general relativity (GR) play a key role in experimental gravity, as they allow us to compute observables in extreme spacetimes that deviate from the predictions of GR. Such solutions are often difficult to find in beyond-general-relativity theories due to the inclusion of additional fields that couple to the metric nonlinearly and non-minimally. In this paper, we consider rotating BH solutions in one such theory, dynamical Chern-Simons (dCS) gravity, where the Einstein-Hilbert action is modified by the introduction of a dynamical scalar field that couples to the metric through the Pontryagin density. We treat dCS gravity as an effective field theory and work in the decoupling limit, where corrections are treated as small perturbations from GR. We perturb about the maximally rotating Kerr solution, the so-called extremal limit, and develop mathematical insight into the analysis techniques needed to construct solutions for generic spin. First we find closed-form, analytic expressions for the extremal scalar field, and then determine the trace of the metric perturbation, giving both in terms of Legendre decompositions. Retaining only the first three and four modes in the Legendre representation of the scalar field and the trace, respectively, suffices to ensure a fidelity of over 99% relative to full numerical solutions. The leading-order mode in the Legendre expansion of the trace of the metric perturbation contains a logarithmic divergence at the extremal Kerr horizon, which is likely to be unimportant as it occurs inside the perturbed dCS horizon. The techniques employed here should enable the construction of analytic, closed-form expressions for the scalar field and metric perturbations on a background with arbitrary rotation.

Binding modes and pathway of RHPS4 to human telomeric G-quadruplex and duplex DNA probed by all-atom molecular dynamics simulations with explicit solvent.

PubMed

Mulholland, Kelly; Siddiquei, Farzana; Wu, Chun

2017-07-19

RHPS4, a potent binder to human telomeric DNA G-quadruplex, shows high efficacy in tumor cell growth inhibition. However, it's preferential binding to DNA G-quadruplex over DNA duplex (about 10 fold) remains to be improved toward its clinical application. A high resolution structure of the single-stranded telomeric DNA G-quadruplexes, or B-DNA duplex, in complex with RHPS4 is not available yet, and the binding nature of this ligand to these DNA forms remains to be elusive. In this study, we carried out 40 μs molecular dynamics binding simulations with a free ligand to decipher the binding pathway of RHPS4 to a DNA duplex and three G-quadruplex folders (parallel, antiparallel and hybrid) of the human telomeric DNA sequence. The most stable binding mode identified for the duplex, parallel, antiparallel and hybrid G-quadruplexes is an intercalation, bottom stacking, top intercalation and bottom intercalation mode, respectively. The intercalation mode with similar binding strength to both the duplex and the G-quadruplexes, explains the lack of binding selectivity of RHPS4 to the G-quadruplex form. Therefore, a ligand modification that destabilizes the duplex intercalation mode but stabilizes the G-quadruplex intercalation mode will improve the binding selectivity toward G-quadruplex. The intercalation mode of RHPS4 to both the duplex and the antiparallel and the hybrid G-quadruplex follows a base flipping-insertion mechanism rather than an open-insertion mechanism. The groove binding, the side binding and the intercalation with flipping out of base were observed to be intermediate states before the full intercalation state with paired bases.

High-throughput sequencing technology to reveal the composition and function of cecal microbiota in Dagu chicken.

PubMed

Xu, Yunhe; Yang, Huixin; Zhang, Lili; Su, Yuhong; Shi, Donghui; Xiao, Haidi; Tian, Yumin

2016-11-04

The chicken gut microbiota is an important and complicated ecosystem for the host. They play an important role in converting food into nutrient and energy. The coding capacity of microbiome vastly surpasses that of the host's genome, encoding biochemical pathways that the host has not developed. An optimal gut microbiota can increase agricultural productivity. This study aims to explore the composition and function of cecal microbiota in Dagu chicken under two feeding modes, free-range (outdoor, OD) and cage (indoor, ID) raising. Cecal samples were collected from 24 chickens across 4 groups (12-w OD, 12-w ID, 18-w OD, and 18-w ID). We performed high-throughput sequencing of the 16S rRNA genes V4 hypervariable regions to characterize the cecal microbiota of Dagu chicken and compare the difference of cecal microbiota between free-range and cage raising chickens. It was found that 34 special operational taxonomic units (OTUs) in OD groups and 4 special OTUs in ID groups. 24 phyla were shared by the 24 samples. Bacteroidetes was the most abundant phylum with the largest proportion, followed by Firmicutes and Proteobacteria. The OD groups showed a higher proportion of Bacteroidetes (>50 %) in cecum, but a lower Firmicutes/Bacteroidetes ratio in both 12-w old (0.42, 0.62) and 18-w old groups (0.37, 0.49) compared with the ID groups. Cecal microbiota in the OD groups have higher abundance of functions involved in amino acids and glycan metabolic pathway. The composition and function of cecal microbiota in Dagu chicken under two feeding modes, free-range and cage raising are different. The cage raising mode showed a lower proportion of Bacteroidetes in cecum, but a higher Firmicutes/Bacteroidetes ratio compared with free-range mode. Cecal microbiota in free-range mode have higher abundance of functions involved in amino acids and glycan metabolic pathway.

Operation of a New Half-Bridge Gate Driver for Enhancement - Mode GaN FETs, Type LM5113, Over a Wide Temperature Range

NASA Technical Reports Server (NTRS)

Patterson, Richard; Hammoud, Ahmad

2011-01-01

A new commercial-off-the-shelf (COTS) gate driver designed to drive both the high-side and the low-side enhancement-mode GaN FETs, National Semiconductor's type LM5113, was evaluated for operation at temperatures beyond its recommended specified limits of -40 C to +125 C. The effects of limited thermal cycling under the extended test temperature, which ranged from -194 C to +150 C, on the operation of this chip as well as restart capability at the extreme cryogenic and hot temperatures were also investigated. The driver circuit was able to maintain good operation throughout the entire test regime between -194 C and +150 C without undergoing any major changes in its outputs signals and characteristics. The limited thermal cycling performed on the device also had no effect on its performance, and the driver chip was able to successfully restart at each of the extreme temperatures of -194 C and +150 C. The plastic packaging of this device was also not affected by either the short extreme temperature exposure or the limited thermal cycling. These preliminary results indicate that this new commercial-off-the-shelf (COTS) halfbridge eGaN FET driver integrated circuit has the potential for use in space exploration missions under extreme temperature environments. Further testing is planned under long-term cycling to assess the reliability of these parts and to determine their suitability for extended use in the harsh environments of space.

Patterns of threshold evolution in polyphenic insects under different developmental models.

PubMed

Tomkins, Joseph L; Moczek, Armin P

2009-02-01

Two hypotheses address the evolution of polyphenic traits in insects. Under the developmental reprogramming model, individuals exceeding a threshold follow a different developmental pathway from individuals below the threshold. This decoupling is thought to free selection to independently hone alternative morphologies, increasing phenotypic plasticity and morphological diversity. Under the alternative model, extreme positive allometry explains the existence of alternative phenotypes and divergent phenotypes are developmentally coupled by a continuous reaction norm, such that selection on either morph acts on both. We test the hypothesis that continuous reaction norm polyphenisms, evolve through changes in the allometric parameters of even the smallest males with minimal trait expression, whereas threshold polyphenisms evolve independent of the allometric parameters of individuals below the threshold. We compare two polyphenic species; the dung beetle Onthophagus taurus, whose allometry has been modeled both as a threshold polyphenism and a continuous reaction norm and the earwig Forficula auricularia, whose allometry is best modeled with a discontinuous threshold. We find that across populations of both species, variation in forceps or horn allometry in minor males are correlated to the population's threshold. These findings suggest that regardless of developmental mode, alternative morphs do not evolve independently of one another.

The application of multiple biophysical cues to engineer functional neocartilage for treatment of osteoarthritis. Part II: signal transduction.

PubMed

Brady, Mariea A; Waldman, Stephen D; Ethier, C Ross

2015-02-01

The unique mechanoelectrochemical environment of cartilage has motivated researchers to investigate the effect of multiple biophysical cues, including mechanical, magnetic, and electrical stimulation, on chondrocyte biology. It is well established that biophysical stimuli promote chondrocyte proliferation, differentiation, and maturation within "biological windows" of defined dose parameters, including mode, frequency, magnitude, and duration of stimuli (see companion review Part I: Cellular Response). However, the underlying molecular mechanisms and signal transduction pathways activated in response to multiple biophysical stimuli remain to be elucidated. Understanding the mechanisms of biophysical signal transduction will deepen knowledge of tissue organogenesis, remodeling, and regeneration and aiding in the treatment of pathologies such as osteoarthritis. Further, this knowledge will provide the tissue engineer with a potent toolset to manipulate and control cell fate and subsequently develop functional replacement cartilage. The aim of this article is to review chondrocyte signal transduction pathways in response to mechanical, magnetic, and electrical cues. Signal transduction does not occur along a single pathway; rather a number of parallel pathways appear to be activated, with calcium signaling apparently common to all three types of stimuli, though there are different modes of activation. Current tissue engineering strategies, such as the development of "smart" functionalized biomaterials that enable the delivery of growth factors or integration of conjugated nanoparticles, may further benefit from targeting known signal transduction pathways in combination with external biophysical cues.

The use of echocardiography in Wolff-Parkinson-White syndrome.

PubMed

Cai, Qiangjun; Shuraih, Mossaab; Nagueh, Sherif F

2012-04-01

Endocardial mapping and radiofrequency catheter ablation are well established modalities for the diagnosis and treatment of patients with Wolff-Parkinson-White (WPW) syndrome associated with tachyarrhythmias. However, the electrophysiologic techniques are invasive, require radiation exposure, and lack spatial resolution of cardiac structures. A variety of echocardiographic techniques have been investigated as a non-invasive alternative for accessory pathway localization. Conventional M-mode echocardiography can detect the fine premature wall motion abnormalities associated with WPW syndrome. However, it is unable to identify the exact site of accessory pathway with sufficient accuracy. 2D, 2D-guided M-mode, and 2D phase analysis techniques are limited by image quality and endocardial border definition. Various modalities of tissue Doppler echocardiography significantly increase the accuracy of left-sided accessory pathway localization to 80-90% even in patients with poor acoustic window. However, right-sided pathways remain a diagnostic challenge. Strain echocardiography by speckle tracking has recently been evaluated and appears promising. Different cardiac abnormalities have been detected by echocardiography in WPW patients. Patients with WPW syndrome and tachyarrhythmias have impaired systolic and diastolic function which improves after radiofrequency ablation. Echocardiography is useful in identifying patient with accessory pathway-associated left ventricular dyssynchrony and dysfunction who may benefit from ablation therapy. Transesophageal and intracardiac echocardiography have been used to guide ablation procedure. Ablation-related complications detected by routine echocardiography are infrequent, rarely clinically relevant, and of limited value.

Progress Toward Meeting the Challenges of our Coastal Urban Future

EPA Science Inventory

Coastal urban regions are a nexus for climate change effects, extreme weather impacts, chemical/biological threats, and air quality issues as the global population increasingly concentrates in cities and megacities at the land/water interface. Sophisticated observational and mode...

Rayleigh scattering in few-mode optical fibers

PubMed Central

Wang, Zhen; Wu, Hao; Hu, Xiaolong; Zhao, Ningbo; Mo, Qi; Li, Guifang

2016-01-01

The extremely low loss of silica fibers has enabled the telecommunication revolution, but single-mode fiber-optic communication systems have been driven to their capacity limits. As a means to overcome this capacity crunch, space-division multiplexing (SDM) using few-mode fibers (FMF) has been proposed and demonstrated. In single-mode optical fibers, Rayleigh scattering serves as the dominant mechanism for optical loss. However, to date, the role of Rayleigh scattering in FMFs remains elusive. Here we establish and experimentally validate a general model for Rayleigh scattering in FMFs. Rayleigh backscattering not only sets the intrinsic loss limit for FMFs but also provides the theoretical foundation for few-mode optical time-domain reflectometry, which can be used to probe perturbation-induced mode-coupling dynamics in FMFs. We also show that forward inter-modal Rayleigh scattering ultimately sets a fundamental limit on inter-modal-crosstalk for FMFs. Therefore, this work not only has implications specifically for SDM systems but also broadly for few-mode fiber optics and its applications in amplifiers, lasers, and sensors in which inter-modal crosstalk imposes a fundamental performance limitation. PMID:27775003

Rayleigh scattering in few-mode optical fibers.

PubMed

Wang, Zhen; Wu, Hao; Hu, Xiaolong; Zhao, Ningbo; Mo, Qi; Li, Guifang

2016-10-24

The extremely low loss of silica fibers has enabled the telecommunication revolution, but single-mode fiber-optic communication systems have been driven to their capacity limits. As a means to overcome this capacity crunch, space-division multiplexing (SDM) using few-mode fibers (FMF) has been proposed and demonstrated. In single-mode optical fibers, Rayleigh scattering serves as the dominant mechanism for optical loss. However, to date, the role of Rayleigh scattering in FMFs remains elusive. Here we establish and experimentally validate a general model for Rayleigh scattering in FMFs. Rayleigh backscattering not only sets the intrinsic loss limit for FMFs but also provides the theoretical foundation for few-mode optical time-domain reflectometry, which can be used to probe perturbation-induced mode-coupling dynamics in FMFs. We also show that forward inter-modal Rayleigh scattering ultimately sets a fundamental limit on inter-modal-crosstalk for FMFs. Therefore, this work not only has implications specifically for SDM systems but also broadly for few-mode fiber optics and its applications in amplifiers, lasers, and sensors in which inter-modal crosstalk imposes a fundamental performance limitation.

NREL Scientist Maria Ghirardi Named AAAS Fellow | News | NREL

Science.gov Websites

extreme sensitivity of the hydrogenase enzyme to oxygen, one of the byproducts of photosynthesis. Ghirardi pathways in photosynthesis, and in deconvoluting the metabolic partners of a crucial redox enzyme

Obstacle traversal and self-righting of bio-inspired robots reveal the physics of multi-modal locomotion

NASA Astrophysics Data System (ADS)

Li, Chen; Fearing, Ronald; Full, Robert

Most animals move in nature in a variety of locomotor modes. For example, to traverse obstacles like dense vegetation, cockroaches can climb over, push across, reorient their bodies to maneuver through slits, or even transition among these modes forming diverse locomotor pathways; if flipped over, they can also self-right using wings or legs to generate body pitch or roll. By contrast, most locomotion studies have focused on a single mode such as running, walking, or jumping, and robots are still far from capable of life-like, robust, multi-modal locomotion in the real world. Here, we present two recent studies using bio-inspired robots, together with new locomotion energy landscapes derived from locomotor-environment interaction physics, to begin to understand the physics of multi-modal locomotion. (1) Our experiment of a cockroach-inspired legged robot traversing grass-like beam obstacles reveals that, with a terradynamically ``streamlined'' rounded body like that of the insect, robot traversal becomes more probable by accessing locomotor pathways that overcome lower potential energy barriers. (2) Our experiment of a cockroach-inspired self-righting robot further suggests that body vibrations are crucial for exploring locomotion energy landscapes and reaching lower barrier pathways. Finally, we posit that our new framework of locomotion energy landscapes holds promise to better understand and predict multi-modal biological and robotic movement.

Neuronal pathway finding: from neurons to initial neural networks.

PubMed

Roscigno, Cecelia I

2004-10-01

Neuronal pathway finding is crucial for structured cellular organization and development of neural circuits within the nervous system. Neuronal pathway finding within the visual system has been extensively studied and therefore is used as a model to review existing knowledge regarding concepts of this developmental process. General principles of neuron pathway finding throughout the nervous system exist. Comprehension of these concepts guides neuroscience nurses in gaining an understanding of the developmental course of action, the implications of different anomalies, as well as the theoretical basis and nursing implications of some provocative new therapies being proposed to treat neurodegenerative diseases and neurologic injuries. These therapies have limitations in light of current ethical, developmental, and delivery modes and what is known about the development of neuronal pathways.

Assessing Regional Scale Variability in Extreme Value Statistics Under Altered Climate Scenarios

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brunsell, Nathaniel; Mechem, David; Ma, Chunsheng

Recent studies have suggested that low-frequency modes of climate variability can significantly influence regional climate. The climatology associated with extreme events has been shown to be particularly sensitive. This has profound implications for droughts, heat waves, and food production. We propose to examine regional climate simulations conducted over the continental United States by applying a recently developed technique which combines wavelet multi–resolution analysis with information theory metrics. This research is motivated by two fundamental questions concerning the spatial and temporal structure of extreme events. These questions are 1) what temporal scales of the extreme value distributions are most sensitive tomore » alteration by low-frequency climate forcings and 2) what is the nature of the spatial structure of variation in these timescales? The primary objective is to assess to what extent information theory metrics can be useful in characterizing the nature of extreme weather phenomena. Specifically, we hypothesize that (1) changes in the nature of extreme events will impact the temporal probability density functions and that information theory metrics will be sensitive these changes and (2) via a wavelet multi–resolution analysis, we will be able to characterize the relative contribution of different timescales on the stochastic nature of extreme events. In order to address these hypotheses, we propose a unique combination of an established regional climate modeling approach and advanced statistical techniques to assess the effects of low-frequency modes on climate extremes over North America. The behavior of climate extremes in RCM simulations for the 20th century will be compared with statistics calculated from the United States Historical Climatology Network (USHCN) and simulations from the North American Regional Climate Change Assessment Program (NARCCAP). This effort will serve to establish the baseline behavior of climate extremes, the validity of an innovative multi–resolution information theory approach, and the ability of the RCM modeling framework to represent the low-frequency modulation of extreme climate events. Once the skill of the modeling and analysis methodology has been established, we will apply the same approach for the AR5 (IPCC Fifth Assessment Report) climate change scenarios in order to assess how climate extremes and the the influence of lowfrequency variability on climate extremes might vary under changing climate. The research specifically addresses the DOE focus area 2. Simulation of climate extremes under a changing climate. Specific results will include (1) a better understanding of the spatial and temporal structure of extreme events, (2) a thorough quantification of how extreme values are impacted by low-frequency climate teleconnections, (3) increased knowledge of current regional climate models ability to ascertain these influences, and (4) a detailed examination of the how the distribution of extreme events are likely to change under different climate change scenarios. In addition, this research will assess the ability of the innovative wavelet information theory approach to characterize extreme events. Any and all of these results will greatly enhance society’s ability to understand and mitigate the regional ramifications of future global climate change.« less

Small silencing RNAs: an expanding universe.

PubMed

Ghildiyal, Megha; Zamore, Phillip D

2009-02-01

Since the discovery in 1993 of the first small silencing RNA, a dizzying number of small RNA classes have been identified, including microRNAs (miRNAs), small interfering RNAs (siRNAs) and Piwi-interacting RNAs (piRNAs). These classes differ in their biogenesis, their modes of target regulation and in the biological pathways they regulate. There is a growing realization that, despite their differences, these distinct small RNA pathways are interconnected, and that small RNA pathways compete and collaborate as they regulate genes and protect the genome from external and internal threats.

Fear during labor: the impact of sexual abuse in adult life.

PubMed

Eberhard-Gran, Malin; Slinning, Kari; Eskild, Anne

2008-12-01

Our aim was to study the occurrence of extreme fear during labor and its association with previous sexual abuse in adult life. All postpartum women (n = 414) in two municipalities in Norway participated in a questionnaire study. Self-reported fear during labor was categorized as "no fear/some fear/extreme fear". Sexual abuse was measured by the Abuse Assessment Screen (AAS). Three percent of the women reported extreme fear during labor, 13% some fear and 84% no fear. In total, 12% had been sexually abused as an adult. Among the women with extreme fear during labor, however, one third had a history of sexual abuse in adult life (crude odds ratio 3.7; 95% CI: 1.0-3.7). When controlling for depression in pregnancy, duration of labor and mode of delivery, the adjusted odds ratio for extreme fear during labor was 4.9 (95% CI: 1.2-19.1). The results suggest that women with a history of sexual abuse in adult life have an increased risk of extreme fear during labor.

Experimental study of complex mixed-mode oscillations generated in a Bonhoeffer-van der Pol oscillator under weak periodic perturbation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Shimizu, Kuniyasu, E-mail: kuniyasu.shimizu@it-chiba.ac.jp; Sekikawa, Munehisa; Inaba, Naohiko

2015-02-15

Bifurcations of complex mixed-mode oscillations denoted as mixed-mode oscillation-incrementing bifurcations (MMOIBs) have frequently been observed in chemical experiments. In a previous study [K. Shimizu et al., Physica D 241, 1518 (2012)], we discovered an extremely simple dynamical circuit that exhibits MMOIBs. Our model was represented by a slow/fast Bonhoeffer-van der Pol circuit under weak periodic perturbation near a subcritical Andronov-Hopf bifurcation point. In this study, we experimentally and numerically verify that our dynamical circuit captures the essence of the underlying mechanism causing MMOIBs, and we observe MMOIBs and chaos with distinctive waveforms in real circuit experiments.

Terahertz disorder-localized rotational modes and lattice vibrational modes in the orientationally-disordered and ordered phases of camphor.

PubMed

Nickel, Daniel V; Ruggiero, Michael T; Korter, Timothy M; Mittleman, Daniel M

2015-03-14

The temperature-dependent terahertz spectra of the partially-disordered and ordered phases of camphor (C10H16O) are measured using terahertz time-domain spectroscopy. In its partially-disordered phases, a low-intensity, extremely broad resonance is found and is characterized using both a phenomenological approach and an approach based on ab initio solid-state DFT simulations. These two descriptions are consistent and stem from the same molecular origin for the broad resonance: the disorder-localized rotational correlations of the camphor molecules. In its completely ordered phase(s), multiple lattice phonon modes are measured and are found to be consistent with those predicted using solid-state DFT simulations.

Electro-optical resonance modulation of vertical-cavity surface-emitting lasers.

PubMed

Germann, Tim David; Hofmann, Werner; Nadtochiy, Alexey M; Schulze, Jan-Hindrik; Mutig, Alex; Strittmatter, André; Bimberg, Dieter

2012-02-27

Optical and electrical investigations of vertical-cavity surface-emitting lasers (VCSEL) with a monolithically integrated electro-optical modulator (EOM) allow for a detailed physical understanding of this complex compound cavity laser system. The EOM VCSEL light output is investigated to identify optimal working points. An electro-optic resonance feature triggered by the quantum confined Stark effect is used to modulate individual VCSEL modes by more than 20 dB with an extremely small EOM voltage change of less than 100 mV. Spectral mode analysis reveals modulation of higher order modes and very low wavelength chirp of < 0.5 nm. Dynamic experiments and simulation predict an intrinsic bandwidth of the EOM VCSEL exceeding 50 GHz.

Extremely small-core photonic crystal fiber fusion splicing with a single-mode fiber

NASA Astrophysics Data System (ADS)

Tiburcio, Bruno D.; Fernandes, Gil M.; Pinto, Armando N.

2013-11-01

We present a low-loss fusion splicing of a non-linear photonic-crystal fiber (NL-PCF) with a single-mode fiber (SMF), helped by an intermediate fiber, using a electric-arc splicer. We also analysed the splice loss between SMF and intermediate fiber, as a function of the electrical discharge duration, to achieve a low-loss transition between SMF and intermediate fiber, through a thermally expanded core splice (TEC). The NL-PCF has a external cladding diameter of 105 μm, a core diameter of 1.7 μm and mode-field diameter (MFD) of 1.5 μm. We also performed mechanical strength tests to verify the robustness of the splice joints obtained.

Electrostatic Interactions in the Binding Pathway of a Transient Protein Complex Studied by NMR and Isothermal Titration Calorimetry*

PubMed Central

Meneses, Erick; Mittermaier, Anthony

2014-01-01

Much of our knowledge of protein binding pathways is derived from extremely stable complexes that interact very tightly, with lifetimes of hours to days. Much less is known about weaker interactions and transient complexes because these are challenging to characterize experimentally. Nevertheless, these types of interactions are ubiquitous in living systems. The combination of NMR relaxation dispersion Carr–Purcell–Meiboom–Gill (CPMG) experiments and isothermal titration calorimetry allows the quantification of rapid binding kinetics for complexes with submillisecond lifetimes that are difficult to study using conventional techniques. We have used this approach to investigate the binding pathway of the Src homology 3 (SH3) domain from the Fyn tyrosine kinase, which forms complexes with peptide targets whose lifetimes are on the order of about a millisecond. Long range electrostatic interactions have been shown to play a critical role in the binding pathways of tightly binding complexes. The role of electrostatics in the binding pathways of transient complexes is less well understood. Similarly to previously studied tight complexes, we find that SH3 domain association rates are enhanced by long range electrostatics, whereas short range interactions are formed late in the docking process. However, the extent of electrostatic association rate enhancement is several orders of magnitudes less, whereas the electrostatic-free basal association rate is significantly greater. Thus, the SH3 domain is far less reliant on electrostatic enhancement to achieve rapid association kinetics than are previously studied systems. This suggests that there may be overall differences in the role played by electrostatics in the binding pathways of extremely stable versus transient complexes. PMID:25122758

Benchmarking organic micropollutants in wastewater, recycled water and drinking water with in vitro bioassays.

PubMed

Escher, Beate I; Allinson, Mayumi; Altenburger, Rolf; Bain, Peter A; Balaguer, Patrick; Busch, Wibke; Crago, Jordan; Denslow, Nancy D; Dopp, Elke; Hilscherova, Klara; Humpage, Andrew R; Kumar, Anu; Grimaldi, Marina; Jayasinghe, B Sumith; Jarosova, Barbora; Jia, Ai; Makarov, Sergei; Maruya, Keith A; Medvedev, Alex; Mehinto, Alvine C; Mendez, Jamie E; Poulsen, Anita; Prochazka, Erik; Richard, Jessica; Schifferli, Andrea; Schlenk, Daniel; Scholz, Stefan; Shiraishi, Fujio; Snyder, Shane; Su, Guanyong; Tang, Janet Y M; van der Burg, Bart; van der Linden, Sander C; Werner, Inge; Westerheide, Sandy D; Wong, Chris K C; Yang, Min; Yeung, Bonnie H Y; Zhang, Xiaowei; Leusch, Frederic D L

2014-01-01

Thousands of organic micropollutants and their transformation products occur in water. Although often present at low concentrations, individual compounds contribute to mixture effects. Cell-based bioassays that target health-relevant biological endpoints may therefore complement chemical analysis for water quality assessment. The objective of this study was to evaluate cell-based bioassays for their suitability to benchmark water quality and to assess efficacy of water treatment processes. The selected bioassays cover relevant steps in the toxicity pathways including induction of xenobiotic metabolism, specific and reactive modes of toxic action, activation of adaptive stress response pathways and system responses. Twenty laboratories applied 103 unique in vitro bioassays to a common set of 10 water samples collected in Australia, including wastewater treatment plant effluent, two types of recycled water (reverse osmosis and ozonation/activated carbon filtration), stormwater, surface water, and drinking water. Sixty-five bioassays (63%) showed positive results in at least one sample, typically in wastewater treatment plant effluent, and only five (5%) were positive in the control (ultrapure water). Each water type had a characteristic bioanalytical profile with particular groups of toxicity pathways either consistently responsive or not responsive across test systems. The most responsive health-relevant endpoints were related to xenobiotic metabolism (pregnane X and aryl hydrocarbon receptors), hormone-mediated modes of action (mainly related to the estrogen, glucocorticoid, and antiandrogen activities), reactive modes of action (genotoxicity) and adaptive stress response pathway (oxidative stress response). This study has demonstrated that selected cell-based bioassays are suitable to benchmark water quality and it is recommended to use a purpose-tailored panel of bioassays for routine monitoring.

The cardiovascular effects of a chimeric opioid peptide based on morphiceptin and PFRTic-NH2.

PubMed

Li, Meixing; Zhou, Lanxia; Ma, Guoning; Cao, Shuo; Dong, Shouliang

2013-01-01

MCRT (YPFPFRTic-NH(2)) is a chimeric opioid peptide based on morphiceptin and PFRTic-NH(2). In order to assess the cardiovascular effect of MCRT, it was administered by intravenous (i.v.) injection targeting at the peripheral nervous system and by intracerebroventricular (i.c.v.) injection targeting at the central nervous system. Naloxone and L-NAME were injected before MCRT to investigate possible interactions with MCRT. Results show that administration of MCRT by i.v. or i.c.v. injection could induce bradycardia and decrease in mean arterial pressure (MAP) at a greater degree than that with morphiceptin and PFRTic-NH(2). When MCRT and NPFF were coinjected, we observed a dose-dependent weakening of these cardiovascular effects by MCRT. Because naloxone completely abolished the cardiovascular effects of MCRT, we conclude that opioid receptors are involved in regulating the MAP of MCRT regardless of modes of injection. The effect of MCRT on heart rate is completely dependent on opioid receptors when MCRT was administered by i.c.v. instead of i.v. The central nitric oxide (NO) pathway is involved in regulating blood pressure by MCRT under both modes of injection, but the peripheral NO pathway had no effect on lowering blood pressure mediated by MCRT when it was administered by i.c.v. Based on the results from different modes of injection, the regulation of heart rate by MCRT mainly involves in the central NO pathway. Lastly, we observed that the cardiovascular effects of MCRT such as bradycardia and decrease of blood pressure, were stronger than that of its parent peptides. Opioid receptors and the NO pathway are involved in the cardiovascular regulation by MCRT, and their degree of involvement differs between intravenous and intracerebroventricular injection. Copyright © 2012 Elsevier Inc. All rights reserved.

Transition paths of Met-enkephalin from Markov state modeling of a molecular dynamics trajectory.

PubMed

Banerjee, Rahul; Cukier, Robert I

2014-03-20

Conformational states and their interconversion pathways of the zwitterionic form of the pentapeptide Met-enkephalin (MetEnk) are identified. An explicit solvent molecular dynamics (MD) trajectory is used to construct a Markov state model (MSM) based on dihedral space clustering of the trajectory, and transition path theory (TPT) is applied to identify pathways between open and closed conformers. In the MD trajectory, only four of the eight backbone dihedrals exhibit bistable behavior. Defining a conformer as the string XXXX with X = "+" or "-" denoting, respectively, positive or negative values of a given dihedral angle and obtaining the populations of these conformers shows that only four conformers are highly populated, implying a strong correlation among these dihedrals. Clustering in dihedral space to construct the MSM finds the same four bistable dihedral angles. These state populations are very similar to those found directly from the MD trajectory. TPT is used to obtain pathways, parametrized by committor values, in dihedral state space that are followed in transitioning from closed to open states. Pathway costs are estimated by introducing a kinetics-based procedure that orders pathways from least (shortest) to greater cost paths. The least costly pathways in dihedral space are found to only involve the same XXXX set of dihedral angles, and the conformers accessed in the closed to open transition pathways are identified. For these major pathways, a correlation between reaction path progress (committors) and the end-to-end distance is identified. A dihedral space principal component analysis of the MD trajectory shows that the first three modes capture most of the overall fluctuation, and pick out the same four dihedrals having essentially all the weight in those modes. A MSM based on root-mean-square backbone clustering was also carried out, with good agreement found with dihedral clustering for the static information, but with results that differ significantly for the pathway analysis.

Simple Kinematic Pathway Approach (KPA) to Catchment-scale Travel Time and Water Age Distributions

NASA Astrophysics Data System (ADS)

Soltani, S. S.; Cvetkovic, V.; Destouni, G.

2017-12-01

The distribution of catchment-scale water travel times is strongly influenced by morphological dispersion and is partitioned between hillslope and larger, regional scales. We explore whether hillslope travel times are predictable using a simple semi-analytical "kinematic pathway approach" (KPA) that accounts for dispersion on two levels of morphological and macro-dispersion. The study gives new insights to shallow (hillslope) and deep (regional) groundwater travel times by comparing numerical simulations of travel time distributions, referred to as "dynamic model", with corresponding KPA computations for three different real catchment case studies in Sweden. KPA uses basic structural and hydrological data to compute transient water travel time (forward mode) and age (backward mode) distributions at the catchment outlet. Longitudinal and morphological dispersion components are reflected in KPA computations by assuming an effective Peclet number and topographically driven pathway length distributions, respectively. Numerical simulations of advective travel times are obtained by means of particle tracking using the fully-integrated flow model MIKE SHE. The comparison of computed cumulative distribution functions of travel times shows significant influence of morphological dispersion and groundwater recharge rate on the compatibility of the "kinematic pathway" and "dynamic" models. Zones of high recharge rate in "dynamic" models are associated with topographically driven groundwater flow paths to adjacent discharge zones, e.g. rivers and lakes, through relatively shallow pathway compartments. These zones exhibit more compatible behavior between "dynamic" and "kinematic pathway" models than the zones of low recharge rate. Interestingly, the travel time distributions of hillslope compartments remain almost unchanged with increasing recharge rates in the "dynamic" models. This robust "dynamic" model behavior suggests that flow path lengths and travel times in shallow hillslope compartments are controlled by topography, and therefore application and further development of the simple "kinematic pathway" approach is promising for their modeling.

Nanowire failure: long = brittle and short = ductile.

PubMed

Wu, Zhaoxuan; Zhang, Yong-Wei; Jhon, Mark H; Gao, Huajian; Srolovitz, David J

2012-02-08

Experimental studies of the tensile behavior of metallic nanowires show a wide range of failure modes, ranging from ductile necking to brittle/localized shear failure-often in the same diameter wires. We performed large-scale molecular dynamics simulations of copper nanowires with a range of nanowire lengths and provide unequivocal evidence for a transition in nanowire failure mode with change in nanowire length. Short nanowires fail via a ductile mode with serrated stress-strain curves, while long wires exhibit extreme shear localization and abrupt failure. We developed a simple model for predicting the critical nanowire length for this failure mode transition and showed that it is in excellent agreement with both the simulation results and the extant experimental data. The present results provide a new paradigm for the design of nanoscale mechanical systems that demarcates graceful and catastrophic failure. © 2012 American Chemical Society

Metagenomic Analysis of Hot Springs in Central India Reveals Hydrocarbon Degrading Thermophiles and Pathways Essential for Survival in Extreme Environments

PubMed Central

Saxena, Rituja; Dhakan, Darshan B.; Mittal, Parul; Waiker, Prashant; Chowdhury, Anirban; Ghatak, Arundhuti; Sharma, Vineet K.

2017-01-01

Extreme ecosystems such as hot springs are of great interest as a source of novel extremophilic species, enzymes, metabolic functions for survival and biotechnological products. India harbors hundreds of hot springs, the majority of which are not yet explored and require comprehensive studies to unravel their unknown and untapped phylogenetic and functional diversity. The aim of this study was to perform a large-scale metagenomic analysis of three major hot springs located in central India namely, Badi Anhoni, Chhoti Anhoni, and Tattapani at two geographically distinct regions (Anhoni and Tattapani), to uncover the resident microbial community and their metabolic traits. Samples were collected from seven distinct sites of the three hot spring locations with temperature ranging from 43.5 to 98°C. The 16S rRNA gene amplicon sequencing of V3 hypervariable region and shotgun metagenome sequencing uncovered a unique taxonomic and metabolic diversity of the resident thermophilic microbial community in these hot springs. Genes associated with hydrocarbon degradation pathways, such as benzoate, xylene, toluene, and benzene were observed to be abundant in the Anhoni hot springs (43.5–55°C), dominated by Pseudomonas stutzeri and Acidovorax sp., suggesting the presence of chemoorganotrophic thermophilic community with the ability to utilize complex hydrocarbons as a source of energy. A high abundance of genes belonging to methane metabolism pathway was observed at Chhoti Anhoni hot spring, where methane is reported to constitute >80% of all the emitted gases, which was marked by the high abundance of Methylococcus capsulatus. The Tattapani hot spring, with a high-temperature range (61.5–98°C), displayed a lower microbial diversity and was primarily dominated by a nitrate-reducing archaeal species Pyrobaculum aerophilum. A higher abundance of cell metabolism pathways essential for the microbial survival in extreme conditions was observed at Tattapani. Taken together, the results of this study reveal a novel consortium of microbes, genes, and pathways associated with the hot spring environment. PMID:28105025

Time-resolved infrared fluorescence from 2ν 1 and 2ν 8 modes of CF 2Cl 2 excited by a CO 2 laser

NASA Astrophysics Data System (ADS)

Vatsa, R. K.; Kumar, Awadhesh; Naik, P. D.; Rama Rao, K. V. S.; Mittal, J. P.

1993-04-01

Infrared fluorescence has been observed from the overtones and combination bands of ν 1 and ν 8 on pumping either of these modes of CF 2Cl 2 by a CO 2 laser. Excitation of the ν 8 mode gives fluorescence from 2ν 1/(ν 1 + ν 6) and 2ν 8 modes at 4.6 and 5.4 μm, respectively. The intensity of 4.6 μm fluorescence showed a quadratic dependence on the pressure of CF 2Cl 2. A decay rate constant of (2.76±0.55)×10 4 s -1 Torr -1 was obtained for this emission band and it has been assigned to intermode energy outflow from the ν 1 and ν 6 modes. The possible pathways of populating the ν 1 and ν 6 modes are discussed.

Femtosecond resolution of soft mode dynamics in structural phase transitions

NASA Technical Reports Server (NTRS)

Dougherty, Thomas P.; Wiederrecht, Gary P.; Nelson, Keith A.; Garrett, Mark H.; Jensen, Hans P.; Warde, Cardinal

1992-01-01

The microscopic pathway along which ions or molecules in a crystal move during structural phase transition can often be described in terms of a collective vibrational mode of the lattice. In many cases, this mode, called a 'soft' phonon mode because of its characteristically low frequency near the phase transition temperature, is difficult to characterize through conventional frequency-domain spectroscopies such as light or neutron scattering. A femtosecond time-domain analog of light-scattering spectroscopy called impulsive stimulated Raman scattering (ISRS) has been used to examine the soft modes of two perovskite ferroelectric crystals. The low-frequency lattice dynamics of KNbO3 and BaTiO3 are clarified in a manner that permits critical evaluation of microscopic models for their ferroelectric transitions. The results illustrate the advantages of ISRS over conventional Raman spectroscopy of low-frequency, heavily damped soft modes.

NMSim web server: integrated approach for normal mode-based geometric simulations of biologically relevant conformational transitions in proteins.

PubMed

Krüger, Dennis M; Ahmed, Aqeel; Gohlke, Holger

2012-07-01

The NMSim web server implements a three-step approach for multiscale modeling of protein conformational changes. First, the protein structure is coarse-grained using the FIRST software. Second, a rigid cluster normal-mode analysis provides low-frequency normal modes. Third, these modes are used to extend the recently introduced idea of constrained geometric simulations by biasing backbone motions of the protein, whereas side chain motions are biased toward favorable rotamer states (NMSim). The generated structures are iteratively corrected regarding steric clashes and stereochemical constraint violations. The approach allows performing three simulation types: unbiased exploration of conformational space; pathway generation by a targeted simulation; and radius of gyration-guided simulation. On a data set of proteins with experimentally observed conformational changes, the NMSim approach has been shown to be a computationally efficient alternative to molecular dynamics simulations for conformational sampling of proteins. The generated conformations and pathways of conformational transitions can serve as input to docking approaches or more sophisticated sampling techniques. The web server output is a trajectory of generated conformations, Jmol representations of the coarse-graining and a subset of the trajectory and data plots of structural analyses. The NMSim webserver, accessible at http://www.nmsim.de, is free and open to all users with no login requirement.

Receive Mode Analysis and Design of Microstrip Reflectarrays

NASA Technical Reports Server (NTRS)

Rengarajan, Sembiam

2011-01-01

Traditionally microstrip or printed reflectarrays are designed using the transmit mode technique. In this method, the size of each printed element is chosen so as to provide the required value of the reflection phase such that a collimated beam results along a given direction. The reflection phase of each printed element is approximated using an infinite array model. The infinite array model is an excellent engineering approximation for a large microstrip array since the size or orientation of elements exhibits a slow spatial variation. In this model, the reflection phase from a given printed element is approximated by that of an infinite array of elements of the same size and orientation when illuminated by a local plane wave. Thus the reflection phase is a function of the size (or orientation) of the element, the elevation and azimuth angles of incidence of a local plane wave, and polarization. Typically, one computes the reflection phase of the infinite array as a function of several parameters such as size/orientation, elevation and azimuth angles of incidence, and in some cases for vertical and horizontal polarization. The design requires the selection of the size/orientation of the printed element to realize the required phase by interpolating or curve fitting all the computed data. This is a substantially complicated problem, especially in applications requiring a computationally intensive commercial code to determine the reflection phase. In dual polarization applications requiring rectangular patches, one needs to determine the reflection phase as a function of five parameters (dimensions of the rectangular patch, elevation and azimuth angles of incidence, and polarization). This is an extremely complex problem. The new method employs the reciprocity principle and reaction concept, two well-known concepts in electromagnetics to derive the receive mode analysis and design techniques. In the "receive mode design" technique, the reflection phase is computed for a plane wave incident on the reflectarray from the direction of the beam peak. In antenna applications with a single collimated beam, this method is extremely simple since all printed elements see the same angles of incidence. Thus the number of parameters is reduced by two when compared to the transmit mode design. The reflection phase computation as a function of five parameters in the rectangular patch array discussed previously is reduced to a computational problem with three parameters in the receive mode. Furthermore, if the beam peak is in the broadside direction, the receive mode design is polarization independent and the reflection phase computation is a function of two parameters only. For a square patch array, it is a function of the size, one parameter only, thus making it extremely simple.

Ultrafast Spin Crossover in [FeII (bpy)3 ]2+ : Revealing Two Competing Mechanisms by Extreme Ultraviolet Photoemission Spectroscopy.

PubMed

Moguilevski, Alexandre; Wilke, Martin; Grell, Gilbert; Bokarev, Sergey I; Aziz, Saadullah G; Engel, Nicholas; Raheem, Azhr A; Kühn, Oliver; Kiyan, Igor Yu; Aziz, Emad F

2017-03-03

Photoinduced spin-flip in Fe II complexes is an ultrafast phenomenon that has the potential to become an alternative to conventional processing and magnetic storage of information. Following the initial excitation by visible light into the singlet metal-to-ligand charge-transfer state, the electronic transition to the high-spin quintet state may undergo different pathways. Here we apply ultrafast XUV (extreme ultraviolet) photoemission spectroscopy to track the low-to-high spin dynamics in the aqueous iron tris-bipyridine complex, [Fe(bpy) 3 ] 2+ , by monitoring the transient electron density distribution among excited states with femtosecond time resolution. Aided by first-principles calculations, this approach enables us to reveal unambiguously both the sequential and direct de-excitation pathways from singlet to quintet state, with a branching ratio of 4.5:1. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

The Highly-Automated Airplane: Its Impact on Aviation Safety and an Analysis of Training Philosophy.

DTIC Science & Technology

1997-06-01

equipment. This means more than just knowing how to program the device and being familiar with the functions of varying modes (Patrick, 1996:18). 33...the function that I wanted to use or modify in a flight plan." "Initially it is extremely difficult to figure out exactly how to program or pull up...commented: "Getting used to the EFIS display was the hardest. Initially it is extremely difficult to figure out exactly how to program or pull up the

Overview of nonlinear kinetic instabilities

NASA Astrophysics Data System (ADS)

Berk, H. L.

2012-09-01

The saturation of shear Alfvén-like waves by alpha particles is presented from the general viewpoint of determining the saturation mechanisms of basic waves in a plasma destabilized by a perturbing source of free energy. The formalism is reviewed and then followed by analyses of isolated mode saturation far from and close to marginal stability. The effect of multiple waves that are isolated or are overlapping is then discussed. The presentation is concluded with a discussion of a non-conventional quasilinear theory that covers both extreme cases as well as the intermediate regime between the extremes.

Gravitational radiation from extreme Kerr black hole

NASA Technical Reports Server (NTRS)

Sasaki, Misao; Nakamura, Takashi

1989-01-01

Gravitational radiation induced by a test particle falling into an extreme Kerr black hole was investigated analytically. Assuming the radiation is dominated by the infinite sequence of quasi-normal modes which has the limiting frequency m/(2M), where m is an azimuthal eigenvalue and M is the mass of the black hole, it was found that the radiated energy diverges logarithmically in time. Then the back reaction to the black hole was evaluated by appealing to the energy and angular momentum conservation laws. It was found that the radiation has a tendency to increase the ratio of the angular momentum to mass of the black hole, which is completely different from non-extreme case, while the contribution of the test particle is to decrease it.

Redistribution of carbonyl stretch mode energy in isolated and solvated N-methylacetamide: kinetic energy spectral density analyses.

PubMed

Jeon, Jonggu; Cho, Minhaeng

2011-12-07

The vibrational energy transfer from the excited carbonyl stretch mode in N-deuterated N-methylacetamide (NMA-d), both in isolation and in a heavy water cluster, is studied with nonequilibrium molecular dynamics (NEMD) simulations, employing a quantum mechanical/molecular mechanical (QM∕MM) force field at the semiempirical PM3 level. The nonequilibrium ensemble of vibrationally excited NMA-d is prepared by perturbing the positions and velocities of the carbonyl C and O atoms and its NEMD trajectories are obtained with a leap-frog algorithm properly modified for the initial perturbation. In addition to the time-domain analysis of the kinetic and potential energies, a novel method for the spectral analysis of the atomic kinetic energies is developed, in terms of the spectral density of kinetic energy, which provides the time-dependent changes of the frequency-resolved kinetic energies without the complications of normal mode analysis at every MD time step. Due to the QM description of the solute electronic structure, the couplings among the normal modes are captured more realistically than with classical force fields. The energy transfer in the isolated NMA-d is found to proceed first from the carbonyl bond to other modes with time scales of 3 ps or less, and then among the other modes over 3-21 ps. In the solvated NMA-d, most of the excess energy is first transferred to other intramolecular modes within 5 ps, which is subsequently dissipated to solvent with 7-19 ps time scales. The contribution of the direct energy transfer from the carbonyl bond to solvent was only 5% with ~7 ps time scale. Solvent reorganization that leads to destabilization of the electrostatic interactions is found to be crucial in the long time relaxation of the excess energy, while the water intramolecular modes do not contribute significantly. Detailed mode-specific energy transfer pathways are deduced for the isolated and solvated NMA-d and they show that the energy transfer in NMA-d is a highly cooperative process among the intramolecular modes and there is no single dominant pathway with more than 30% of transient contribution. © 2011 American Institute of Physics

Detection, characterization and identification of crucifer phytoalexins using high-performance liquid chromatography with diode array detection and electrospray ionization mass spectrometry.

PubMed

Pedras, M Soledade C; Adio, Adewale M; Suchy, Mojmir; Okinyo, Denis P O; Zheng, Qing-An; Jha, Mukund; Sarwar, Mohammed G

2006-11-10

We have analyzed 23 crucifer phytoalexins (e.g. brassinin, dioxibrassinin, cyclobrassinin, brassicanals A and C) by HPLC with diode array detection and electrospray ionization mass spectrometry (HPLC-DAD-ESI-MS) using both negative and positive ion modes. Positive ion mode ESI-MS appeared more sensitive than negative ion mode ESI-MS in detecting this group of compounds. A new HPLC separation method, new LC-MS and LC-MS(2) data and proposed fragmentation pathways, LC retention times, and UV spectra for selected compounds are reported.

Impact of climate change on European weather extremes

NASA Astrophysics Data System (ADS)

Duchez, Aurelie; Forryan, Alex; Hirschi, Joel; Sinha, Bablu; New, Adrian; Freychet, Nicolas; Scaife, Adam; Graham, Tim

2015-04-01

An emerging science consensus is that global climate change will result in more extreme weather events with concomitant increasing financial losses. Key questions that arise are: Can an upward trend in natural extreme events be recognised and predicted at the European scale? What are the key drivers within the climate system that are changing and making extreme weather events more frequent, more intense, or both? Using state-of-the-art coupled climate simulations from the UK Met Office (HadGEM3-GC2, historical and future scenario runs) as well as reanalysis data, we highlight the potential of the currently most advanced forecasting systems to progress understanding of the causative drivers of European weather extremes, and assess future frequency and intensity of extreme weather under various climate change scenarios. We characterize European extremes in these simulations using a subset of the 27 core indices for temperature and precipitation from The Expert Team on Climate Change Detection and Indices (Tank et al., 2009). We focus on temperature and precipitation extremes (e.g. extremes in daily and monthly precipitation and temperatures) and relate them to the atmospheric modes of variability over Europe in order to establish the large-scale atmospheric circulation patterns that are conducive to the occurrence of extreme precipitation and temperature events. Klein Tank, Albert M.G., and Francis W. Zwiers. Guidelines on Analysis of Extremes in a Changing Climate in Support of Informed Decisions for Adaptation. WMO-TD No. 1500. Climate Data and Monitoring. World Meteorological Organization, 2009.

What is the safest mode of delivery for extremely preterm cephalic/non-cephalic twin pairs? A systematic review and meta-analyses.

PubMed

Dagenais, Catherine; Lewis-Mikhael, Anne-Mary; Grabovac, Marinela; Mukerji, Amit; McDonald, Sarah D

2017-11-29

Given the controversy around mode of delivery, our objective was to assess the evidence regarding the safest mode of delivery for actively resuscitated extremely preterm cephalic/non-cephalic twin pairs before 28 weeks of gestation. We searched Cochrane CENTRAL, MEDLINE, EMBASE and  http://clinicaltrials.gov from January 1994 to January 2017. Two reviewers independently screened titles, abstracts and full text articles, extracted data and assessed risk of bias. We included randomized controlled trials and observational studies. Our primary outcome was a composite of neonatal death (<28 days of life) and severe brain injury in survivors (intraventricular hemorrhage grade ≥ 3 or periventricular leukomalacia). We performed random-effects meta-analyses, generating odds ratios with 95% confidence intervals for the first and second twin separately, and for both twins together. We assessed the risk of bias using a modified Newcastle Ottawa Scale (NOS) for observational studies and used Grading of Recommendations Assessment, Development and Evaluation approach (GRADE). Our search generated 2695 articles, and after duplicate removal, we screened 2051 titles and abstracts, selecting 113 articles for full-text review. We contacted 36 authors, and ultimately, three observational studies met our inclusion criteria. In cephalic/non-cephalic twin pairs delivered by caesarean section compared to vaginal birth at 24 +0 -27 +6  weeks the odds ratio for our composite outcome of neonatal death and severe brain injury for the cephalic first twin was 0.35 (95% CI 0.00-92.61, two studies, I 2  = 76%), 1.69 for the non-cephalic second twin (95% CI 0.04-72.81, two studies, I 2  = 55%) and 0.83 for both twins (95% CI 0.05-13.43, two studies, I 2  = 56%). According to the modified Newcastle Ottawa Scale we assessed individual study quality as being at high risk of bias and according to GRADE the overall evidence for our primary outcomes was very low. Our systematic review on the safest mode of delivery for extremely preterm cephalic/non-cephalic twin pairs found very limited existing evidence, without significant differences in neonatal death and severe brain injury by mode of delivery.

Extreme ultraviolet and Soft X-ray diagnostic upgrade on the HBT-EP tokamak: Progress and Results

NASA Astrophysics Data System (ADS)

Desanto, S.; Levesque, J. P.; Battey, A.; Brooks, J. W.; Mauel, M. E.; Navratil, G. A.; Hansen, C. J.

2017-10-01

In order to understand internal MHD mode structure in a tokamak plasma, it is helpful to understand temperature and density fluctuations within that plasma. In the HBT-EP tokamak, the plasma emits bremsstrahlung radiation in the extreme ultraviolet (EUV) and soft x-ray (SXR) regimes, and the emitted power is primarily related to electron density and temperature. This radiation is detected by photodiode arrays located at several different angular positions near the plasma's edge, each array making several views through a poloidal slice of plasma. From these measurements a 2-d emissivity profile of that slice can be reconstructed with tomographic algorithms. This profile cannot directly tell us whether the emissivity is due to electron density, temperature, line emission, or charge recombination; however, when combined with information from other diagnostics, it can provide strong evidence of the type of internal mode or modes depending on the temporal-spatial context. We present ongoing progress and results on the installation of a new system that will eventually consist of four arrays of 16 views each and a separate two-color, 16-chord tangential system, which will provide an improved understanding of the internal structure of HBT-EP plasmas. Supported by U.S. DOE Grant DE-FG02-86ER5322.

Pulse-coupled mixed-mode oscillators: Cluster states and extreme noise sensitivity

NASA Astrophysics Data System (ADS)

Karamchandani, Avinash J.; Graham, James N.; Riecke, Hermann

2018-04-01

Motivated by rhythms in the olfactory system of the brain, we investigate the synchronization of all-to-all pulse-coupled neuronal oscillators exhibiting various types of mixed-mode oscillations (MMOs) composed of sub-threshold oscillations (STOs) and action potentials ("spikes"). We focus particularly on the impact of the delay in the interaction. In the weak-coupling regime, we reduce the system to a Kuramoto-type equation with non-sinusoidal phase coupling and the associated Fokker-Planck equation. Its linear stability analysis identifies the appearance of various cluster states. Their type depends sensitively on the delay and the width of the pulses. Interestingly, long delays do not imply slow population rhythms, and the number of emerging clusters only loosely depends on the number of STOs. Direct simulations of the oscillator equations reveal that for quantitative agreement of the weak-coupling theory the coupling strength and the noise have to be extremely small. Even moderate noise leads to significant skipping of STO cycles, which can enhance the diffusion coefficient in the Fokker-Planck equation by two orders of magnitude. Introducing an effective diffusion coefficient extends the range of agreement significantly. Numerical simulations of the Fokker-Planck equation reveal bistability and solutions with oscillatory order parameters that result from nonlinear mode interactions. These are confirmed in simulations of the full spiking model.

Individual and culture-level components of survey response styles: A multi-level analysis using cultural models of selfhood.

PubMed

Smith, Peter B; Vignoles, Vivian L; Becker, Maja; Owe, Ellinor; Easterbrook, Matthew J; Brown, Rupert; Bourguignon, David; Garðarsdóttir, Ragna B; Kreuzbauer, Robert; Cendales Ayala, Boris; Yuki, Masaki; Zhang, Jianxin; Lv, Shaobo; Chobthamkit, Phatthanakit; Jaafar, Jas Laile; Fischer, Ronald; Milfont, Taciano L; Gavreliuc, Alin; Baguma, Peter; Bond, Michael Harris; Martin, Mariana; Gausel, Nicolay; Schwartz, Seth J; Des Rosiers, Sabrina E; Tatarko, Alexander; González, Roberto; Didier, Nicolas; Carrasco, Diego; Lay, Siugmin; Nizharadze, George; Torres, Ana; Camino, Leoncio; Abuhamdeh, Sami; Macapagal, Ma Elizabeth J; Koller, Silvia H; Herman, Ginette; Courtois, Marie; Fritsche, Immo; Espinosa, Agustín; Villamar, Juan A; Regalia, Camillo; Manzi, Claudia; Brambilla, Maria; Zinkeng, Martina; Jalal, Baland; Kusdil, Ersin; Amponsah, Benjamin; Çağlar, Selinay; Mekonnen, Kassahun Habtamu; Möller, Bettina; Zhang, Xiao; Schweiger Gallo, Inge; Prieto Gil, Paula; Lorente Clemares, Raquel; Campara, Gabriella; Aldhafri, Said; Fülöp, Márta; Pyszczynski, Tom; Kesebir, Pelin; Harb, Charles

2016-12-01

Variations in acquiescence and extremity pose substantial threats to the validity of cross-cultural research that relies on survey methods. Individual and cultural correlates of response styles when using 2 contrasting types of response mode were investigated, drawing on data from 55 cultural groups across 33 nations. Using 7 dimensions of self-other relatedness that have often been confounded within the broader distinction between independence and interdependence, our analysis yields more specific understandings of both individual- and culture-level variations in response style. When using a Likert-scale response format, acquiescence is strongest among individuals seeing themselves as similar to others, and where cultural models of selfhood favour harmony, similarity with others and receptiveness to influence. However, when using Schwartz's (2007) portrait-comparison response procedure, acquiescence is strongest among individuals seeing themselves as self-reliant but also connected to others, and where cultural models of selfhood favour self-reliance and self-consistency. Extreme responding varies less between the two types of response modes, and is most prevalent among individuals seeing themselves as self-reliant, and in cultures favouring self-reliance. As both types of response mode elicit distinctive styles of response, it remains important to estimate and control for style effects to ensure valid comparisons. © 2016 International Union of Psychological Science.

Irreversible dual inhibitory mode: the novel Btk inhibitor PLS-123 demonstrates promising anti-tumor activity in human B-cell lymphoma.

PubMed

Ding, Ning; Li, Xitao; Shi, Yunfei; Ping, Lingyan; Wu, Lina; Fu, Kai; Feng, Lixia; Zheng, Xiaohui; Song, Yuqin; Pan, Zhengying; Zhu, Jun

2015-06-20

The B-cell receptor (BCR) signaling pathway has gained significant attention as a therapeutic target in B-cell malignancies. Recently, several drugs that target the BCR signaling pathway, especially the Btk inhibitor ibrutinib, have demonstrated notable therapeutic effects in relapsed/refractory patients, which indicates that pharmacological inhibition of BCR pathway holds promise in B-cell lymphoma treatment. Here we present a novel covalent irreversible Btk inhibitor PLS-123 with more potent anti-proliferative activity compared with ibrutinib in multiple cellular and in vivo models through effective apoptosis induction and dual-action inhibitory mode of Btk activation. The phosphorylation of BCR downstream activating AKT/mTOR and MAPK signal pathways was also more significantly reduced after treatment with PLS-123 than ibrutinib. Gene expression profile analysis further suggested that the different selectivity profile of PLS-123 led to significant downregulation of oncogenic gene PTPN11 expression, which might also offer new opportunities beyond what ibrutinib has achieved. In addition, PLS-123 dose-dependently attenuated BCR- and chemokine-mediated lymphoma cell adhesion and migration. Taken together, Btk inhibitor PLS-123 suggested a new direction to pharmacologically modulate Btk function and develop novel therapeutic drug for B-cell lymphoma treatment.

Irreversible dual inhibitory mode: the novel Btk inhibitor PLS-123 demonstrates promising anti-tumor activity in human B-cell lymphoma

PubMed Central

Ding, Ning; Li, Xitao; Shi, Yunfei; Ping, Lingyan; Wu, Lina; Fu, Kai; Feng, Lixia; Zheng, Xiaohui; Song, Yuqin; Pan, Zhengying; Zhu, Jun

2015-01-01

The B-cell receptor (BCR) signaling pathway has gained significant attention as a therapeutic target in B-cell malignancies. Recently, several drugs that target the BCR signaling pathway, especially the Btk inhibitor ibrutinib, have demonstrated notable therapeutic effects in relapsed/refractory patients, which indicates that pharmacological inhibition of BCR pathway holds promise in B-cell lymphoma treatment. Here we present a novel covalent irreversible Btk inhibitor PLS-123 with more potent anti-proliferative activity compared with ibrutinib in multiple cellular and in vivo models through effective apoptosis induction and dual-action inhibitory mode of Btk activation. The phosphorylation of BCR downstream activating AKT/mTOR and MAPK signal pathways was also more significantly reduced after treatment with PLS-123 than ibrutinib. Gene expression profile analysis further suggested that the different selectivity profile of PLS-123 led to significant downregulation of oncogenic gene PTPN11 expression, which might also offer new opportunities beyond what ibrutinib has achieved. In addition, PLS-123 dose-dependently attenuated BCR- and chemokine-mediated lymphoma cell adhesion and migration. Taken together, Btk inhibitor PLS-123 suggested a new direction to pharmacologically modulate Btk function and develop novel therapeutic drug for B-cell lymphoma treatment. PMID:25944695

Reconstruction of the Fatty Acid Biosynthetic Pathway of Exiguobacterium antarcticum B7 Based on Genomic and Bibliomic Data.

PubMed

Kawasaki, Regiane; Baraúna, Rafael A; Silva, Artur; Carepo, Marta S P; Oliveira, Rui; Marques, Rodolfo; Ramos, Rommel T J; Schneider, Maria P C

2016-01-01

Exiguobacterium antarcticum B7 is extremophile Gram-positive bacteria able to survive in cold environments. A key factor to understanding cold adaptation processes is related to the modification of fatty acids composing the cell membranes of psychrotrophic bacteria. In our study we show the in silico reconstruction of the fatty acid biosynthesis pathway of E. antarcticum B7. To build the stoichiometric model, a semiautomatic procedure was applied, which integrates genome information using KEGG and RAST/SEED. Constraint-based methods, namely, Flux Balance Analysis (FBA) and elementary modes (EM), were applied. FBA was implemented in the sense of hexadecenoic acid production maximization. To evaluate the influence of the gene expression in the fluxome analysis, FBA was also calculated using the log2⁡FC values obtained in the transcriptome analysis at 0°C and 37°C. The fatty acid biosynthesis pathway showed a total of 13 elementary flux modes, four of which showed routes for the production of hexadecenoic acid. The reconstructed pathway demonstrated the capacity of E. antarcticum B7 to de novo produce fatty acid molecules. Under the influence of the transcriptome, the fluxome was altered, promoting the production of short-chain fatty acids. The calculated models contribute to better understanding of the bacterial adaptation at cold environments.

Quantitative proteomic analysis of cabernet sauvignon grape cells exposed to thermal stresses reveals alterations in sugar and phenylpropanoid metabolism.

PubMed

George, Iniga S; Pascovici, Dana; Mirzaei, Mehdi; Haynes, Paul A

2015-09-01

Grapes (Vitis vinifera) are a valuable fruit crop and wine production is a major industry. Global warming and expanded range of cultivation will expose grapes to more temperature stresses in future. Our study investigated protein level responses to abiotic stresses, with particular reference to proteomic changes induced by the impact of four different temperature stress regimes, including both hot and cold temperatures, on cultured grape cells. Cabernet Sauvignon cell suspension cultures grown at 26°C were subjected to 14 h of exposure to 34 and 42°C for heat stress, and 18 and 10°C for cold stress. Cells from the five temperatures were harvested in biological triplicates and label-free quantitative shotgun proteomic analysis was performed. A total of 2042 non-redundant proteins were identified from the five temperature points. Fifty-five proteins were only detected in extreme heat stress conditions (42°C) and 53 proteins were only detected at extreme cold stress conditions (10°C). Gene Ontology (GO) annotations of differentially expressed proteins provided insights into the metabolic pathways that are involved in temperature stress in grape cells. Sugar metabolism displayed switching between alternative and classical pathways during temperature stresses. Additionally, nine proteins involved in the phenylpropanoid pathway were greatly increased in abundance at extreme cold stress, and were thus found to be cold-responsive proteins. All MS data have been deposited in the ProteomeXchange with identifier PXD000977 (http://proteomecentral.proteomexchange.org/dataset/PXD000977). © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Arsenic metabolism in high altitude modern stromatolites revealed by metagenomic analysis.

PubMed

Kurth, Daniel; Amadio, Ariel; Ordoñez, Omar F; Albarracín, Virginia H; Gärtner, Wolfgang; Farías, María E

2017-04-21

Modern stromatolites thrive only in selected locations in the world. Socompa Lake, located in the Andean plateau at 3570 masl, is one of the numerous extreme Andean microbial ecosystems described over recent years. Extreme environmental conditions include hypersalinity, high UV incidence, and high arsenic content, among others. After Socompa's stromatolite microbial communities were analysed by metagenomic DNA sequencing, taxonomic classification showed dominance of Proteobacteria, Bacteroidetes and Firmicutes, and a remarkably high number of unclassified sequences. A functional analysis indicated that carbon fixation might occur not only by the Calvin-Benson cycle, but also through alternative pathways such as the reverse TCA cycle, and the reductive acetyl-CoA pathway. Deltaproteobacteria were involved both in sulfate reduction and nitrogen fixation. Significant differences were found when comparing the Socompa stromatolite metagenome to the Shark Bay (Australia) smooth mat metagenome: namely, those involving stress related processes, particularly, arsenic resistance. An in-depth analysis revealed a surprisingly diverse metabolism comprising all known types of As resistance and energy generating pathways. While the ars operon was the main mechanism, an important abundance of arsM genes was observed in selected phyla. The data resulting from this work will prove a cornerstone for further studies on this rare microbial community.

Attosecond Coherent Control of the Photo-Dissociation of Oxygen Molecules

NASA Astrophysics Data System (ADS)

Sturm, Felix; Ray, Dipanwita; Wright, Travis; Shivaram, Niranjan; Bocharova, Irina; Slaughter, Daniel; Ranitovic, Predrag; Belkacem, Ali; Weber, Thorsten

2016-05-01

Attosecond Coherent Control has emerged in recent years as a technique to manipulate the absorption and ionization in atoms as well as the dissociation of molecules on an attosecond time scale. Single attosecond pulses and attosecond pulse trains (APTs) can coherently excite multiple electronic states. The electronic and nuclear wave packets can then be coupled with a second pulse forming multiple interfering quantum pathways. We have built a high flux extreme ultraviolet (XUV) light source delivering APTs based on HHG that allows to selectively excite neutral and ion states in molecules. Our beamline provides spectral selectivity and attosecond interferometric control of the pulses. In the study presented here, we use APTs, generated by High Harmonic Generation in a high flux extreme ultraviolet light source, to ionize highly excited states of oxygen molecules. We identify the ionization/dissociation pathways revealing vibrational structure with ultra-high resolution ion 3D-momentum imaging spectroscopy. Furthermore, we introduce a delay between IR pulses and XUV/IR pulses to constructively or destructively interfere the ionization and dissociation pathways, thus, enabling the manipulation of both the O2+and the O+ ion yields with attosecond precision. Supported by DOE under Contract No. DE-AC02-05CH11231.

Comparative study between the results of effective index based matrix method and characterization of fabricated SU-8 waveguide

NASA Astrophysics Data System (ADS)

Samanta, Swagata; Dey, Pradip Kumar; Banerji, Pallab; Ganguly, Pranabendu

2017-01-01

A study regarding the validity of effective-index based matrix method (EIMM) for the fabricated SU-8 channel waveguides is reported. The design method is extremely fast compared to other existing numerical techniques, such as, BPM and FDTD. In EIMM, the effective index method was applied in depth direction of the waveguide and the resulted lateral index profile was analyzed by a transfer matrix method. By EIMM one can compute the guided mode propagation constants and mode profiles for each mode for any dimensions of the waveguides. The technique may also be used to design single mode waveguide. SU-8 waveguide fabrication was carried out by continuous-wave direct laser writing process at 375 nm wavelength. The measured propagation losses of these wire waveguides having air and PDMS as superstrates were 0.51 dB/mm and 0.3 dB/mm respectively. The number of guided modes, obtained theoretically as well as experimentally, for air-cladded waveguide was much more than that of PDMS-cladded waveguide. We were able to excite the isolated fundamental mode for the later by precise fiber positioning, and mode image was recorded. The mode profiles, mode indices, and refractive index profiles were extracted from this mode image of the fundamental mode which matched remarkably well with the theoretical predictions.

Wavefront measurement of single-mode quantum cascade laser beam for seed application in laser-produced plasma extreme ultraviolet system.

PubMed

Nowak, Krzysztof M; Ohta, Takeshi; Suganuma, Takashi; Yokotsuka, Toshio; Fujimoto, Junichi; Mizoguchi, Hakaru

2012-12-01

Quantum cascade laser (QCL) is a very attractive seed source for a multikilowatt pulsed CO2 lasers applied for driving extreme ultraviolet emitting plasmas. In this Letter, we investigate output beam properties of a QCL designed to address P18 and P20 lines of 10.6 micron band of CO2 molecule. In particular, output beam quality and stability are investigated for the first time. A well-defined linear polarization and a single-mode operation enabled a use of phase retrieval method for full description of QCL output beam. A direct, multi-image numerical phase retrieval technique was developed and successfully applied to the measured intensity patterns of a QCL beam. Very good agreement between the measured and reconstructed beam profiles was observed at distances ranging from QCL aperture to infinity, proving a good understanding of the beam propagation. The results also confirm a high spatial coherence and high stability of the beam parameters, the features expected from an excellent seed source.

From tunable core-shell nanoparticles to plasmonic drawbridges: Active control of nanoparticle optical properties

PubMed Central

Byers, Chad P.; Zhang, Hui; Swearer, Dayne F.; Yorulmaz, Mustafa; Hoener, Benjamin S.; Huang, Da; Hoggard, Anneli; Chang, Wei-Shun; Mulvaney, Paul; Ringe, Emilie; Halas, Naomi J.; Nordlander, Peter; Link, Stephan; Landes, Christy F.

2015-01-01

The optical properties of metallic nanoparticles are highly sensitive to interparticle distance, giving rise to dramatic but frequently irreversible color changes. By electrochemical modification of individual nanoparticles and nanoparticle pairs, we induced equally dramatic, yet reversible, changes in their optical properties. We achieved plasmon tuning by oxidation-reduction chemistry of Ag-AgCl shells on the surfaces of both individual and strongly coupled Au nanoparticle pairs, resulting in extreme but reversible changes in scattering line shape. We demonstrated reversible formation of the charge transfer plasmon mode by switching between capacitive and conductive electronic coupling mechanisms. Dynamic single-particle spectroelectrochemistry also gave an insight into the reaction kinetics and evolution of the charge transfer plasmon mode in an electrochemically tunable structure. Our study represents a highly useful approach to the precise tuning of the morphology of narrow interparticle gaps and will be of value for controlling and activating a range of properties such as extreme plasmon modulation, nanoscopic plasmon switching, and subnanometer tunable gap applications. PMID:26665175

A Single Mode Study of a Quasi-Geostrophic Convection-Driven Dynamo Model

NASA Astrophysics Data System (ADS)

Plumley, M.; Calkins, M. A.; Julien, K. A.; Tobias, S.

2017-12-01

Planetary magnetic fields are thought to be the product of hydromagnetic dynamo action. For Earth, this process occurs within the convecting, turbulent and rapidly rotating outer core, where the dynamics are characterized by low Rossby, low magnetic Prandtl and high Rayleigh numbers. Progress in studying dynamos has been limited by current computing capabilities and the difficulties in replicating the extreme values that define this setting. Asymptotic models that embrace these extreme parameter values and enforce the dominant balance of geostrophy provide an option for the study of convective flows with actual relevance to geophysics. The quasi-geostrophic dynamo model (QGDM) is a multiscale, fully-nonlinear Cartesian dynamo model that is valid in the asymptotic limit of low Rossby number. We investigate the QGDM using a simplified class of solutions that consist of a single horizontal wavenumber which enforces a horizontal structure on the solutions. This single mode study is used to explore multiscale time stepping techniques and analyze the influence of the magnetic field on convection.

Use of Compressive Osseointegration Endoprostheses for Massive Bone Loss From Tumor and Failed Arthroplasty: A Viable Option in the Upper Extremity.

PubMed

Goulding, Krista A; Schwartz, Adam; Hattrup, Steven J; Randall, R Lor; Lee, Donald; Rispoli, Damian M; Lerman, Daniel M; Beauchamp, Christopher

2017-06-01

Endoprostheses using principles of compressive osseointegration have shown good survivorship in several studies involving the lower extremity; however, no series to our knowledge have documented the use of this technology in the management of massive bone loss in the upper limb. (1) What proportion of upper extremity implants using compressive osseointegration fixation principles achieved durable short-term fixation, and what were the modes of failure? (2) What surgical complications resulted from reconstruction using this technique? A multiinstitutional retrospective review identified nine patients (five women; four men) who underwent 13 endoprosthetic replacements between 2003 and 2014 using compressive osseointegration (Compliant ® Pre-stress Device [CPS]; Biomet Inc, Warsaw, IN, USA) in the upper extremity, including two proximal humeri, two humeral diaphyses, seven distal humeri, and two proximal ulna. During the early part of that period, the indication for use of a compressive prosthesis in our centers was revision of a previous tumor reconstruction (allograft-prosthetic composite or stemmed endoprosthetic reconstruction) (three patients; five implants), or revision arthroplasty with massive bone loss (three patients, four implants); more recently, indications became somewhat more permissive and included posttraumatic bone loss (one patient, one implant), primary bone sarcoma, and resections with very short remaining end segments after diaphyseal resections (two patients, three implants). Minimum followup was 24 months; one patient (one implant) was lost to followup before that time with the implant intact at 14 months and no patients have died. The mean age of the patients was 45 years (range, 21-62 years). Mean followup was 68 months (range, 24-141 months). Implant revision for any cause and for failure of the CPS mechanism was recorded. Modes of failure were categorized as soft tissue, aseptic loosening, structural, infection, and tumor progression; CPS modes of failure were defined as lack of fixation, with or without bone or implant fracture. Of the 12 implants accounted for beyond 2 years, six had undergone revision of any kind. Only two revisions in two patients were attributable to lack of CPS fixation at the bone-implant interface; one of the patients also had periprosthetic and implant fracture develop through the traction bar. Other modes of failure were aseptic loosening of the standard ulnar component (two patients, two implants), bushing wear (one patient; one implant) and infection resulting in two-stage exchange and free soft tissue transfer with retention of the CPS spindle (one patient, one implant). Complications for all nine patients included one transient radial nerve palsy, one ulnar nerve sensory neurapraxia, one superficial infection, and two glenohumeral subluxations, one underwent revision surgery with implantation of a constrained liner. A compressive osseointegration endoprosthesis is an option for very difficult revisions or sarcoma resection in the upper extremity in which the remaining segment of host bone is too short for a conventional prosthesis. However, surgeons must inform patients that these are salvage operations, and revision surgery is common. Long-term followup of more patients is necessary to further document the survivorship of these implants in the upper extremity. Level IV, therapeutic study.

Petroleum Release Assessment and Impacts of Weather Extremes

EPA Science Inventory

Contaminated ground water and vapor intrusion are two major exposure pathways of concern at petroleum release sites. EPA has recently developed a model for petroleum vapor intrusion, called PVIScreen, which incorporates variability and uncertainty in input parameters. This ap...

First-principles Study of Phonons in Structural Phase Change of Ge-Sb-Te Compounds

NASA Astrophysics Data System (ADS)

Song, Young-Sun; Kim, Jeongwoo; Kim, Minjae; Jhi, Seung-Hoon

Ge-Sb-Te (GST) compounds, exhibiting substantial electrical and optical contrast at extremely fast switching modes, have attracted great attention for application as non-volatile memory devices. Despite extensive studies of GST compounds, the underlying mechanism for fast transitions between amorphous and crystalline phases is yet to be revealed. We study the vibrational property of various GST compounds and the role of nitrogen doping on phase-change processes using first-principles calculations. We find that a certain vibrational mode (Eu) plays a crucial role to determine transition temperatures, and that its frequency depends on the amount of Ge in GST. We also find that the nitrogen doping drives crystalline-amorphous transition at low power consumption modes. In addition, we discuss the effect of the spin-orbit coupling on vibration modes, which is known essential for correct description of the electrical property of GST. Our understanding of phonon modes in GST compounds paves the way for the improving the device performance especially in terms of switching speed and operating voltage.

Correlations Between Extreme Atmospheric Hazards and Global Teleconnections: Implications for Multihazard Resilience

NASA Astrophysics Data System (ADS)

Steptoe, H.; Jones, S. E. O.; Fox, H.

2018-03-01

Occurrences of concurrent extreme atmospheric hazards represent a significant area of uncertainty for organizations involved in disaster mitigation and risk management. Understanding risks posed by natural disasters and their relationship with global climate drivers is crucial in preparing for extreme events. In this review we quantify the strength of the physical mechanisms linking hazards and atmosphere-ocean processes. We demonstrate how research from the science community may be used to support disaster risk reduction and global sustainable development efforts. We examine peer-reviewed literature connecting 16 regions affected by extreme atmospheric hazards and eight key global drivers of weather and climate. We summarize current understanding of multihazard disaster risk in each of these regions and identify aspects of the global climate system that require further investigation to strengthen our resilience in these areas. We show that some drivers can increase the risk of concurrent hazards across different regions. Organizations that support disaster risk reduction, or underwrite exposure, in multiple regions may have a heightened risk of facing multihazard losses. We find that 15 regional hazards share connections via the El Niño-Southern Oscillation, with the Indian Ocean Dipole, North Atlantic Oscillation, and the Southern Annular Mode being secondary sources of significant regional interconnectivity. From a hazard perspective, rainfall over China shares the most connections with global drivers and has links to both Northern and Southern Hemisphere modes of variability. We use these connections to assess the global likelihood of concurrent hazard occurrence in support of multihazard resilience and disaster risk reduction goals.

Information transfer and synchronization among the scales of climate variability: clues for understanding anomalies and extreme events?

NASA Astrophysics Data System (ADS)

Palus, Milan

2017-04-01

Deeper understanding of complex dynamics of the Earth atmosphere and climate is inevitable for sustainable development, mitigation and adaptation strategies for global change and for prediction of and resilience against extreme events. Traditional (linear) approaches cannot explain or even detect nonlinear interactions of dynamical processes evolving on multiple spatial and temporal scales. Combination of nonlinear dynamics and information theory explains synchronization as a process of adjustment of information rates [1] and causal relations (à la Granger) as information transfer [2]. Information born in dynamical complexity or information transferred among systems on a way to synchronization might appear as an abstract quantity, however, information transfer is tied to a transfer of mass and energy, as demonstrated in a recent study using directed (causal) climate networks [2]. Recently, an information transfer across scales of atmospheric dynamics has been observed [3]. In particular, a climate oscillation with the period around 7-8 years has been identified as a factor influencing variability of surface air temperature (SAT) on shorter time scales. Its influence on the amplitude of the SAT annual cycle was estimated in the range 0.7-1.4 °C and the effect on the overall variability of the SAT anomalies (SATA) leads to the changes 1.5-1.7 °C in the annual SATA means. The strongest effect of the 7-8 year cycle was observed in the winter SATA means where it reaches 4-5 °C in central European station and reanalysis data [4]. In the dynamics of El Niño-Southern Oscillation, three principal time scales have been identified: the annual cycle (AC), the quasibiennial (QB) mode(s) and the low-frequency (LF) variability. An intricate causal network of information flows among these modes helps to understand the occurrence of extreme El Niño events, characterized by synchronization of the QB modes and AC, and modulation of the QB amplitude by the LF mode. The latter also influences the phase of the AC and QB modes. These examples provide an inspiration for a discussion how novel data analysis methods, based on topics from nonlinear dynamical systems, their synchronization, (Granger) causality and information transfer, in combination with dynamical and statistical models of different complexity, can help in understanding and prediction of climate variability on different scales and in estimating probability of occurrence of extreme climate events. [1] M. Palus, V. Komarek, Z. Hrncir, K. Sterbova, Phys. Rev. E, 63(4), 046211 (2001) http://www.cs.cas.cz/mp/epr/sir1-a.html [2] J. Hlinka, N. Jajcay, D. Hartman, M. Palus, Smooth Information Flow in Temperature Climate Network Reflects Mass Transport, submitted to Chaos. http://www.cs.cas.cz/mp/epr/vetry-a.html [3] M. Palus, Phys. Rev. Lett. 112 078702 (2014) http://www.cs.cas.cz/mp/epr/xf1-a.html [4] N. Jajcay, J. Hlinka, S. Kravtsov, A. A. Tsonis, M. Palus, Geophys. Res. Lett. 43(2), 902-909 (2016) http://www.cs.cas.cz/mp/epr/xfgrl1-a.html

Tapping mode imaging with an interfacial force microscope

NASA Astrophysics Data System (ADS)

Warren, O. L.; Graham, J. F.; Norton, P. R.

1997-11-01

In their present embodiment, sensors used in interfacial force microscopy do not have the necessary mechanical bandwidth to be employed as free-running tapping mode devices. We describe an extremely stable method of obtaining tapping mode images using feedback on the sensor. Our method is immune to small dc drifts in the force signal, and the prospect of diminishing the risk of damaging fragile samples is realized. The feasibility of the technique is demonstrated by our imaging work on a Kevlar fiber-epoxy composite. We also present a model which accounts for the frequency dependence of the sensor in air when operating under closed loop control. A simplified force modulation model is investigated to explore the effect of contact on the closed loop response of the sensor.

Near-field analysis of metallic DFB lasers at telecom wavelengths.

PubMed

Greusard, L; Costantini, D; Bousseksou, A; Decobert, J; Lelarge, F; Duan, G-H; De Wilde, Y; Colombelli, R

2013-05-06

We image in near-field the transverse modes of semiconductor distributed feedback (DFB) lasers operating at λ ≈ 1.3 μm and employing metallic gratings. The active region is based on tensile-strained InGaAlAs quantum wells emitting transverse magnetic polarized light and is coupled via an extremely thin cladding to a nano-patterned gold grating integrated on the device surface. Single mode emission is achieved, which tunes with the grating periodicity. The near-field measurements confirm laser operation on the fundamental transverse mode. Furthermore--together with a laser threshold reduction observed in the DFB lasers--it suggests that the patterning of the top metal contact can be a strategy to reduce the high plasmonic losses in this kind of systems.

Role of the NFκB-signaling pathway in cancer

PubMed Central

Zhou, Yujuan; Lin, Jingguan; Wang, Heran; Oyang, Linda; Tian, Yutong; Liu, Lu; Su, Min; Wang, Hui; Cao, Deliang; Liao, Qianjin

2018-01-01

Cancer is a group of cells that malignantly grow and proliferate uncontrollably. At present, treatment modes for cancer mainly comprise surgery, chemotherapy, radiotherapy, molecularly targeted therapy, gene therapy, and immunotherapy. However, the curative effects of these treatments have been limited thus far by specific characteristics of tumors. Abnormal activation of signaling pathways is involved in tumor pathogenesis and plays critical roles in growth, progression, and relapse of cancers. Targeted therapies against effectors in oncogenic signaling have improved the outcomes of cancer patients. NFκB is an important signaling pathway involved in pathogenesis and treatment of cancers. Excessive activation of the NFκB-signaling pathway has been documented in various tumor tissues, and studies on this signaling pathway for targeted cancer therapy have become a hot topic. In this review, we update current understanding of the NFκB-signaling pathway in cancer. PMID:29695914

Extrahepatic portal obstruction without hepatopetal pathway associated with congenital arterioportal fistula: a case report.

PubMed

Maeda, N; Horie, Y; Koda, M; Suou, T; Andachi, H; Nakamura, K; Kawasaki, H

1997-01-01

Extrahepatic portal obstruction is one of the causes of portal hypertension, in which well-developed hepatopetal pathways are commonly recognized. Herein an extremely rare case of extrahepatic portal obstruction without hepatopetal pathway, probably caused by arterioportal fistula, is reported. The patient was a normally matured 16-year-old girl admitted for further evaluation of jaundice, presenting with the clinical manifestations of the portal hypertension associated with hypersplenism and portosystemic venous shunt. Celiac angiography clearly demonstrated an intrahepatic arterial aneurysm fed by the right hepatic artery shunting to the superior mesenteric vein, and portography disclosed complete obstruction of the portal trunk with conspicuous hepatofugal pathway but no hepatopetal collateral veins. The exact mechanism of this phenomenon is not known and whether the extrahepatic portal obstruction was primary or secondary is still obscure. However, this is the first case report in the world literature describing extrahepatic portal obstruction with absence of hepatopetal pathway.

Identifying alternate pathways for climate change to impact inland recreational fishers

USGS Publications Warehouse

Hunt, Len M.; Fenichel, Eli P.; Fulton, David C.; Mendelsohn, Robert; Smith, Jordan W.; Tunney, Tyler D.; Lynch, Abigail J.; Paukert, Craig P.; Whitney, James E.

2016-01-01

Fisheries and human dimensions literature suggests that climate change influences inland recreational fishers in North America through three major pathways. The most widely recognized pathway suggests that climate change impacts habitat and fish populations (e.g., water temperature impacting fish survival) and cascades to impact fishers. Climate change also impacts recreational fishers by influencing environmental conditions that directly affect fishers (e.g., increased temperatures in northern climates resulting in extended open water fishing seasons and increased fishing effort). The final pathway occurs from climate change mitigation and adaptation efforts (e.g., refined energy policies result in higher fuel costs, making distant trips more expensive). To address limitations of past research (e.g., assessing climate change impacts for only one pathway at a time and not accounting for climate variability, extreme weather events, or heterogeneity among fishers), we encourage researchers to refocus their efforts to understand and document climate change impacts to inland fishers.

Influence of the two distinct boreal summer intraseasonal oscillation modes on extreme rainfall and heat wave occurrence in the Northern Hemisphere

NASA Astrophysics Data System (ADS)

Lee, J. Y.; Hsu, P. C.; Ha, K. J.; Tsou, C. H.

2016-12-01

How boreal summer intraseasonal oscillation (BSISO) modulates the probability and spatial distributions of extreme rainfall and heat wave occurrence in the Northern Hemisphere (NH) is examined by utilizing the real-time multivariate BSISO indices recently proposed. The BSISO1 represents the canonical northward propagating variability that often occurs in conjunction with the eastward propagating Madden-Julian Oscillation with quasi-oscillating periods of 30-60 days. The BSISO2 represents the northward/northwestward propagating variability with periods of 10-30 days during primarily the pre-monsoon and monsoon-onset season. The BSISO1 circulation cells are more Rossby wave like with a northwest to southeast slope, whereas the circulation associated with the BSISO2 is more elongated and front-like with a southwest to northeast slope. We show that the two distinct BSISO modes have strong impacts on extreme weather events in many parts of the NH depending on region and their phases for the last three decades. Although the BSISO-related convective signals tend to be weakened after reaching mid-latitude, the corresponding atmospheric circulation anomalies remain significant and propagate globally thus exerting global impacts. To better understand the linkage between the BSISO and extreme weather occurrence, we further investigate physical processes contributing to heat wave occurrence in association with the BSISO modes particularly over the four key regions that are central India (CI), Yangtze River valley (YR) in China, Japan, and Korean Peninsula (KP). It is found that a significant increase in heat wave occurrence over CI (YR) is observed during phases 2-3 (8-1) of BSISO2 when the 10-30-day anticyclonic and descending anomaly induces enhanced upward thermal heating and sensible heat flux (warm advection) around the areas. On the other hand, the northeastward propagating BSISO1 is closely connected to the increased heat wave probability over JP and KP. During phases 7-8 of BSISO1, the 30-60-day subsidence along with the low-level anticyclonic anomaly moves into Northeast Asia, leading enhanced diabatic (adiabatic) warming near surface in JP (KP).

E. coli chemotaxis and super-diffusion

NASA Astrophysics Data System (ADS)

Dobnikar, Jure; Matthäus, Franziska; Jagodic, Marko

2010-03-01

The bacteria E. coli actively propel by switching between clockwise and anti-clockwise rotation of the flagella attached to their cell membranes. This results in two modes of motion: tumbling and swimming. The switching between the two modes is coupled to the ligand sensing through the chemotactic signalling pathway inside the cell. We modelled the signalling pathway and performed numerical simulations of the chemotactic motion of a large number of E. coli bacteria under various external conditions. We have shown that under certain conditions the thermal noise in the level of receptor-bound CheR (an enzyme responsible for methylation of the receptor sites) leads to super-diffusive behaviour (L'evy walk) which is advantageous for the bacterial populations in environments with scarce food. Exerting external pressure we might observe evolution of the wild-type to the super-diffusive populations.

Whole genome mRNA transcriptomics analysis reveals different modes of action of the diarrheic shellfish poisons okadaic acid and dinophysis toxin-1 versus azaspiracid-1 in Caco-2 cells.

PubMed

Bodero, Marcia; Hoogenboom, Ron L A P; Bovee, Toine F H; Portier, Liza; de Haan, Laura; Peijnenburg, Ad; Hendriksen, Peter J M

2018-02-01

A study with DNA microarrays was performed to investigate the effects of two diarrhetic and one azaspiracid shellfish poison, okadaic acid (OA), dinophysistoxin-1 (DTX-1) and azaspiracid-1 (AZA-1) respectively, on the whole-genome mRNA expression of undifferentiated intestinal Caco-2 cells. Previously, the most responding genes were used to develop a dedicated array tube test to screen shellfish samples on the presence of these toxins. In the present study the whole genome mRNA expression was analyzed in order to reveal modes of action and obtain hints on potential biomarkers suitable to be used in alternative bioassays. Effects on key genes in the most affected pathways and processes were confirmed by qPCR. OA and DTX-1 induced almost identical effects on mRNA expression, which strongly indicates that OA and DTX-1induce similar toxic effects. Biological interpretation of the microarray data indicates that both compounds induce hypoxia related pathways/processes, the unfolded protein response (UPR) and endoplasmic reticulum (ER) stress. The gene expression profile of AZA-1 is different and shows increased mRNA expression of genes involved in cholesterol synthesis and glycolysis, suggesting a different mode of action for this toxin. Future studies should reveal whether identified pathways provide suitable biomarkers for rapid detection of DSPs in shellfish. Copyright © 2017 The Authors. Published by Elsevier Ltd.. All rights reserved.

Stable Isotope-Assisted Metabolic Profiling Reveals Growth Mode Dependent Differential Metabolism and Multiple Catabolic Pathways of l-Phenylalanine in Rubrivivax benzoatilyticus JA2.

PubMed

Mekala, Lakshmi Prasuna; Mohammed, Mujahid; Chintalapati, Sasikala; Chintalapati, Venkata Ramana

2018-01-05

Anoxygenic phototrophic bacteria are metabolically versatile and survive under different growth modes using diverse organic compounds, yet their metabolic diversity is largely unexplored. In the present study, we employed stable-isotope-assisted metabolic profiling to unravel the l-phenylalanine catabolism in Rubrivivax benzoatilyticus JA2 under varying growth modes. Strain JA2 grows under anaerobic and aerobic conditions by utilizing l-phenylalanine as a nitrogen source. Furthermore, ring-labeled 13 C 6 -phenylalanine feeding followed by liquid chromatography-mass spectrometry exometabolite profiling revealed 60 labeled metabolic features (M + 6, M + 12, and M + 18) derived solely from l-phenylalanine, of which 11 were identified, 7 putatively identified, and 42 unidentified under anaerobic and aerobic conditions. However, labeled metabolites were significantly higher in aerobic compared to anaerobic conditions. Furthermore, detected metabolites and enzyme activities indicated multiple l-phenylalanine catabolic routes mainly Ehrlich, homogentisate-dependent melanin, benzenoid, and unidentified pathways operating under anaerobic and aerobic conditions in strain JA2. Interestingly, the study indicated l-phenylalanine-dependent and independent benzenoid biosynthesis in strain JA2 and a differential flux of l-phenylalanine to Ehrlich and benzenoid pathways under anaerobic and aerobic conditions. Additionally, unidentified labeled metabolites strongly suggest the presence of unknown phenylalanine catabolic routes in strain JA2. Overall, the study uncovered the l-phenylalanine catabolic diversity in strain JA2 and demonstrated the potential of stable isotope-assisted metabolomics in unraveling the hidden metabolic repertoire.

Extremely High Peak Power Obtained at 29 GHZ Microwave Pulse Generation

NASA Astrophysics Data System (ADS)

Rostov, V. V.; Gunin, A. V.; Romanchenko, I. V.; Pedos, M. S.; Rukin, S. N.; Sharypov, K. A.; Shunailov, S. A.; Ul'maskulov, M. R.; Yalandin, M. I.

2017-12-01

The paper presents research results on enhancing the peak power of microwave pulses with sub- and nanosecond length using a backward-wave oscillator (BWO) operating at 29 GHz frequency and possessing a reproducible phase structure. Experiments are conducted in two modes on a high-current electron accelerator with the required electron beam power. In the first (superradiation) mode, which utilizes the elongated slow-wave structure, the BWO peak power is 3 GW at 180 ns pulse duration (full width at halfmaximum, FWHM). In the second (quasi-stationary) mode, the BWO peak power reaches 600 MW at 2 ns pulse duration (FWHM). The phase spread from pulse to pulse can vary from units to several tens of percent in a nanosecond pulse mode. The experiments do not show any influence of microwave breakdown on the BWO power generation and radiation pulse duration.

Validation of the 'full reconnection model' of the sawtooth instability in KSTAR

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nam, Y. B.; Ko, J. S.; Choe, G. H.

In this paper, the central safety factor (q 0) during sawtooth oscillation has been measured with a great accuracy with the motional Stark effect (MSE) system on KSTAR and the measured value was However, this measurement alone cannot validate the disputed full and partial reconnection models definitively due to non-trivial off-set error (~0.05). Supplemental experiment of the excited m = 2, m = 3 modes that are extremely sensitive to the background q 0 and core magnetic shear definitively validates the 'full reconnection model'. The radial position of the excited modes right after the crash and time evolution into themore » 1/1 kink mode before the crash in a sawtoothing plasma suggests that in the MHD quiescent period after the crash and before the crash. Finally, additional measurement of the long lived m = 3, m = 5 modes in a non-sawtoothing discharge (presumably ) further validates the 'full reconnection model'.« less

Role of antenna modes and field enhancement in second harmonic generation from dipole nanoantennas.

PubMed

de Ceglia, Domenico; Vincenti, Maria Antonietta; De Angelis, Costantino; Locatelli, Andrea; Haus, Joseph W; Scalora, Michael

2015-01-26

We study optical second harmonic generation from metallic dipole antennas with narrow gaps. Enhancement of the fundamental-frequency field in the gap region plays a marginal role on conversion efficiency. In the symmetric configuration, i.e., with the gap located at the center of the antenna axis, reducing gap size induces a significant red-shift of the maximum conversion efficiency peak. Either enhancement or inhibition of second-harmonic emission may be observed as gap size is decreased, depending on the antenna mode excited at the harmonic frequency. The second-harmonic signal is extremely sensitive to the asymmetry introduced by gap's displacements with respect to the antenna center. In this situation, second-harmonic light can couple to all the available antenna modes. We perform a multipolar analysis that allows engineering the far-field SH emission and find that the interaction with quasi-odd-symmetry modes generates radiation patterns with a strong dipolar component.

Excitation of ultrasharp trapped-mode resonances in mirror-symmetric metamaterials

NASA Astrophysics Data System (ADS)

Yang, Shengyan; Liu, Zhe; Xia, Xiaoxiang; E, Yiwen; Tang, Chengchun; Wang, Yujin; Li, Junjie; Wang, Li; Gu, Changzhi

2016-06-01

We experimentally demonstrate a metamaterial structure composed of two mirror-symmetric joint split ring resonators (JSRRs) that support extremely sharp trapped-mode resonance with a large modulation depth in the terahertz region. Contrary to the regular mirror-arranged SRR arrays in which both the subradiant inductive-capacitive (LC) resonance and quadrupole-mode resonance can be excited, our designed structure features a metallic microstrip bridging the adjacent SRRs, which leads to the emergence of an otherwise inaccessible ultrahigh-quality-factor resonance. The ultrasharp resonance occurs near the Wood-Rayleigh anomaly frequency, and the underlying mechanism can be attributed to the strong coupling between the in-plane propagating collective lattice surface mode originating from the array periodicity and localized surface plasmon resonance in mirror-symmetric coupled JSRRs, which dramatically reduces radiative damping. The ultrasharp resonance shows great potential for multifunctional applications such as plasmonic switching, low-power nonlinear processing, and chemical and biological sensing.

Validation of the 'full reconnection model' of the sawtooth instability in KSTAR

DOE PAGES

Nam, Y. B.; Ko, J. S.; Choe, G. H.; ...

2018-03-26

In this paper, the central safety factor (q 0) during sawtooth oscillation has been measured with a great accuracy with the motional Stark effect (MSE) system on KSTAR and the measured value was However, this measurement alone cannot validate the disputed full and partial reconnection models definitively due to non-trivial off-set error (~0.05). Supplemental experiment of the excited m = 2, m = 3 modes that are extremely sensitive to the background q 0 and core magnetic shear definitively validates the 'full reconnection model'. The radial position of the excited modes right after the crash and time evolution into themore » 1/1 kink mode before the crash in a sawtoothing plasma suggests that in the MHD quiescent period after the crash and before the crash. Finally, additional measurement of the long lived m = 3, m = 5 modes in a non-sawtoothing discharge (presumably ) further validates the 'full reconnection model'.« less

LS IV — 14°116 : A Time-Resolved Spectroscopic Study

NASA Astrophysics Data System (ADS)

Martin, Pamela; Jeffery, C. Simon

2017-12-01

LSIV-14 116 is a very unusual subdwarf B star. It pulsates non-radially with high-order g-modes, these pulsations are unexpected and unexplained, as the effective temperature is 6 000K hotter than the blue edge of the hot subdwarf g-mode instability strip. Its spectrum is enriched in helium which is not seen in either the V361 Hya (p-mode pulsators) or the V1093 Her stars (g-mode pulsators). Even more unusual is the 4 dex overabundance of zirconium, yttrium, and strontium. It is proposed that these over-abundances are a result of extreme chemical stratification driven by radiative levitation. We have over 20hrs of VLT/UVES spectroscopy from which we have obtained radial velocity curves for individual absorption lines. We are currently exploring ways in which to resolve the photospheric motion as a function of optical depth.

Are historical values of ionospheric parameters from ionosondes overestimated?

NASA Astrophysics Data System (ADS)

Laštovička, J.; Koucká Knížová, P.; Kouba, D.

2012-04-01

Ionogram-scaled values from pre-digital ionosonde times had been derived from ionograms under the assumption of the vertical reflection of ordinary mode of sounding radio waves. Classical ionosondes were unable to distinguish between the vertical and oblique reflections and in the case of the Es-layer also between the ordinary and extraordinary mode reflections due to mirror-like reflections. However, modern digisondes determine clearly the oblique or extraordinary mode reflections. Evaluating the Pruhonice digisonde ionograms in "classical" and in "correct" way we found for seven summers (2004-2010) that among strong foEs (> 6 MHz) only 10% of foEs values were correct and 90% were artificially enhanced in average by 1 MHz, in extreme cases by more than 3 MHz (some oblique reflections). 34% of all reflections were oblique reflections. With other ionospheric parameters like foF2 or foE the problem is less severe because non-mirror reflection makes delay of the extraordinary mode with respect to the ordinary mode and they are separated on ionograms, and oblique reflections are less frequent than with the patchy Es layer. At high latitudes another problem is caused by the z-mode, which is sometimes difficult to be distinguished from the ordinary mode.

Direct control of transitions between different mode-locking states of a fiber laser

NASA Astrophysics Data System (ADS)

Ilday, Fatih; Teamir, Tesfay; Iegorov, Roman; Makey, Ghaith

Mode-locking corresponds to a far-from-equilibrium steady state of a laser, whereby extremely short pulses can be produced. Capability to directly control mode-locking states can be used to improve laser performance with numerous applications, as well as shed light on their far-from-equilibrium physics using the laser as an experimental platform. Here, we demonstrate direct control of the mode-locking state using spectral pulse shaping by incorporating a spatial light modulator at a Fourier plane inside the cavity of an Yb-doped fiber laser. We show that we can halt and restart mode-locking, suppress instabilities, induce controlled reversible and irreversible transitions between mode-locking states, and perform advanced pulse shaping on pulses as short as 40 fs. This capability can be used to experimentally investigate bifurcations, reversible and irreversible transitions, by selecting, steering, and even competing various mode-locking states. Such studies can explore collective dynamics of dissipative soliton molecules, and ultimately test emerging theories about far-from-equilibrium physics, where there is an acute lack of experimental systems that are sufficiently well controlled. ERC CoG 617521, TUBITAK 113F319.

Influence of Extreme Storm Events on West Florida Shelf CDOM Distributions.

EPA Science Inventory

Colored Dissolved Organic Matter (CDOM) distribution and signatures provide vital information about the amount and composition of organic material in aquatic environments. This information is critical for deciphering the sources and biogeochemical pathways of organic carbon, and...

Studying the Function of the Phosphorylated Pathway of Serine Biosynthesis in Arabidopsis thaliana.

PubMed

Krueger, Stephan; Benstein, Ruben M; Wulfert, Sabine; Anoman, Armand D; Flores-Tornero, María; Ros, Roc

2017-01-01

Photorespiration is an essential pathway in photosynthetic organisms and is particularly important to detoxify and recycle 2-phosphoglycolate (2-PG), a by-product of oxygenic photosynthesis. The enzymes that catalyze the reactions in the photorespiratory core cycle and closely associated pathways have been identified; however, open questions remain concerning the metabolic network in which photorespiration is embedded. The amino acid serine represents one of the major intermediates in the photorespiratory pathway and photorespiration is thought to be the major source of serine in plants. The restriction of photorespiration to autotrophic cells raises questions concerning the source of serine in heterotrophic tissues. Recently, the phosphorylated pathway of serine biosynthesis has been found to be extremely important for plant development and metabolism. In this protocol, we describe a detailed methodological workflow to analyze the generative and vegetative phenotypes of plants deficient in the phosphorylated pathway of serine biosynthesis, which together allow a better understanding of its function in plants.

A novel hybrid model for air quality index forecasting based on two-phase decomposition technique and modified extreme learning machine.

PubMed

Wang, Deyun; Wei, Shuai; Luo, Hongyuan; Yue, Chenqiang; Grunder, Olivier

2017-02-15

The randomness, non-stationarity and irregularity of air quality index (AQI) series bring the difficulty of AQI forecasting. To enhance forecast accuracy, a novel hybrid forecasting model combining two-phase decomposition technique and extreme learning machine (ELM) optimized by differential evolution (DE) algorithm is developed for AQI forecasting in this paper. In phase I, the complementary ensemble empirical mode decomposition (CEEMD) is utilized to decompose the AQI series into a set of intrinsic mode functions (IMFs) with different frequencies; in phase II, in order to further handle the high frequency IMFs which will increase the forecast difficulty, variational mode decomposition (VMD) is employed to decompose the high frequency IMFs into a number of variational modes (VMs). Then, the ELM model optimized by DE algorithm is applied to forecast all the IMFs and VMs. Finally, the forecast value of each high frequency IMF is obtained through adding up the forecast results of all corresponding VMs, and the forecast series of AQI is obtained by aggregating the forecast results of all IMFs. To verify and validate the proposed model, two daily AQI series from July 1, 2014 to June 30, 2016 collected from Beijing and Shanghai located in China are taken as the test cases to conduct the empirical study. The experimental results show that the proposed hybrid model based on two-phase decomposition technique is remarkably superior to all other considered models for its higher forecast accuracy. Copyright © 2016 Elsevier B.V. All rights reserved.

The CHARIS High-Contrast Integral-Field Spectrograph

NASA Technical Reports Server (NTRS)

Groff, Tyler D.; Chilcote, Jeffrey; Brandt, Timothy; Kasdin, N. Jeremy; Galvin, Michael; Loomis, Craig; Rizzo, Maxime; Knapp, Gillian; Guyon, Olivier; Jovanovic, Nemanja;

High temperature sensing using higher-order-mode rejected sapphire-crystal fiber gratings

NASA Astrophysics Data System (ADS)

Zhan, Chun; Kim, Jae Hun; Lee, Jon; Yin, Stuart; Ruffin, Paul; Luo, Claire

2007-09-01

In this paper, we report the fabrication of higher-order-mode rejected fiber Bragg gratings (FBGs) in sapphire crystal fiber using infrared (IR) femtosecond laser illumination. The grating is tested in high temperature furnace up to 1600 degree Celsius. As sapphire fiber is only available as highly multimode fiber, a scheme to filter out higher order modes in favor for the fundamental mode is theoretically evaluated and experimentally demonstrated. The approach is to use an ultra thin sapphire crystal fiber (60 micron in diameter) to decrease the number of modes. The small diameter fiber also enables bending the fiber to certain radius which is carefully chosen to provide low loss for the fundamental mode LP01 and high loss for the other high-order modes. After bending, less-than-2-nm resonant peak bandwidth is achieved. The grating spectrum is improved, and higher resolution sensing measurement can be achieved. This mode filtering method is very easy to implement. Furthermore, the sapphire fiber is sealed with hi-purity alumina ceramic cement inside a flexible high temperature titanium tube, and the highly flexible titanium tube offers a robust packaging to sapphire fiber. Our high temperature sapphire grating sensor is very promising in extremely high temperature sensing application.

Automatic vibration mode selection and excitation; combining modal filtering with autoresonance

NASA Astrophysics Data System (ADS)

Davis, Solomon; Bucher, Izhak

2018-02-01

Autoresonance is a well-known nonlinear feedback method used for automatically exciting a system at its natural frequency. Though highly effective in exciting single degree of freedom systems, in its simplest form it lacks a mechanism for choosing the mode of excitation when more than one is present. In this case a single mode will be automatically excited, but this mode cannot be chosen or changed. In this paper a new method for automatically exciting a general second-order system at any desired natural frequency using Autoresonance is proposed. The article begins by deriving a concise expression for the frequency of the limit cycle induced by an Autoresonance feedback loop enclosed on the system. The expression is based on modal decomposition, and provides valuable insight into the behavior of a system controlled in this way. With this expression, a method for selecting and exciting a desired mode naturally follows by combining Autoresonance with Modal Filtering. By taking various linear combinations of the sensor signals, by orthogonality one can "filter out" all the unwanted modes effectively. The desired mode's natural frequency is then automatically reflected in the limit cycle. In experiment the technique has proven extremely robust, even if the amplitude of the desired mode is significantly smaller than the others and the modal filters are greatly inaccurate.

Atmospheric circulation types and extreme areal precipitation in southern central Europe

NASA Astrophysics Data System (ADS)

Jacobeit, Jucundus; Homann, Markus; Philipp, Andreas; Beck, Christoph

2017-04-01

Gridded daily rainfall data for southern central Europe are aggregated to regions of similar precipitation variability by means of S-mode principal component analyses separately for the meteorological seasons. Atmospheric circulation types (CTs) are derived by a particular clustering technique including large-scale fields of SLP, vertical wind and relative humidity at the 700 hPa level as well as the regional rainfall time series. Multiple regression models with monthly CT frequencies as predictors are derived for monthly frequencies and amounts of regional precipitation extremes (beyond the 95 % percentile). Using predictor output from different global climate models (ECHAM6, ECHAM5, EC-EARTH) for different scenarios (RCP4.5, RCP8.5, A1B) and two projection periods (2021-2050, 2071-2100) leads to assessments of future changes in regional precipitation extremes. Most distinctive changes are indicated for the summer season with mainly increasing extremes for the earlier period and widespread decreasing extremes towards the end of the 21st century, mostly for the strong scenario. Considerable uncertainties arise from the predictor use of different global climate models, especially during the winter and spring seasons.

Can test fields destroy the event horizon in the Kerr–Taub–NUT spacetime?

NASA Astrophysics Data System (ADS)

Düztaş, Koray

2018-02-01

In this work we investigate if the interaction of the Kerr–Taub–NUT spacetime with test scalar and neutrino fields can lead to the destruction of the event horizon. It turns out that both extremal and nearly extremal black holes can be destroyed by scalar and neutrino fields if the initial angular momentum of the spacetime is sufficiently large relative to its mass and NUT charge. This is the first example in which a classical field satisfying the null energy condition can actually destroy an extremal black hole. For scalar fields, the modes that can lead to the destruction of the horizon are restricted to a narrow range due to superradiance. Since superradiance does not occur for neutrino fields, the destruction of the horizon by neutrino fields is generic, and it cannot be fixed by backreaction effects. We also show that the extremal black holes that can be destroyed by scalar fields correspond to naked singularities in the Kerr limit, in accord with the previous results which imply that extremal Kerr black holes cannot be destroyed by scalar test fields.

Higgs amplitude mode in the BCS superconductors Nb1-xTi(x)N induced by terahertz pulse excitation.

PubMed

Matsunaga, Ryusuke; Hamada, Yuki I; Makise, Kazumasa; Uzawa, Yoshinori; Terai, Hirotaka; Wang, Zhen; Shimano, Ryo

2013-08-02

Ultrafast responses of BCS superconductor Nb(1-x)Ti(x)N films in a nonadiabatic excitation regime were investigated by using terahertz (THz) pump-THz probe spectroscopy. After an instantaneous excitation with the monocycle THz pump pulse, a transient oscillation emerges in the electromagnetic response in the BCS gap energy region. The oscillation frequency coincides with the asymptotic value of the BCS gap energy, indicating the appearance of the theoretically anticipated collective amplitude mode of the order parameter, namely the Higgs amplitude mode. Our result opens a new pathway to the ultrafast manipulation of the superconducting order parameter by optical means.

Optimal coupling to high-Q whispering gallery modes with a sub-wavelength metallic grating coupler

NASA Astrophysics Data System (ADS)

Zhou, Y.; Gu, B.; Yu, X.; Luan, F.

2015-03-01

Gold grating patterned on the end facet of an optical fiber is able to excite whispering gallery mode (WGM) in a silica microsphere. With a direct pathway of the metal reflection, the coupled WGM is able to superimpose and create an asymmetric Fano resonance. Since multiple resonances are present - the WGM, grating reflection, and a weak Fabry-Perot resonance along the diameter of the sphere - it is difficult to evaluate the power efficiency directly from the measured spectrum. Using temporal coupled-mode theory, a general model is constructed for the end-fire coupling from a grating to a WGM resonator.

Nonlocal response in plasmonic waveguiding with extreme light confinement

NASA Astrophysics Data System (ADS)

Toscano, Giuseppe; Raza, Søren; Yan, Wei; Jeppesen, Claus; Xiao, Sanshui; Wubs, Martijn; Jauho, Antti-Pekka; Bozhevolnyi, Sergey I.; Mortensen, N. Asger

2013-07-01

We present a novel wave equation for linearized plasmonic response, obtained by combining the coupled real-space differential equations for the electric field and current density. Nonlocal dynamics are fully accounted for, and the formulation is very well suited for numerical implementation, allowing us to study waveguides with subnanometer cross-sections exhibiting extreme light confinement. We show that groove and wedge waveguides have a fundamental lower limit in their mode confinement, only captured by the nonlocal theory. The limitation translates into an upper limit for the corresponding Purcell factors, and thus has important implications for quantum plasmonics.

Chromosomal Evolution in Chiroptera

PubMed Central

Sotero-Caio, Cibele G.; Baker, Robert J.; Volleth, Marianne

2017-01-01

Chiroptera is the second largest order among mammals, with over 1300 species in 21 extant families. The group is extremely diverse in several aspects of its natural history, including dietary strategies, ecology, behavior and morphology. Bat genomes show ample chromosome diversity (from 2n = 14 to 62). As with other mammalian orders, Chiroptera is characterized by clades with low, moderate and extreme chromosomal change. In this article, we will discuss trends of karyotypic evolution within distinct bat lineages (especially Phyllostomidae, Hipposideridae and Rhinolophidae), focusing on two perspectives: evolution of genome architecture, modes of chromosomal evolution, and the use of chromosome data to resolve taxonomic problems. PMID:29027987

Pulsed beam of extremely large helium droplets

NASA Astrophysics Data System (ADS)

Kuma, Susumu; Azuma, Toshiyuki

2017-12-01

We generated a pulsed helium droplet beam with average droplet diameters of up to 2 μ m using a solenoid pulsed valve operated at temperatures as low as 7 K. The droplet diameter was controllable over two orders of magnitude, or six orders of the number of atoms per droplet, by lowering the valve temperature from 21 to 7 K. A sudden droplet size change attributed to the so-called ;supercritical expansion; was firstly observed in pulsed mode, which is necessary to obtain the micrometer-scale droplets. This beam source is beneficial for experiments that require extremely large helium droplets in intense, pulsed form.

Symbolic Immortality in Ordinary Contexts: Impediments to the Nuclear Era.

ERIC Educational Resources Information Center

Schmitt, Raymond L.

1982-01-01

Lifton's writings indicate that fear of nuclear holocaust has severely impaired and threatens to negate traditional modes of symbolic immortality in America. Lifton's research, however, has been limited to extreme contexts. Data were triangulated in four distinctive American contexts. Found substantial negative evidence of Lifton's suspicions in…

British Higher Education and Its Older Clients.

ERIC Educational Resources Information Center

Woodley, Alan; Wilson, Jane

2002-01-01

Using results from a survey of British graduates, examined outcomes of higher education for older students, including their current employment situation, relationship of degree to job, and student satisfaction. Found that mature students are an extremely heterogeneous group, with differences in outcomes by age and mode of study. (EV)

Facet-dependent solar ammonia synthesis of BiOCl nanosheets via a proton-assisted electron transfer pathway

NASA Astrophysics Data System (ADS)

Li, Hao; Shang, Jian; Shi, Jingu; Zhao, Kun; Zhang, Lizhi

2016-01-01

Under the pressure of a fossil fuels shortage and global climate change, solar ammonia synthesis and the need to develop N2 fixation under mild conditions is becoming more urgent need; however, their intrinsic mechanisms still remain unclear. Herein, we demonstrate that the kinetic inertia of N2 can be overcome using oxygen vacancies (OVs) of BiOCl as the catalytic centers to create lower energy molecular steps, which are amendable for the solar light driven N-N triple bond cleavage via a proton-assisted electron transfer pathway. Moreover, the distinct structures of OVs on different BiOCl facets strongly determine the N2 fixation pathways by influencing both the adsorption structure and the activation level of N2. The fixation of terminal end-on bound N2 on the OVs of BiOCl {001} facets follows an asymmetric distal mode by selectively generating NH3, while the reduction of side-on bridging N2 on the OVs of BiOCl {010} facets is more energetically favorable in a symmetric alternating mode to produce N2H4 as the main intermediate.Under the pressure of a fossil fuels shortage and global climate change, solar ammonia synthesis and the need to develop N2 fixation under mild conditions is becoming more urgent need; however, their intrinsic mechanisms still remain unclear. Herein, we demonstrate that the kinetic inertia of N2 can be overcome using oxygen vacancies (OVs) of BiOCl as the catalytic centers to create lower energy molecular steps, which are amendable for the solar light driven N-N triple bond cleavage via a proton-assisted electron transfer pathway. Moreover, the distinct structures of OVs on different BiOCl facets strongly determine the N2 fixation pathways by influencing both the adsorption structure and the activation level of N2. The fixation of terminal end-on bound N2 on the OVs of BiOCl {001} facets follows an asymmetric distal mode by selectively generating NH3, while the reduction of side-on bridging N2 on the OVs of BiOCl {010} facets is more energetically favorable in a symmetric alternating mode to produce N2H4 as the main intermediate. Electronic supplementary information (ESI) available: Other experimental details, additional SEM and TEM images, X-ray diffraction patterns (XRD), UV-Vis diffuse reflectance spectra (DRS), and additional data. See DOI: 10.1039/c5nr07380d

Influence of land-atmosphere feedbacks on temperature and precipitation extremes in the GLACE-CMIP5 ensemble

NASA Astrophysics Data System (ADS)

Lorenz, Ruth; Argüeso, Daniel; Donat, Markus G.; Pitman, Andrew J.; van den Hurk, Bart; Berg, Alexis; Lawrence, David M.; Chéruy, Frédérique; Ducharne, Agnès.; Hagemann, Stefan; Meier, Arndt; Milly, P. C. D.; Seneviratne, Sonia I.

2016-01-01

We examine how soil moisture variability and trends affect the simulation of temperature and precipitation extremes in six global climate models using the experimental protocol of the Global Land-Atmosphere Coupling Experiment of the Coupled Model Intercomparison Project, Phase 5 (GLACE-CMIP5). This protocol enables separate examinations of the influences of soil moisture variability and trends on the intensity, frequency, and duration of climate extremes by the end of the 21st century under a business-as-usual (Representative Concentration Pathway 8.5) emission scenario. Removing soil moisture variability significantly reduces temperature extremes over most continental surfaces, while wet precipitation extremes are enhanced in the tropics. Projected drying trends in soil moisture lead to increases in intensity, frequency, and duration of temperature extremes by the end of the 21st century. Wet precipitation extremes are decreased in the tropics with soil moisture trends in the simulations, while dry extremes are enhanced in some regions, in particular the Mediterranean and Australia. However, the ensemble results mask considerable differences in the soil moisture trends simulated by the six climate models. We find that the large differences between the models in soil moisture trends, which are related to an unknown combination of differences in atmospheric forcing (precipitation, net radiation), flux partitioning at the land surface, and how soil moisture is parameterized, imply considerable uncertainty in future changes in climate extremes.

Variations in freshwater pathways from the Arctic Ocean into the North Atlantic Ocean

NASA Astrophysics Data System (ADS)

Wang, Zeliang; Hamilton, James; Su, Jie

2017-06-01

Understanding the mechanisms that drive exchanges between the Arctic Ocean and adjacent oceans is critical to building our knowledge of how the Arctic is reacting to a warming climate, and how potential changes in Arctic Ocean freshwater export may impact the AMOC (Atlantic Meridional Overturning Circulation). Here, freshwater pathways from the Arctic Ocean to the North Atlantic are investigated using a 1 degree global model. An EOF analysis of modeled sea surface height (SSH) demonstrates that while the second mode accounts for only 15% of the variability, the associated geostrophic currents are strongly correlated with freshwater exports through CAA (Canadian Arctic Archipelago; r = 0.75), Nares Strait (r = 0.77) and Fram Strait (r = -0.60). Separation of sea level into contributing parts allows us to show that the EOF1 is primarily a barotropic mode reflecting variability in bottom pressure equivalent sea level, while the EOF2 mode reflects changes in steric height in the Arctic Basin. This second mode is linked to momentum wind driven surface current, and dominates the Arctic Ocean freshwater exports. Both the Arctic Oscillation and Arctic Dipole atmospheric indices are shown to be linked to Arctic Ocean freshwater exports, with the forcing associated with the Arctic Dipole reflecting the out-of-phase relationship between transports through the CAA and those through Fram Strait. Finally, observed freshwater transport variation through the CAA is found to be strongly correlated with tide gauge data from the Beaufort Sea coast (r = 0.81), and with the EOF2 mode of GRACE bottom pressure data (r = 0.85) on inter-annual timescales.

Changes in Intense Precipitation Events in West Africa and the central U.S. under Global Warming

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cook, Kerry H.; Vizy, Edward

The purpose of the proposed project is to improve our understanding of the physical processes and large-scale connectivity of changes in intense precipitation events (high rainfall rates) under global warming in West Africa and the central U.S., including relationships with low-frequency modes of variability. This is in response to the requested subject area #2 “simulation of climate extremes under a changing climate … to better quantify the frequency, duration, and intensity of extreme events under climate change and elucidate the role of low frequency climate variability in modulating extremes.” We will use a regional climate model and emphasize an understandingmore » of the physical processes that lead to an intensification of rainfall. The project objectives are as follows: 1. Understand the processes responsible for simulated changes in warm-season rainfall intensity and frequency over West Africa and the Central U.S. associated with greenhouse gas-induced global warming 2. Understand the relationship between changes in warm-season rainfall intensity and frequency, which generally occur on regional space scales, and the larger-scale global warming signal by considering modifications of low-frequency modes of variability. 3. Relate changes simulated on regional space scales to global-scale theories of how and why atmospheric moisture levels and rainfall should change as climate warms.« less

Reconstruction of the Fatty Acid Biosynthetic Pathway of Exiguobacterium antarcticum B7 Based on Genomic and Bibliomic Data

PubMed Central

Kawasaki, Regiane; Carepo, Marta S. P.; Oliveira, Rui; Marques, Rodolfo; Ramos, Rommel T. J.; Schneider, Maria P. C.

2016-01-01

Exiguobacterium antarcticum B7 is extremophile Gram-positive bacteria able to survive in cold environments. A key factor to understanding cold adaptation processes is related to the modification of fatty acids composing the cell membranes of psychrotrophic bacteria. In our study we show the in silico reconstruction of the fatty acid biosynthesis pathway of E. antarcticum B7. To build the stoichiometric model, a semiautomatic procedure was applied, which integrates genome information using KEGG and RAST/SEED. Constraint-based methods, namely, Flux Balance Analysis (FBA) and elementary modes (EM), were applied. FBA was implemented in the sense of hexadecenoic acid production maximization. To evaluate the influence of the gene expression in the fluxome analysis, FBA was also calculated using the log2⁡FC values obtained in the transcriptome analysis at 0°C and 37°C. The fatty acid biosynthesis pathway showed a total of 13 elementary flux modes, four of which showed routes for the production of hexadecenoic acid. The reconstructed pathway demonstrated the capacity of E. antarcticum B7 to de novo produce fatty acid molecules. Under the influence of the transcriptome, the fluxome was altered, promoting the production of short-chain fatty acids. The calculated models contribute to better understanding of the bacterial adaptation at cold environments. PMID:27595107

The influence of disk's flexibility on coupling vibration of shaft disk blades systems

NASA Astrophysics Data System (ADS)

Yang, Chia-Hao; Huang, Shyh-Chin

2007-03-01

The coupling vibrations among shaft-torsion, disk-transverse and blade-bending in a shaft-disk-blades unit are investigated. The equations of motion for the shaft-disk-blades unit are first derived from the energy approach in conjunction with the assumed modes method. The effects of disk flexibility, blade's stagger angle and rotational speed upon the natural frequencies and mode shapes are particularly studied. Previous studies have shown that there were four types of coupling modes, the shaft-blade (SB), the shaft-disk-blades (SDBs), the disk-blades (DB) and the blade-blade (BB) in such a unit. The present research focuses on the influence of disk flexibility on the coupling behavior and discovers that disk's flexibility strongly affects the modes bifurcation and the transition of modes. At slightly flexible disk, the BB modes bifurcate into BB and DB modes. As disk goes further flexible, SB modes shift into SDB modes. If it goes furthermore, additional disk-predominating modes are generated and DB modes appear before the SDB mode. Examination of stagger angle β proves that at two extreme cases; at β=0° the shaft and blades coupled but not the disk, and at β=90° the disk and blades coupled but not the shaft. In between, coupling exists among three components. Increasing β may increase or decrease SB modes, depending on which, the disk or shaft's first mode, is more rigid. The natural frequencies of DB modes usually decrease with the increase of β. Rotation effects show that bifurcation, veering and merging phenomena occur due to disk flexibility. Disk flexibility is also observed to induce more critical speeds in the SDBs systems.

Turbulent transport measurements with a laser Doppler velocimeter

NASA Technical Reports Server (NTRS)

Edwards, R. V.; Angus, J. C.; Dunning, J. W., Jr.

1972-01-01

The power spectrum of phototube current from a laser Doppler velocimeter operating in the heterodyne mode has been computed. The spectrum is obtained in terms of the space time correlation function of the fluid. The spectral width and shape predicted by the theory are in agreement with experiment. For normal operating parameters the time average spectrum contains information only for times shorter than the Lagrangian integral time scale of the turbulence. To examine the long time behavior, one must use either extremely small scattering angles, much longer wavelength radiation or a different mode of signal analysis, e.g., FM detection.

Maximum likelihood estimation for life distributions with competing failure modes

NASA Technical Reports Server (NTRS)

Sidik, S. M.

1979-01-01

Systems which are placed on test at time zero, function for a period and die at some random time were studied. Failure may be due to one of several causes or modes. The parameters of the life distribution may depend upon the levels of various stress variables the item is subject to. Maximum likelihood estimation methods are discussed. Specific methods are reported for the smallest extreme-value distributions of life. Monte-Carlo results indicate the methods to be promising. Under appropriate conditions, the location parameters are nearly unbiased, the scale parameter is slight biased, and the asymptotic covariances are rapidly approached.

Status of the GroundBIRD Telescope

NASA Astrophysics Data System (ADS)

Choi, J.; Génova-Santos, R.; Hattori, M.; Hazumi, M.; Ishitsuka, H.; Kanno, F.; Karatsu, K.; Kiuchi, K.; Koyano, R.; Kutsuma, H.; Lee, K.; Mima, S.; Minowa, M.; Nagai, M.; Nagasaki, T.; Naruse, M.; Oguri, S.; Okada, T.; Otani, C.; Rebolo, R.; Rubiño-Martín, J.; Sekimoto, Y.; Suzuki, J.; Taino, T.; Tajima, O.; Tomita, N.; Uchida, T.; Won, E.; Yoshida, M.

2018-01-01

Our understanding of physics at very early Universe, as early as 10-35 s after the Big Bang, relies on the scenario known as the inflationary cosmology. Inflation predicts a particular polarization pattern in the cosmic microwave background, known as the B-mode yet the strength of such polarization pattern is extremely weak. To search for the B-mode of the polarization in the cosmic microwave background, we are constructing an off-axis rotating telescope to mitigate systematic effects as well as to maximize the sky coverage of the observation. We will discuss the present status of the GroundBIRD telescope.

Photonic crystal fiber Fabry-Perot interferometers with high-reflectance internal mirrors

NASA Astrophysics Data System (ADS)

Fan, Rong; Hou, Yuanbin; Sun, Wei

2015-06-01

We demonstrated an in-line micro fiber-optic Fabry-Perot interferometer with an air cavity which was created by multi-step fusion splicing a muti-mode photonic crystal fiber (MPCF) to a standard single mode fiber (SMF). The fringe visibility of the interference pattern was up to 20 dB by reshaping the air cavity. Experimental results showed that such a device could be used as a highly sensitive strain sensor with the sensitivity of 4.5 pm/μɛ. Moreover, it offered some other outstanding advantages, such as the extremely compact structure, easy fabrication, low cost, and high accuracy.

Varieties of preschool hyperactivity: multiple pathways from risk to disorder.

PubMed

Sonuga-Barke, Edmund J S; Auerbach, Judith; Campbell, Susan B; Daley, David; Thompson, Margaret

2005-03-01

In this paper we examine the characteristics of preschool attention deficit hyperactivity disorder (ADHD) from both mental disorder and developmental psychopathology points of view. The equivalence of preschool and school-aged hyperactivity as a behavioral dimension is highlighted together with the potential value of extending the use of the ADHD diagnostic category to the preschool period where these behaviours take an extreme and impairing form (assuming age appropriate diagnostic items and thresholds can be developed). At the same time, the importance of identifying pathways between risk and later ADHD is emphasized. Developmental discontinuity and heterogeneity are identified as major characteristics of these pathways. We argue that models that distinguish among different developmental types of early-emerging problems are needed. An illustrative taxonomy of four developmental pathways implicating preschool hyperactivity is presented to provide a framework for future research.

Annotating Cancer Variants and Anti-Cancer Therapeutics in Reactome

PubMed Central

Milacic, Marija; Haw, Robin; Rothfels, Karen; Wu, Guanming; Croft, David; Hermjakob, Henning; D’Eustachio, Peter; Stein, Lincoln

2012-01-01

Reactome describes biological pathways as chemical reactions that closely mirror the actual physical interactions that occur in the cell. Recent extensions of our data model accommodate the annotation of cancer and other disease processes. First, we have extended our class of protein modifications to accommodate annotation of changes in amino acid sequence and the formation of fusion proteins to describe the proteins involved in disease processes. Second, we have added a disease attribute to reaction, pathway, and physical entity classes that uses disease ontology terms. To support the graphical representation of “cancer” pathways, we have adapted our Pathway Browser to display disease variants and events in a way that allows comparison with the wild type pathway, and shows connections between perturbations in cancer and other biological pathways. The curation of pathways associated with cancer, coupled with our efforts to create other disease-specific pathways, will interoperate with our existing pathway and network analysis tools. Using the Epidermal Growth Factor Receptor (EGFR) signaling pathway as an example, we show how Reactome annotates and presents the altered biological behavior of EGFR variants due to their altered kinase and ligand-binding properties, and the mode of action and specificity of anti-cancer therapeutics. PMID:24213504

Observation of optical domino modes in arrays of non-resonant plasmonic nanoantennas

NASA Astrophysics Data System (ADS)

Sinev, Ivan S.; Samusev, Anton K.; Voroshilov, Pavel M.; Mukhin, Ivan S.; Denisyuk, Andrey I.; Guzhva, Mikhail E.; Belov, Pavel A.; Simovski, Constantin R.

2014-09-01

Domino modes are highly-confined collectivemodes that were first predicted for a periodic arrangement of metallic parallelepipeds in far-infrared region. The main feature of domino modes is the advantageous distribution of the local electric field, which is concentrated between metallic elements (hot spots), while its penetration depth in metal is much smaller than the skin-depth. Therefore, arrays of non-resonant plasmonic nanoantennas exhibiting domino modes can be employed as broadband light trapping coatings for thin-film solar cells. However, until now in the excitation of such modes was demonstrated only in numerical simulations. Here, we for the first time demonstrate experimentally the excitation of optical domino modes in arrays of non-resonant plasmonic nanoantennas. We characterize the nanoantenna arrays produced by means of electron beam lithography both experimentally using an aperture-type near-field scanning optical microscope and numerically. The proof of domino modes concept for plasmonic arrays of nanoantennas in the visible spectral region opens new pathways for development of low-absorptive structures for effective focusing of light at the nanoscale.

Optical control of resonant light transmission for an atom-cavity system

NASA Astrophysics Data System (ADS)

Sharma, Arijit; Ray, Tridib; Sawant, Rahul V.; Sheikholeslami, G.; Rangwala, S. A.; Budker, D.

2015-04-01

We demonstrate the manipulation of transmitted light through an optical Fabry-Pérot cavity, built around a spectroscopy cell containing enriched rubidium vapor. Light resonant with the 87RbD2 (F =2 ,F =1 ) ↔F' manifold is controlled by the transverse intersection of the cavity mode by another resonant light beam. The cavity transmission can be suppressed or enhanced depending on the coupling of atomic states due to the intersecting beams. The extreme manifestation of the cavity-mode control is the precipitous destruction (negative logic switching) or buildup (positive logic switching) of the transmitted light intensity on intersection of the transverse control beam with the cavity mode. Both the steady-state and transient responses are experimentally investigated. The mechanism behind the change in cavity transmission is discussed in brief.

Numerical study on refractive index sensor based on hybrid-plasmonic mode

NASA Astrophysics Data System (ADS)

Yun, Jeong-Geun; Kim, Joonsoo; Lee, Kyookeun; Lee, Yohan; Lee, Byoungho

2017-04-01

We propose a highly sensitive hybrid-plasmonic sensor based on thin-gold nanoslit arrays. The transmission characteristics of gold nanoslit arrays are analyzed as changing the thickness of gold layer. The surface plasmon polariton mode excited on the sensing medium, which is sensitive to refractive index change of the sensing medium, is strengthened by reducing the thickness of the gold layer. A design rule is suggested that steeper dispersion curve of the surface plasmon polariton mode leads to higher sensitivity. For the dispersion engineering, hybrid-plasmonic structure, which consists of thin-gold nanoslit arrays, sensing region and high refractive index dielectric space is introduced. The proposed sensor structure with period of 700 nm shows the improved sensitivity up to 1080 nm/RIU (refractive index unit), and the surface sensitivity is extremely enhanced.

Design of compact surface optical coupler based on vertically curved silicon waveguide for high-numerical-aperture single-mode optical fiber

NASA Astrophysics Data System (ADS)

Atsumi, Yuki; Yoshida, Tomoya; Omoda, Emiko; Sakakibara, Youichi

2017-09-01

A surface optical coupler based on a vertically curved Si waveguide was designed for coupling with high-numerical aperture single-mode optical fibers with a mode-field diameter of 5 µm. This coupler has a quite small device size, with a height of approximately 12 µm, achieved by introducing an effective spot-size converter configured with the combination of an extremely short Si exponential-inverse taper and a dome-structured SiO2 lens formed on the coupler top. The designed coupler shows high-efficiency optical coupling, with a loss of 0.8 dB for TE polarized light, as well as broad-band coupling with a 0.5-dB-loss band of 420 nm.

From migration to settlement: the pathways, migration modes and dynamics of neurons in the developing brain

PubMed Central

HATANAKA, Yumiko; ZHU, Yan; TORIGOE, Makio; KITA, Yoshiaki; MURAKAMI, Fujio

2016-01-01

Neuronal migration is crucial for the construction of the nervous system. To reach their correct destination, migrating neurons choose pathways using physical substrates and chemical cues of either diffusible or non-diffusible nature. Migrating neurons extend a leading and a trailing process. The leading process, which extends in the direction of migration, determines navigation, in particular when a neuron changes its direction of migration. While most neurons simply migrate radially, certain neurons switch their mode of migration between radial and tangential, with the latter allowing migration to destinations far from the neurons’ site of generation. Consequently, neurons with distinct origins are intermingled, which results in intricate neuronal architectures and connectivities and provides an important basis for higher brain function. The trailing process, in contrast, contributes to the late stage of development by turning into the axon, thus contributing to the formation of neuronal circuits. PMID:26755396

Targeting receptor-mediated endocytotic pathways with nanoparticles: rationale and advances

PubMed Central

Xu, Shi; Olenyuk, Bogdan Z.; Okamoto, Curtis T.; Hamm-Alvarez, Sarah F.

2012-01-01

Targeting of drugs and their carrier systems by using receptor-mediated endocytotic pathways was in its nascent stages 25 years ago. In the intervening years, an explosion of knowledge focused on design and synthesis of nanoparticulate delivery systems as well as elucidation of the cellular complexity of what was previously-termed receptor-mediated endocytosis has now created a situation when it has become possible to design and test the feasibility of delivery of highly specific nanoparticle drug carriers to specific cells and tissue. This review outlines the mechanisms governing the major modes of receptor-mediated endocytosis used in drug delivery and highlights recent approaches using these as targets for in vivo drug delivery of nanoparticles. The review also discusses some of the inherent complexity associated with the simple shift from a ligand-drug conjugate versus a ligand-nanoparticle conjugate, in terms of ligand valency and its relationship to the mode of receptor-mediated internalization. PMID:23026636

A cochlear-bone wave can yield a hearing sensation as well as otoacoustic emission

PubMed Central

Tchumatchenko, Tatjana; Reichenbach, Tobias

2014-01-01

A hearing sensation arises when the elastic basilar membrane inside the cochlea vibrates. The basilar membrane is typically set into motion through airborne sound that displaces the middle ear and induces a pressure difference across the membrane. A second, alternative pathway exists, however: stimulation of the cochlear bone vibrates the basilar membrane as well. This pathway, referred to as bone conduction, is increasingly used in headphones that bypass the ear canal and the middle ear. Furthermore, otoacoustic emissions, sounds generated inside the cochlea and emitted therefrom, may not involve the usual wave on the basilar membrane, suggesting that additional cochlear structures are involved in their propagation. Here we describe a novel propagation mode within the cochlea that emerges through deformation of the cochlear bone. Through a mathematical and computational approach we demonstrate that this propagation mode can explain bone conduction as well as numerous properties of otoacoustic emissions. PMID:24954736

Activity-based protein profiling for biochemical pathway discovery in cancer

PubMed Central

Nomura, Daniel K.; Dix, Melissa M.; Cravatt, Benjamin F.

2011-01-01

Large-scale profiling methods have uncovered numerous gene and protein expression changes that correlate with tumorigenesis. However, determining the relevance of these expression changes and which biochemical pathways they affect has been hindered by our incomplete understanding of the proteome and its myriad functions and modes of regulation. Activity-based profiling platforms enable both the discovery of cancer-relevant enzymes and selective pharmacological probes to perturb and characterize these proteins in tumour cells. When integrated with other large-scale profiling methods, activity-based proteomics can provide insight into the metabolic and signalling pathways that support cancer pathogenesis and illuminate new strategies for disease diagnosis and treatment. PMID:20703252

Principal elementary mode analysis (PEMA).

PubMed

Folch-Fortuny, Abel; Marques, Rodolfo; Isidro, Inês A; Oliveira, Rui; Ferrer, Alberto

2016-03-01

Principal component analysis (PCA) has been widely applied in fluxomics to compress data into a few latent structures in order to simplify the identification of metabolic patterns. These latent structures lack a direct biological interpretation due to the intrinsic constraints associated with a PCA model. Here we introduce a new method that significantly improves the interpretability of the principal components with a direct link to metabolic pathways. This method, called principal elementary mode analysis (PEMA), establishes a bridge between a PCA-like model, aimed at explaining the maximum variance in flux data, and the set of elementary modes (EMs) of a metabolic network. It provides an easy way to identify metabolic patterns in large fluxomics datasets in terms of the simplest pathways of the organism metabolism. The results using a real metabolic model of Escherichia coli show the ability of PEMA to identify the EMs that generated the different simulated flux distributions. Actual flux data of E. coli and Pichia pastoris cultures confirm the results observed in the simulated study, providing a biologically meaningful model to explain flux data of both organisms in terms of the EM activation. The PEMA toolbox is freely available for non-commercial purposes on http://mseg.webs.upv.es.

Trends in Extreme Rainfall Frequency in the Contiguous United States: Attribution to Climate Change and Climate Variability Modes

NASA Astrophysics Data System (ADS)

Armal, S.; Devineni, N.; Khanbilvardi, R.

2017-12-01

This study presents a systematic analysis for identifying and attributing trends in the annual frequency of extreme rainfall events across the contiguous United States to climate change and climate variability modes. A Bayesian multilevel model is developed for 1,244 stations simultaneously to test the null hypothesis of no trend and verify two alternate hypotheses: Trend can be attributed to changes in global surface temperature anomalies, or to a combination of cyclical climate modes with varying quasi-periodicities and global surface temperature anomalies. The Bayesian multilevel model provides the opportunity to pool information across stations and reduce the parameter estimation uncertainty, hence identifying the trends better. The choice of the best alternate hypotheses is made based on Watanabe-Akaike Information Criterion, a Bayesian pointwise predictive accuracy measure. Statistically significant time trends are observed in 742 of the 1,244 stations. Trends in 409 of these stations can be attributed to changes in global surface temperature anomalies. These stations are predominantly found in the Southeast and Northeast climate regions. The trends in 274 of these stations can be attributed to the El Nino Southern Oscillations, North Atlantic Oscillation, Pacific Decadal Oscillation and Atlantic Multi-Decadal Oscillation along with changes in global surface temperature anomalies. These stations are mainly found in the Northwest, West and Southwest climate regions.

Extreme sensitivity to ultraviolet light in the fungal pathogen causing white-nose syndrome of bats.

PubMed

Palmer, Jonathan M; Drees, Kevin P; Foster, Jeffrey T; Lindner, Daniel L

2018-01-02

Bat white-nose syndrome (WNS), caused by the fungal pathogen Pseudogymnoascus destructans, has decimated North American hibernating bats since its emergence in 2006. Here, we utilize comparative genomics to examine the evolutionary history of this pathogen in comparison to six closely related nonpathogenic species. P. destructans displays a large reduction in carbohydrate-utilizing enzymes (CAZymes) and in the predicted secretome (~50%), and an increase in lineage-specific genes. The pathogen has lost a key enzyme, UVE1, in the alternate excision repair (AER) pathway, which is known to contribute to repair of DNA lesions induced by ultraviolet (UV) light. Consistent with a nonfunctional AER pathway, P. destructans is extremely sensitive to UV light, as well as the DNA alkylating agent methyl methanesulfonate (MMS). The differential susceptibility of P. destructans to UV light in comparison to other hibernacula-inhabiting fungi represents a potential "Achilles' heel" of P. destructans that might be exploited for treatment of bats with WNS.

Folding mechanism of an extremely thermostable (βα)(8)-barrel enzyme: a high kinetic barrier protects the protein from denaturation.

PubMed

Carstensen, Linn; Zoldák, Gabriel; Schmid, Franz-Xaver; Sterner, Reinhard

2012-04-24

HisF, the cyclase subunit of imidazole glycerol phosphate synthase (ImGPS) from Thermotoga maritima, is an extremely thermostable (βα)(8)-barrel protein. We elucidated the unfolding and refolding mechanism of HisF. Its unfolding transition is reversible and adequately described by the two-state model, but 6 weeks is necessary to reach equilibrium (at 25 °C). During refolding, initially a burst-phase off-pathway intermediate is formed. The subsequent productive folding occurs in two kinetic phases with time constants of ~3 and ~20 s. They reflect a sequential process via an on-pathway intermediate, as revealed by stopped-flow double-mixing experiments. The final step leads to native HisF, which associates with the glutaminase subunit HisH to form the functional ImGPS complex. The conversion of the on-pathway intermediate to the native protein results in a 10(6)-fold increase of the time constant for unfolding from 89 ms to 35 h (at 4.0 M GdmCl) and thus establishes a high energy barrier to denaturation. We conclude that the extra stability of HisF is used for kinetic protection against unfolding. In its refolding mechanism, HisF resembles other (βα)(8)-barrel proteins.

The structural and functional brain networks that support human social networks.

PubMed

Noonan, M P; Mars, R B; Sallet, J; Dunbar, R I M; Fellows, L K

2018-02-20

Social skills rely on a specific set of cognitive processes, raising the possibility that individual differences in social networks are related to differences in specific brain structural and functional networks. Here, we tested this hypothesis with multimodality neuroimaging. With diffusion MRI (DMRI), we showed that differences in structural integrity of particular white matter (WM) tracts, including cingulum bundle, extreme capsule and arcuate fasciculus were associated with an individual's social network size (SNS). A voxel-based morphology analysis demonstrated correlations between gray matter (GM) volume and SNS in limbic and temporal lobe regions. These structural changes co-occured with functional network differences. As a function of SNS, dorsomedial and dorsolateral prefrontal cortex showed altered resting-state functional connectivity with the default mode network (DMN). Finally, we integrated these three complementary methods, interrogating the relationship between social GM clusters and specific WM and resting-state networks (RSNs). Probabilistic tractography seeded in these GM nodes utilized the SNS-related WM pathways. Further, the spatial and functional overlap between the social GM clusters and the DMN was significantly closer than other control RSNs. These integrative analyses provide convergent evidence of the role of specific circuits in SNS, likely supporting the adaptive behavior necessary for success in extensive social environments. Crown Copyright © 2018. Published by Elsevier B.V. All rights reserved.

Biomechanical Diversity of Mating Structures among Harvestmen Species Is Consistent with a Spectrum of Precopulatory Strategies

PubMed Central

Burns, Mercedes; Shultz, Jeffrey W.

2015-01-01

Diversity in reproductive structures is frequently explained by selection acting at individual to generational timescales, but interspecific differences predicted by such models (e.g., female choice or sexual conflict) are often untestable in a phylogenetic framework. An alternative approach focuses on clade- or function-specific hypotheses that predict evolutionary patterns in terms neutral to specific modes of sexual selection. Here we test a hypothesis that diversity of reproductive structures in leiobunine harvestmen (daddy longlegs) of eastern North America reflects two sexually coevolved but non-overlapping precopulatory strategies, a primitive solicitous strategy (females enticed by penis-associated nuptial gifts), and a multiply derived antagonistic strategy (penis exerts mechanical force against armature of the female pregenital opening). Predictions of sexual coevolution and fidelity to precopulatory categories were tested using 10 continuously varying functional traits from 28 species. Multivariate analyses corroborated sexual coevolution but failed to partition species by precopulatory strategy, with multiple methods placing species along a spectrum of mechanical antagonistic potential. These findings suggest that precopulatory features within species reflect different co-occurring levels of solicitation and antagonism, and that gradualistic evolutionary pathways exist between extreme strategies. The ability to quantify antagonistic potential of precopulatory structures invites comparison with ecological variables that may promote evolutionary shifts in precopulatory strategies. PMID:26352413

Biomechanical Diversity of Mating Structures among Harvestmen Species Is Consistent with a Spectrum of Precopulatory Strategies.

PubMed

Burns, Mercedes; Shultz, Jeffrey W

2015-01-01

Diversity in reproductive structures is frequently explained by selection acting at individual to generational timescales, but interspecific differences predicted by such models (e.g., female choice or sexual conflict) are often untestable in a phylogenetic framework. An alternative approach focuses on clade- or function-specific hypotheses that predict evolutionary patterns in terms neutral to specific modes of sexual selection. Here we test a hypothesis that diversity of reproductive structures in leiobunine harvestmen (daddy longlegs) of eastern North America reflects two sexually coevolved but non-overlapping precopulatory strategies, a primitive solicitous strategy (females enticed by penis-associated nuptial gifts), and a multiply derived antagonistic strategy (penis exerts mechanical force against armature of the female pregenital opening). Predictions of sexual coevolution and fidelity to precopulatory categories were tested using 10 continuously varying functional traits from 28 species. Multivariate analyses corroborated sexual coevolution but failed to partition species by precopulatory strategy, with multiple methods placing species along a spectrum of mechanical antagonistic potential. These findings suggest that precopulatory features within species reflect different co-occurring levels of solicitation and antagonism, and that gradualistic evolutionary pathways exist between extreme strategies. The ability to quantify antagonistic potential of precopulatory structures invites comparison with ecological variables that may promote evolutionary shifts in precopulatory strategies.

Goal-directed reaching: the allocentric coding of target location renders an offline mode of control.

PubMed

Manzone, Joseph; Heath, Matthew

2018-04-01

Reaching to a veridical target permits an egocentric spatial code (i.e., absolute limb and target position) to effect fast and effective online trajectory corrections supported via the visuomotor networks of the dorsal visual pathway. In contrast, a response entailing decoupled spatial relations between stimulus and response is thought to be primarily mediated via an allocentric code (i.e., the position of a target relative to another external cue) laid down by the visuoperceptual networks of the ventral visual pathway. Because the ventral stream renders a temporally durable percept, it is thought that an allocentric code does not support a primarily online mode of control, but instead supports a mode wherein a response is evoked largely in advance of movement onset via central planning mechanisms (i.e., offline control). Here, we examined whether reaches defined via ego- and allocentric visual coordinates are supported via distinct control modes (i.e., online versus offline). Participants performed target-directed and allocentric reaches in limb visible and limb-occluded conditions. Notably, in the allocentric task, participants reached to a location that matched the position of a target stimulus relative to a reference stimulus, and to examine online trajectory amendments, we computed the proportion of variance explained (i.e., R 2 values) by the spatial position of the limb at 75% of movement time relative to a response's ultimate movement endpoint. Target-directed trials performed with limb vision showed more online corrections and greater endpoint precision than their limb-occluded counterparts, which in turn were associated with performance metrics comparable to allocentric trials performed with and without limb vision. Accordingly, we propose that the absence of ego-motion cues (i.e., limb vision) and/or the specification of a response via an allocentric code renders motor output served via the 'slow' visuoperceptual networks of the ventral visual pathway.

Identification of the dominant runoff pathways from data-based mechanistic modelling of nested catchments in temperate UK

NASA Astrophysics Data System (ADS)

Ockenden, M. C.; Chappell, N. A.

2011-05-01

SummaryUnderstanding hydrological flow pathways is important for modelling stream response, in order to address a range of environmental problems such as flood prediction, prediction of chemical loads and identification of contaminant pathways for subsequent remediation. This paper describes the use of parametrically efficient, low order models to identify the dominant modes of stream response for catchments within the Upper Eden, UK. A first order linear model adequately identified the dominant mode in all but one of the sub-catchments. A consistent pattern of time constants and pure time delays between catchments was observed over different periods of data. In the nested catchments, time constants increased as the catchment size increased from 1.1 km 2 at Gais Gill (2-7 h) to 69.4 km 2 at Kirkby Stephen (5-10 h) to 223.4 km 2 at Great Musgrave (7-16 h) to 616.4 km 2 at Temple Sowerby (11-22 h), but Blind Beck (a small catchment 8.8 km 2, time constants 11-21 h) had time constants most similar to Temple Sowerby. This was attributed to a combination of the storage role of permeable rock strata, where present, and the effect of scale on sub-surface and channel routing. A first order model could not be identified for the 1.0 km 2 Low Hall catchment, which comprises permeable sandstone overlain by Quaternary sediments. A second-order model of Low Hall stream showed a higher proportion of water taking a slower pathway (76% via a slow pathway; time constant 252 h) than a model with the same structure for the 8.8 km 2 Blind Beck (46% via slow pathway; time constant 60 h), where only 38% of the basin was underlain by the same permeable sandstone. This highlights the need to quantify the role of deep pathways through permeable rock, where present, in addition to the effect of catchment size on response times.

Extreme sea levels on the rise along Europe's coasts

NASA Astrophysics Data System (ADS)

Vousdoukas, Michalis I.; Mentaschi, Lorenzo; Voukouvalas, Evangelos; Verlaan, Martin; Feyen, Luc

2017-03-01

Future extreme sea levels (ESLs) and flood risk along European coasts will be strongly impacted by global warming. Yet, comprehensive projections of ESL that include mean sea level (MSL), tides, waves, and storm surges do not exist. Here, we show changes in all components of ESLs until 2100 in view of climate change. We find that by the end of this century, the 100-year ESL along Europe's coastlines is on average projected to increase by 57 cm for Representative Concentration Pathways (RCP)4.5 and 81 cm for RCP8.5. The North Sea region is projected to face the highest increase in ESLs, amounting to nearly 1 m under RCP8.5 by 2100, followed by the Baltic Sea and Atlantic coasts of the UK and Ireland. Relative sea level rise (RSLR) is shown to be the main driver of the projected rise in ESL, with increasing dominance toward the end of the century and for the high-concentration pathway. Changes in storm surges and waves enhance the effects of RSLR along the majority of northern European coasts, locally with contributions up to 40%. In southern Europe, episodic extreme events tend to stay stable, except along the Portuguese coast and the Gulf of Cadiz where reductions in surge and wave extremes offset RSLR by 20-30%. By the end of this century, 5 million Europeans currently under threat of a 100-year ESL could be annually at risk from coastal flooding under high-end warming. The presented dataset is available through this link: http://data.jrc.ec.europa.eu/collection/LISCOAST.

Rapid changes in gene expression direct rapid shifts in intestinal form and function in the Burmese python after feeding.

PubMed

Andrew, Audra L; Card, Daren C; Ruggiero, Robert P; Schield, Drew R; Adams, Richard H; Pollock, David D; Secor, Stephen M; Castoe, Todd A

2015-05-01

Snakes provide a unique and valuable model system for studying the extremes of physiological remodeling because of the ability of some species to rapidly upregulate organ form and function upon feeding. The predominant model species used to study such extreme responses has been the Burmese python because of the extreme nature of postfeeding response in this species. We analyzed the Burmese python intestine across a time series, before, during, and after feeding to understand the patterns and timing of changes in gene expression and their relationship to changes in intestinal form and function upon feeding. Our results indicate that >2,000 genes show significant changes in expression in the small intestine following feeding, including genes involved in intestinal morphology and function (e.g., hydrolases, microvillus proteins, trafficking and transport proteins), as well as genes involved in cell division and apoptosis. Extensive changes in gene expression occur surprisingly rapidly, within the first 6 h of feeding, coincide with changes in intestinal morphology, and effectively return to prefeeding levels within 10 days. Collectively, our results provide an unprecedented portrait of parallel changes in gene expression and intestinal morphology and physiology on a scale that is extreme both in the magnitude of changes, as well as in the incredibly short time frame of these changes, with up- and downregulation of expression and function occurring in the span of 10 days. Our results also identify conserved vertebrate signaling pathways that modulate these responses, which may suggest pathways for therapeutic modulation of intestinal function in humans. Copyright © 2015 the American Physiological Society.

A fuzzy Petri-net-based mode identification algorithm for fault diagnosis of complex systems

NASA Astrophysics Data System (ADS)

Propes, Nicholas C.; Vachtsevanos, George

2003-08-01

Complex dynamical systems such as aircraft, manufacturing systems, chillers, motor vehicles, submarines, etc. exhibit continuous and event-driven dynamics. These systems undergo several discrete operating modes from startup to shutdown. For example, a certain shipboard system may be operating at half load or full load or may be at start-up or shutdown. Of particular interest are extreme or "shock" operating conditions, which tend to severely impact fault diagnosis or the progression of a fault leading to a failure. Fault conditions are strongly dependent on the operating mode. Therefore, it is essential that in any diagnostic/prognostic architecture, the operating mode be identified as accurately as possible so that such functions as feature extraction, diagnostics, prognostics, etc. can be correlated with the predominant operating conditions. This paper introduces a mode identification methodology that incorporates both time- and event-driven information about the process. A fuzzy Petri net is used to represent the possible successive mode transitions and to detect events from processed sensor signals signifying a mode change. The operating mode is initialized and verified by analysis of the time-driven dynamics through a fuzzy logic classifier. An evidence combiner module is used to combine the results from both the fuzzy Petri net and the fuzzy logic classifier to determine the mode. Unlike most event-driven mode identifiers, this architecture will provide automatic mode initialization through the fuzzy logic classifier and robustness through the combining of evidence of the two algorithms. The mode identification methodology is applied to an AC Plant typically found as a component of a shipboard system.

Capturing reflected cladding modes from a fiber Bragg grating with a double-clad fiber coupler.

PubMed

Baiad, Mohamad Diaa; Gagné, Mathieu; Lemire-Renaud, Simon; De Montigny, Etienne; Madore, Wendy-Julie; Godbout, Nicolas; Boudoux, Caroline; Kashyap, Raman

2013-03-25

We present a novel measurement scheme using a double-clad fiber coupler (DCFC) and a fiber Bragg grating (FBG) to resolve cladding modes. Direct measurement of the optical spectra and power in the cladding modes is obtained through the use of a specially designed DCFC spliced to a highly reflective FBG written into slightly etched standard photosensitive single mode fiber to match the inner cladding diameter of the DCFC. The DCFC is made by tapering and fusing two double-clad fibers (DCF) together. The device is capable of capturing backward propagating low and high order cladding modes simply and efficiently. Also, we demonstrate the capability of such a device to measure the surrounding refractive index (SRI) with an extremely high sensitivity of 69.769 ± 0.035 μW/RIU and a resolution of 1.433 × 10(-5) ± 8 × 10(-9) RIU between 1.37 and 1.45 RIU. The device provides a large SRI operating range from 1.30 to 1.45 RIU with sufficient discrimination for all individual captured cladding modes. The proposed scheme can be adapted to many different types of bend, temperature, refractive index and other evanescent wave based sensors.

Using Entanglement to Measure Temperatures and Frequencies of Individual Normal Modes in a Strongly Coupled 2D Plasma of Be+

NASA Astrophysics Data System (ADS)

Sawyer, Brian; Britton, Joseph; Keith, Adam; Wang, C.-C. Joseph; Freericks, James; Bollinger, John

2013-10-01

Confined non-neutral plasmas of ions in the regime of strong coupling serve as a platform for studying a diverse range of phenomena including: dense astrophysical matter, quantum computation/simulation, dynamical decoupling, and precision measurements. We describe a method of simultaneously detecting and measuring the temperature of transverse plasma modes in two-dimensional crystals of cold 9Be+ confined within a Penning trap. We employ a spin-dependent optical dipole force (ODF) generated from off-resonant laser beams to directly excite plasma modes transverse to the crystal plane of ~ 100 ions. Extremely small mode excitations (~ 1 nm) may be detected through spin-motion entanglement induced by an ODF as small as 10 yN , and even the shortest-wavelength (~ 20 μm) modes are excited and detected through the spin dependence of the force. This mode-specific thermometry has facilitated characterization and mitigation of ion heating sources in this system. Future work may include sub-yN force detection, spectroscopy/thermometry of the more complex in-plane oscillations, and implementation/confirmation of sub-Doppler cooling. The authors acknowledge support from the DARPA-OLE program.

Dual transmission model of the fetal heart tone

NASA Astrophysics Data System (ADS)

Baker, Donald A.; Zuckerwar, Allan J.

2004-05-01

Detection of the fetal heart tone by auscultation is sometimes easy, other times very difficult. In the model proposed here, the level of difficulty depends upon the position of the fetus within the maternal abdomen. If the fetus lies in the classical left/right occiput anterior position (head down, back against the maternal abdominal wall), detection by a sensor or stethoscope on the maternal abdominal surface is easy. In this mode, named here the ``direct contact'' mode, the heartbeat pushes the fetus against the detecting sensor. The motion generates pressure by impact and does not involve acoustic propagation at all. If the fetus lies in a persistent occiput posterior position (spine-to-spine, fetus facing forward), detection is difficult. In this, the ``fluid propagation'' mode, sound generated by the fetal heart and propagating across the amniotic fluid produces extremely weak signals at the maternal surface, typically 30 dB lower than those of the direct contact mode. This reduction in tone level can be compensated by judicious selection of detection frequency band and by exploiting the difference between the background noise levels of the two modes. Experimental clinical results, demonstrating the tones associated with the two respective modes, will be presented.

True Tapping Mode Scanning Near-Field Optical Microscopy with Bent Glass Fiber Probes.

PubMed

Smirnov, A; Yasinskii, V M; Filimonenko, D S; Rostova, E; Dietler, G; Sekatskii, S K

2018-01-01

In scanning near-field optical microscopy, the most popular probes are made of sharpened glass fiber attached to a quartz tuning fork (TF) and exploiting the shear force-based feedback. The use of tapping mode feedback could be preferable. Such an approach can be realized, for example, using bent fiber probes. Detailed analysis of fiber vibration modes shows that realization of truly tapping mode of the probe dithering requires an extreme caution. In case of using the second resonance mode, probes vibrate mostly in shear force mode unless the bending radius is rather small (ca. 0.3 mm) and the probe's tip is short. Otherwise, the shear force character of the dithering persists. Probes having these characteristics were prepared by irradiation of a tapered etched glass fiber with a CW CO 2 laser. These probes were attached to the TF in double resonance conditions which enables achieving significant quality factor (4000-6000) of the TF + probe system (Cherkun et al., 2006). We also show that, to achieve a truly tapping character, dithering, short, and not exceeding 3 mm lengths of a freestanding part of bent fiber probe beam should also be used in the case of nonresonant excitation.

A normal mode-based geometric simulation approach for exploring biologically relevant conformational transitions in proteins.

PubMed

Ahmed, Aqeel; Rippmann, Friedrich; Barnickel, Gerhard; Gohlke, Holger

2011-07-25

A three-step approach for multiscale modeling of protein conformational changes is presented that incorporates information about preferred directions of protein motions into a geometric simulation algorithm. The first two steps are based on a rigid cluster normal-mode analysis (RCNMA). Low-frequency normal modes are used in the third step (NMSim) to extend the recently introduced idea of constrained geometric simulations of diffusive motions in proteins by biasing backbone motions of the protein, whereas side-chain motions are biased toward favorable rotamer states. The generated structures are iteratively corrected regarding steric clashes and stereochemical constraint violations. The approach allows performing three simulation types: unbiased exploration of conformational space; pathway generation by a targeted simulation; and radius of gyration-guided simulation. When applied to a data set of proteins with experimentally observed conformational changes, conformational variabilities are reproduced very well for 4 out of 5 proteins that show domain motions, with correlation coefficients r > 0.70 and as high as r = 0.92 in the case of adenylate kinase. In 7 out of 8 cases, NMSim simulations starting from unbound structures are able to sample conformations that are similar (root-mean-square deviation = 1.0-3.1 Å) to ligand bound conformations. An NMSim generated pathway of conformational change of adenylate kinase correctly describes the sequence of domain closing. The NMSim approach is a computationally efficient alternative to molecular dynamics simulations for conformational sampling of proteins. The generated conformations and pathways of conformational transitions can serve as input to docking approaches or as starting points for more sophisticated sampling techniques.

The investigation of substituent effects on the fragmentation pathways of pentacoordinated phenoxyspirophosphoranes by ESI-MSn.

PubMed

Cui, Xiaoyan; Sun, Can; Zhao, Pei; Wang, Yanyan; Guo, Yanchun; Zhao, Yufen; Cao, Shuxia

2018-04-01

The fragmentation pathways of pentacoordinated phenoxyspirophosphoranes were investigated in the positive mode by electrospray ionization multistage mass spectrometry. The results demonstrate that the sodium adducts of the title compounds undergo two competitive fragmentation pathways, and the fragmentation patterns are heavily dependent on the various substituent patterns at the phenolic group. An electron-withdrawing substituent at the ortho-position always results in the removal of a corresponding phenol analogue, while cleavage by spiroring opening becomes the predominant fragmentation pathway if an electron-donating substituent is at the phenolic group. The substituent effects on the competitive fragmentation pathways were further elucidated by theoretical calculations, single crystal structure analysis, and high-resolution mass spectrometry. The results contribute to the understanding of the gas-phase fragmentation reactions and the structure identification of spirophosphorane analogues by electrospray ionization multistage mass spectrometry. Copyright © 2018 John Wiley & Sons, Ltd.

Trophic Mode-Dependent Proteomic Analysis Reveals Functional Significance of Light-Independent Chlorophyll Synthesis in Synechocystis sp. PCC 6803.

PubMed

Fang, Longfa; Ge, Haitao; Huang, Xiahe; Liu, Ye; Lu, Min; Wang, Jinlong; Chen, Weiyang; Xu, Wu; Wang, Yingchun

2017-01-09

The photosynthetic model organism Synechocystis sp. PCC 6803 can grow in different trophic modes, depending on the availability of light and exogenous organic carbon source. However, how the protein profile changes to facilitate the cells differentially propagate in different modes has not been comprehensively investigated. Using isobaric labeling-based quantitative proteomics, we simultaneously identified and quantified 45% Synechocystis proteome across four different trophic modes, i.e., autotrophic, heterotrophic, photoheterotrophic, and mixotrophic modes. Among the 155 proteins that are differentially expressed across four trophic modes, proteins involved in nitrogen assimilation and light-independent chlorophyll synthesis are dramatically upregulated in the mixotrophic mode, concomitant with a dramatic increase of P II phosphorylation that senses carbon and nitrogen assimilation status. Moreover, functional study using a mutant defective in light-independent chlorophyll synthesis revealed that this pathway is important for chlorophyll accumulation under a cycled light/dark illumination regime, a condition mimicking day/night cycles in certain natural habitats. Collectively, these results provide the most comprehensive information on trophic mode-dependent protein expression in cyanobacterium, and reveal the functional significance of light-independent chlorophyll synthesis in trophic growth. Copyright © 2017 The Author. Published by Elsevier Inc. All rights reserved.

Benefit of "Push-pull" Locomotion for Planetary Rover Mobility

NASA Technical Reports Server (NTRS)

Creager, Colin M.; Moreland, Scott Jared; Skonieczny, K.; Johnson, K.; Asnani, V.; Gilligan, R.

2011-01-01

As NASAs exploration missions on planetary terrains become more aggressive, a focus on alternative modes of locomotion for rovers is necessary. In addition to climbing steep slopes, the terrain in these extreme environments is often unknown and can be extremely hard to traverse, increasing the likelihood of a vehicle or robot becoming damaged or immobilized. The conventional driving mode in which all wheels are either driven or free-rolling is very efficient on flat hard ground, but does not always provide enough traction to propel the vehicle through soft or steep terrain. This paper presents an alternative mode of travel and investigates the fundamental differences between these locomotion modes. The methods of push-pull locomotion discussed can be used with articulated wheeled vehicles and are identified as walking or inchinginch-worming. In both cases, the braked non-rolling wheels provide increased thrust. An in-depth study of how soil reacts under a rolling wheel vs. a braked wheel was performed by visually observing the motion of particles beneath the surface. This novel technique consists of driving or dragging a wheel in a soil bin against a transparent wall while high resolution, high-rate photographs are taken. Optical flow software was then used to determine shearing patterns in the soil. Different failure modes were observed for the rolling and braked wheel cases. A quantitative comparison of inching vs. conventional driving was also performed on a full-scale vehicle through a series of drawbar pull tests in the Lunar terrain strength simulant, GRC-1. The effect of tire stiffness was also compared; typically compliant tires provide better traction when driving in soft soil, however its been observed that rigid wheels may provide better thrust when non-rolling. Initial tests indicate up to a possible 40 increase in pull force capability at high slip when inching vs. rolling.

Study of connected system of automatic control of load and operation efficiency of a steam boiler with extremal controller on a simulation model

NASA Astrophysics Data System (ADS)

Sabanin, V. R.; Starostin, A. A.; Repin, A. I.; Popov, A. I.

2017-02-01

The problems of operation effectiveness increase of steam boilers are considered. To maintain the optimum fuel combustion modes, it is proposed to use an extremal controller (EC) determining the value of airflow rate, at which the boiler generating the desired amount of heat will consume a minimum amount of fuel. EC sets the determined value of airflow rate to airflow rate controller (ARC). The test results of numerical simulation dynamic nonlinear model of steam boiler with the connected system of automatic control of load and combustion efficiency using EC are presented. The model is created in the Simulink modeling package of MATLAB software and can be used to optimize the combustion modes. Based on the modeling results, the conclusion was drawn about the possibility in principle of simultaneously boiler load control and optimizing by EC the combustion modes when changing the fuel combustion heat and the boiler characteristics and its operating mode. It is shown that it is possible to automatically control the operation efficiency of steam boilers when using EC without applying the standard flue gas analyzers. The article considers the numerical simulation dynamic model of steam boiler with the schemes of control of fuel consumption and airflow rate, the steam pressure and EC; the purpose of using EC in the scheme with linear controllers and the requirements to the quality of its operation; the results of operation of boiler control schemes without EC with estimation of influence of roughness of thermal mode maps on the nature of static and dynamic connection of the control units of fuel consumption and airflow rate; the phase trajectories and the diagrams of transient processes occurring in the control scheme with EC with stepped changing the fuel quality and boiler characteristics; analysis of modeling results and prospects for using EC in the control schemes of boilers.

North American Extreme Temperature Events and Related Large Scale Meteorological Patterns: A Review of Statistical Methods, Dynamics, Modeling, and Trends

NASA Technical Reports Server (NTRS)

Grotjahn, Richard; Black, Robert; Leung, Ruby; Wehner, Michael F.; Barlow, Mathew; Bosilovich, Michael G.; Gershunov, Alexander; Gutowski, William J., Jr.; Gyakum, John R.; Katz, Richard W.;

Continuum limit of the vibrational properties of amorphous solids.

PubMed

Mizuno, Hideyuki; Shiba, Hayato; Ikeda, Atsushi

2017-11-14

The low-frequency vibrational and low-temperature thermal properties of amorphous solids are markedly different from those of crystalline solids. This situation is counterintuitive because all solid materials are expected to behave as a homogeneous elastic body in the continuum limit, in which vibrational modes are phonons that follow the Debye law. A number of phenomenological explanations for this situation have been proposed, which assume elastic heterogeneities, soft localized vibrations, and so on. Microscopic mean-field theories have recently been developed to predict the universal non-Debye scaling law. Considering these theoretical arguments, it is absolutely necessary to directly observe the nature of the low-frequency vibrations of amorphous solids and determine the laws that such vibrations obey. Herein, we perform an extremely large-scale vibrational mode analysis of a model amorphous solid. We find that the scaling law predicted by the mean-field theory is violated at low frequency, and in the continuum limit, the vibrational modes converge to a mixture of phonon modes that follow the Debye law and soft localized modes that follow another universal non-Debye scaling law.

Unusual magnetic excitations in the weakly ordered spin- 1 2 chain antiferromagnet Sr 2 CuO 3 : Possible evidence for Goldstone magnon coupled with the amplitude mode

DOE PAGES

Sergeicheva, E. G.; Sosin, S. S.; Prozorova, L. A.; ...

2017-01-18

We report on an electron spin resonance (ESR) study of a nearly one-dimensional (1D) spin-1/2 chain antiferromagnet, Sr 2CuO 3, with extremely weak magnetic ordering. The ESR spectra at T > T N, in the disordered Luttinger-spin-liquid phase, reveal nearly ideal Heisenberg-chain behavior with only a very small, field-independent linewidth, ~1/T. In the ordered state, below T N, we identify field-dependent antiferromagnetic resonance modes, which are well described by pseudo-Goldstone magnons in the model of a collinear biaxial antiferromagnet. Additionally, we observe a major resonant mode with unusual and strongly anisotropic properties, which is not anticipated by the conventional theorymore » of Goldstone spin waves. Lastly, we propose that this unexpected magnetic excitation can be attributed to a field-independent magnon mode renormalized due to its interaction with the high-energy amplitude (Higgs) mode in the regime of weak spontaneous symmetry breaking.« less

Dispersion and decay rate of exciton-polaritons and radiative modes in transition metal dichalcogenide monolayers

NASA Astrophysics Data System (ADS)

Alpeggiani, Filippo; Gong, Su-Hyun; Kuipers, L.

2018-05-01

The two-dimensional excitons of transition metal dichalcogenide (TMDC) monolayers make these materials extremely promising for optical and optoelectronic applications. When the excitons interact with the electromagnetic field, they will give rise to exciton-polaritons, i.e., modes that propagate in the material plane while being confined in the out-of-plane direction. In this work, we derive the characteristic equations that determine both radiative and polaritonic modes in TMDC monolayers and we analyze the dispersion and decay rate of the modes. The condition for the existence of exciton-polaritons can be described in terms of a strong-coupling regime for the interaction between the exciton and the three-dimensional continuum of free-space electromagnetic modes. We show that the threshold for the strong-coupling regime critically depends on the interplay between nonradiative losses and the dielectric function imbalance at the two sides of the monolayer. Our results illustrate that a fine control of the dielectric function of the embedding media is essential for realizing exciton-polaritons in the strong-coupling regime.

Continuum limit of the vibrational properties of amorphous solids

PubMed Central

Mizuno, Hideyuki; Ikeda, Atsushi

2017-01-01

The low-frequency vibrational and low-temperature thermal properties of amorphous solids are markedly different from those of crystalline solids. This situation is counterintuitive because all solid materials are expected to behave as a homogeneous elastic body in the continuum limit, in which vibrational modes are phonons that follow the Debye law. A number of phenomenological explanations for this situation have been proposed, which assume elastic heterogeneities, soft localized vibrations, and so on. Microscopic mean-field theories have recently been developed to predict the universal non-Debye scaling law. Considering these theoretical arguments, it is absolutely necessary to directly observe the nature of the low-frequency vibrations of amorphous solids and determine the laws that such vibrations obey. Herein, we perform an extremely large-scale vibrational mode analysis of a model amorphous solid. We find that the scaling law predicted by the mean-field theory is violated at low frequency, and in the continuum limit, the vibrational modes converge to a mixture of phonon modes that follow the Debye law and soft localized modes that follow another universal non-Debye scaling law. PMID:29087941

Avoiding the Enumeration of Infeasible Elementary Flux Modes by Including Transcriptional Regulatory Rules in the Enumeration Process Saves Computational Costs

PubMed Central

Jungreuthmayer, Christian; Ruckerbauer, David E.; Gerstl, Matthias P.; Hanscho, Michael; Zanghellini, Jürgen

2015-01-01

Despite the significant progress made in recent years, the computation of the complete set of elementary flux modes of large or even genome-scale metabolic networks is still impossible. We introduce a novel approach to speed up the calculation of elementary flux modes by including transcriptional regulatory information into the analysis of metabolic networks. Taking into account gene regulation dramatically reduces the solution space and allows the presented algorithm to constantly eliminate biologically infeasible modes at an early stage of the computation procedure. Thereby, computational costs, such as runtime, memory usage, and disk space, are extremely reduced. Moreover, we show that the application of transcriptional rules identifies non-trivial system-wide effects on metabolism. Using the presented algorithm pushes the size of metabolic networks that can be studied by elementary flux modes to new and much higher limits without the loss of predictive quality. This makes unbiased, system-wide predictions in large scale metabolic networks possible without resorting to any optimization principle. PMID:26091045

India's Trade in Higher Education

ERIC Educational Resources Information Center

Kumar, Shailendra

2015-01-01

India has had an extremely adverse balance of trade in education. Though only a minor education exporter through Mode 2, India is the world's second largest student-sending country. Nevertheless, given English as the medium of instruction especially in apex institutions, low tuition and cost of living, quite a few world-class institutions, and a…

Force Myography to Control Robotic Upper Extremity Prostheses: A Feasibility Study

PubMed Central

Cho, Erina; Chen, Richard; Merhi, Lukas-Karim; Xiao, Zhen; Pousett, Brittany; Menon, Carlo

2016-01-01

Advancement in assistive technology has led to the commercial availability of multi-dexterous robotic prostheses for the upper extremity. The relatively low performance of the currently used techniques to detect the intention of the user to control such advanced robotic prostheses, however, limits their use. This article explores the use of force myography (FMG) as a potential alternative to the well-established surface electromyography. Specifically, the use of FMG to control different grips of a commercially available robotic hand, Bebionic3, is investigated. Four male transradially amputated subjects participated in the study, and a protocol was developed to assess the prediction accuracy of 11 grips. Different combinations of grips were examined, ranging from 6 up to 11 grips. The results indicate that it is possible to classify six primary grips important in activities of daily living using FMG with an accuracy of above 70% in the residual limb. Additional strategies to increase classification accuracy, such as using the available modes on the Bebionic3, allowed results to improve up to 88.83 and 89.00% for opposed thumb and non-opposed thumb modes, respectively. PMID:27014682

Bioassays for Evaluating Water Quality-Technical Brief

EPA Pesticide Factsheets

Bioassays are a potential solution for assessing complex samples since they screen for total bioactivity for a given pathway or mode of action (MOA), such as estrogen receptor activation, in the samples. EPA has made considerable progress in the developmen

Explicit Pharmacokinetic Modeling: Tools for Documentation, Verification, and Portability

EPA Science Inventory

Quantitative estimates of tissue dosimetry of environmental chemicals due to multiple exposure pathways require the use of complex mathematical models, such as physiologically-based pharmacokinetic (PBPK) models. The process of translating the abstract mathematics of a PBPK mode...

21st Century Changes in Precipitation Extremes Based on Resolved Atmospheric Patterns

NASA Astrophysics Data System (ADS)

Gao, X.; Schlosser, C. A.; O'Gorman, P. A.; Monier, E.

2014-12-01

Global warming is expected to alter the frequency and/or magnitude of extreme precipitation events. Such changes could have substantial ecological, economic, and sociological consequences. However, climate models in general do not correctly reproduce the frequency distribution of precipitation, especially at the regional scale. In this study, a validated analogue method is employed to diagnose the potential future shifts in the probability of extreme precipitation over the United States under global warming. The method is based on the use of the resolved large-scale meteorological conditions (i.e. flow features, moisture supply) to detect the occurrence of extreme precipitation. The CMIP5 multi-model projections have been compiled for two radiative forcing scenarios (Representative Concentration Pathways 4.5 and 8.5). We further analyze the accompanying circulation features and their changes that may be responsible for shifts in extreme precipitation in response to changed climate. The application of such analogue method to detect other types of hazard events, i.e. landslides is also explored. The results from this study may guide hazardous weather watches and help society develop adaptive strategies for preventing catastrophic losses.

Percutenous Catheter Ablation of the Accessory Pathway in a Patient with Wolff-Parkinson-White Syndrome Associated with Familial Atrial Fibrillation

PubMed Central

Cay, Serkan; Topaloglu, Serkan; Aras, Dursun

2008-01-01

Percutenous catheter ablation of the accessory pathway in Wolff-Parkinson-White syndrome is a highly successful mode of therapy. Sudden cardiac arrest survivors associated with WPW syndrome should undergo radiofrequency catheter ablation. WPW syndrome associated with familial atrial fibrillation is a very rare condition. Herein, we describe a case who presented with sudden cardiac arrest secondary to WPW syndrome and familial atrial fibrillation and treated via radiofrequency catheter ablation. PMID:18379660

The semiconductor waveguide facet reflectivity problem

DOE Office of Scientific and Technical Information (OSTI.GOV)

Herzinger, C.M.; Lu, C.C.; DeTemple, T.A.

1993-08-01

The problem of the facet reflectivity of a semiconductor slab waveguide is reexamined as an extension of Ikegami's original approach but which includes radiation-like modes. The latter are included, using a guide-within-a-guide geometry, as modes bound to a thick air-cladding guide which contains the core profile of interest. In this model with a relatively simple analysis, the coupling from the fundamental mode to radiation modes can be analyzed. The cross-coupling to the radiation modes is considered in detail for the simple double heterostructure waveguide and is shown to be important only for large core-cladding index differences and for strong modalmore » confinement wherein it results in a true facet loss. The conditions for this are the same as for low threshold lasers so that the loss sets a maximum limit on the equivalent internal quantum efficiency. A separate one-dimensional finite element, numerical mode matching program, which treats evanescent and propagating radiation modes, is used as a comparison. The two methods of accounting for radiation modes are shown to be in good agreement: both predict reduced extremes in reflectivity when compared with the original Ikegami model. Modern graded core cases are treated as general examples along with the specific quantum well laser structures taken from the literature. These include II-VI and III-V structures spanning wavelengths from 0.5 [mu]m to 10.0 [mu]m.« less

Correlates of mammographic density in B-mode ultrasound and real time elastography.

PubMed

Jud, Sebastian Michael; Häberle, Lothar; Fasching, Peter A; Heusinger, Katharina; Hack, Carolin; Faschingbauer, Florian; Uder, Michael; Wittenberg, Thomas; Wagner, Florian; Meier-Meitinger, Martina; Schulz-Wendtland, Rüdiger; Beckmann, Matthias W; Adamietz, Boris R

2012-07-01

The aim of our study involved the assessment of B-mode imaging and elastography with regard to their ability to predict mammographic density (MD) without X-rays. Women, who underwent routine mammography, were prospectively examined with additional B-mode ultrasound and elastography. MD was assessed quantitatively with a computer-assisted method (Madena). The B-mode and elastography images were assessed by histograms with equally sized gray-level intervals. Regression models were built and cross validated to examine the ability to predict MD. The results of this study showed that B-mode imaging and elastography were able to predict MD. B-mode seemed to give a more accurate prediction. R for B-mode image and elastography were 0.67 and 0.44, respectively. Areas in the B-mode images that correlated with mammographic dense areas were either dark gray or of intermediate gray levels. Concerning elastography only the gray levels that represent extremely stiff tissue correlated positively with MD. In conclusion, ultrasound seems to be able to predict MD. Easy and cheap utilization of regular breast ultrasound machines encourages the use of ultrasound in larger case-control studies to validate this method as a breast cancer risk predictor. Furthermore, the application of ultrasound for breast tissue characterization could enable comprehensive research concerning breast cancer risk and breast density in young and pregnant women.

Influence of land-atmosphere feedbacks on temperature and precipitation extremes in the GLACE-CMIP5 ensemble

USGS Publications Warehouse

Lorenz, Ruth; Argueso, Daniel; Donat, Markus G.; Pitman, Andrew J.; van den Hurk, Bart; Berg, Alexis; Lawrence, David M.; Cheruy, Frederique; Ducharne, Agnes; Hagemann, Stefan; Meier, Arndt; Milly, Paul C.D.; Seneviratne, Sonia I

2016-01-01

We examine how soil moisture variability and trends affect the simulation of temperature and precipitation extremes in six global climate models using the experimental protocol of the Global Land-Atmosphere Coupling Experiment of the Coupled Model Intercomparison Project, Phase 5 (GLACE-CMIP5). This protocol enables separate examinations of the influences of soil moisture variability and trends on the intensity, frequency, and duration of climate extremes by the end of the 21st century under a business-as-usual (Representative Concentration Pathway 8.5) emission scenario. Removing soil moisture variability significantly reduces temperature extremes over most continental surfaces, while wet precipitation extremes are enhanced in the tropics. Projected drying trends in soil moisture lead to increases in intensity, frequency, and duration of temperature extremes by the end of the 21st century. Wet precipitation extremes are decreased in the tropics with soil moisture trends in the simulations, while dry extremes are enhanced in some regions, in particular the Mediterranean and Australia. However, the ensemble results mask considerable differences in the soil moisture trends simulated by the six climate models. We find that the large differences between the models in soil moisture trends, which are related to an unknown combination of differences in atmospheric forcing (precipitation, net radiation), flux partitioning at the land surface, and how soil moisture is parameterized, imply considerable uncertainty in future changes in climate extremes.

Nonhydrostatic and surfbeat model predictions of extreme wave run-up in fringing reef environments

USGS Publications Warehouse

Lashley, Christopher H.; Roelvink, Dano; van Dongeren, Ap R.; Buckley, Mark L.; Lowe, Ryan J.

2018-01-01

The accurate prediction of extreme wave run-up is important for effective coastal engineering design and coastal hazard management. While run-up processes on open sandy coasts have been reasonably well-studied, very few studies have focused on understanding and predicting wave run-up at coral reef-fronted coastlines. This paper applies the short-wave resolving, Nonhydrostatic (XB-NH) and short-wave averaged, Surfbeat (XB-SB) modes of the XBeach numerical model to validate run-up using data from two 1D (alongshore uniform) fringing-reef profiles without roughness elements, with two objectives: i) to provide insight into the physical processes governing run-up in such environments; and ii) to evaluate the performance of both modes in accurately predicting run-up over a wide range of conditions. XBeach was calibrated by optimizing the maximum wave steepness parameter (maxbrsteep) in XB-NH and the dissipation coefficient (alpha) in XB-SB) using the first dataset; and then applied to the second dataset for validation. XB-NH and XB-SB predictions of extreme wave run-up (Rmax and R2%) and its components, infragravity- and sea-swell band swash (SIG and SSS) and shoreline setup (<η>), were compared to observations. XB-NH more accurately simulated wave transformation but under-predicted shoreline setup due to its exclusion of parameterized wave-roller dynamics. XB-SB under-predicted sea-swell band swash but overestimated shoreline setup due to an over-prediction of wave heights on the reef flat. Run-up (swash) spectra were dominated by infragravity motions, allowing the short-wave (but not wave group) averaged model (XB-SB) to perform comparably well to its more complete, short-wave resolving (XB-NH) counterpart. Despite their respective limitations, both modes were able to accurately predict Rmax and R2%.

Radiative Characteristics of Aerosol During Extreme Fire Event over Siberia in Summer 2012

NASA Technical Reports Server (NTRS)

Zhuravleva, Tatiana B.; Kabanov, Dmitriy M.; Nasrtdinov, Ilmir M.; Russkova, Tatiana V.; Sakerin, Sergey M.; Smirnov, Alexander; Holben, Brent N.

2017-01-01

Microphysical and optical properties of aerosol were studied during a mega-fire event in summer 2012 over Siberia using ground-based measurements of spectral solarradiation at the AERONET site in Tomsk and satellite observations. The data were analyzed using multi-year (2003-2013) measurements of aerosol characteristics under back-ground conditions and for less intense fires, differing in burning biomass type, stage of fire, remoteness from observation site, etc. (ordinary smoke). In June-August 2012, the average aerosol optical depth (AOD, 500 nm) had been 0.95+/-0.86, about a factor of 6 larger than background values (0.16+/-0.08), and a factor of 2.5 larger than in ordinary smoke. The AOD values were extremely high on 24-28 July and reached 3-5. A comparison with satellite observations showed that ground-based measurements in the region of Tomsk not only reflect the local AOD features, but are also characteristic for the territory of Western Siberia as a whole. Single scattering albedo (SSA, 440 nm) in this period ranged from 0.91 to 0.99 with an average of approx. 0.96 in the entire wavelength range of 440-1020 nm. The increase in absorptance of aerosol particles (SSA(440 nm)=0.92) and decrease in SSA with wavelength observed in ordinary smoke agree with the data from multi-year observations in analogous situations in the boreal zone of USA and Canada. Volume aerosol size distribution in extreme and ordinary smoke had a bimodal character with significant prevalence of fine-mode particles, but in summer 2012 the mean median radius and the width of the fine-mode distribution somewhat increased. In contrast to data from multi-year observations, in summer 2012 an increase in the volume concentration and median radius of the coarse mode was observed with growing AOD.

Mechanical trapping of particles in granular media

NASA Astrophysics Data System (ADS)

Kerimov, Abdulla; Mavko, Gary; Mukerji, Tapan; Al Ibrahim, Mustafa A.

2018-02-01

Mechanical trapping of fine particles in the pores of granular materials is an essential mechanism in a wide variety of natural and industrial filtration processes. The progress of invading particles is primarily limited by the network of pore throats and connected pathways encountered by the particles during their motion through the porous medium. Trapping of invading particles is limited to a depth defined by the size, shape, and distribution of the invading particles with respect to the size, shape, and distribution of the host porous matrix. Therefore, the trapping process, in principle, can be used to obtain information about geometrical properties, such as pore throat and particle size, of the underlying host matrix. A numerical framework is developed to simulate the mechanical trapping of fine particles in porous granular media with prescribed host particle size, shape, and distribution. The trapping of invading particles is systematically modeled in host packings with different host particle distributions: monodisperse, bidisperse, and polydisperse distributions of host particle sizes. Our simulation results show quantitatively and qualitatively to what extent trapping behavior is different in the generated monodisperse, bidisperse, and polydisperse packings of spherical particles. Depending on host particle size and distribution, the information about extreme estimates of minimal pore throat sizes of the connected pathways in the underlying host matrix can be inferred from trapping features, such as the fraction of trapped particles as a function of invading particle size. The presence of connected pathways with minimum and maximum of minimal pore throat diameters can be directly obtained from trapping features. This limited information about the extreme estimates of pore throat sizes of the connected pathways in the host granular media inferred from our numerical simulations is consistent with simple geometrical estimates of extreme value of pore and throat sizes of the densest structural arrangements of spherical particles and geometrical Delaunay tessellation analysis of the pore space of host granular media. Our results suggest simple relations between the host particle size and trapping features. These relationships can be potentially used to describe both the dynamics of the mechanical trapping process and the geometrical properties of the host granular media.

Mechanical trapping of particles in granular media.

PubMed

Kerimov, Abdulla; Mavko, Gary; Mukerji, Tapan; Al Ibrahim, Mustafa A

2018-02-01

Mechanical trapping of fine particles in the pores of granular materials is an essential mechanism in a wide variety of natural and industrial filtration processes. The progress of invading particles is primarily limited by the network of pore throats and connected pathways encountered by the particles during their motion through the porous medium. Trapping of invading particles is limited to a depth defined by the size, shape, and distribution of the invading particles with respect to the size, shape, and distribution of the host porous matrix. Therefore, the trapping process, in principle, can be used to obtain information about geometrical properties, such as pore throat and particle size, of the underlying host matrix. A numerical framework is developed to simulate the mechanical trapping of fine particles in porous granular media with prescribed host particle size, shape, and distribution. The trapping of invading particles is systematically modeled in host packings with different host particle distributions: monodisperse, bidisperse, and polydisperse distributions of host particle sizes. Our simulation results show quantitatively and qualitatively to what extent trapping behavior is different in the generated monodisperse, bidisperse, and polydisperse packings of spherical particles. Depending on host particle size and distribution, the information about extreme estimates of minimal pore throat sizes of the connected pathways in the underlying host matrix can be inferred from trapping features, such as the fraction of trapped particles as a function of invading particle size. The presence of connected pathways with minimum and maximum of minimal pore throat diameters can be directly obtained from trapping features. This limited information about the extreme estimates of pore throat sizes of the connected pathways in the host granular media inferred from our numerical simulations is consistent with simple geometrical estimates of extreme value of pore and throat sizes of the densest structural arrangements of spherical particles and geometrical Delaunay tessellation analysis of the pore space of host granular media. Our results suggest simple relations between the host particle size and trapping features. These relationships can be potentially used to describe both the dynamics of the mechanical trapping process and the geometrical properties of the host granular media.

Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia

PubMed Central

Hou, Shaobin; Makarova, Kira S; Saw, Jimmy HW; Senin, Pavel; Ly, Benjamin V; Zhou, Zhemin; Ren, Yan; Wang, Jianmei; Galperin, Michael Y; Omelchenko, Marina V; Wolf, Yuri I; Yutin, Natalya; Koonin, Eugene V; Stott, Matthew B; Mountain, Bruce W; Crowe, Michelle A; Smirnova, Angela V; Dunfield, Peter F; Feng, Lu; Wang, Lei; Alam, Maqsudul

2008-01-01

Background The phylum Verrucomicrobia is a widespread but poorly characterized bacterial clade. Although cultivation-independent approaches detect representatives of this phylum in a wide range of environments, including soils, seawater, hot springs and human gastrointestinal tract, only few have been isolated in pure culture. We have recently reported cultivation and initial characterization of an extremely acidophilic methanotrophic member of the Verrucomicrobia, strain V4, isolated from the Hell's Gate geothermal area in New Zealand. Similar organisms were independently isolated from geothermal systems in Italy and Russia. Results We report the complete genome sequence of strain V4, the first one from a representative of the Verrucomicrobia. Isolate V4, initially named "Methylokorus infernorum" (and recently renamed Methylacidiphilum infernorum) is an autotrophic bacterium with a streamlined genome of ~2.3 Mbp that encodes simple signal transduction pathways and has a limited potential for regulation of gene expression. Central metabolism of M. infernorum was reconstructed almost completely and revealed highly interconnected pathways of autotrophic central metabolism and modifications of C1-utilization pathways compared to other known methylotrophs. The M. infernorum genome does not encode tubulin, which was previously discovered in bacteria of the genus Prosthecobacter, or close homologs of any other signature eukaryotic proteins. Phylogenetic analysis of ribosomal proteins and RNA polymerase subunits unequivocally supports grouping Planctomycetes, Verrucomicrobia and Chlamydiae into a single clade, the PVC superphylum, despite dramatically different gene content in members of these three groups. Comparative-genomic analysis suggests that evolution of the M. infernorum lineage involved extensive horizontal gene exchange with a variety of bacteria. The genome of M. infernorum shows apparent adaptations for existence under extremely acidic conditions including a major upward shift in the isoelectric points of proteins. Conclusion The results of genome analysis of M. infernorum support the monophyly of the PVC superphylum. M. infernorum possesses a streamlined genome but seems to have acquired numerous genes including those for enzymes of methylotrophic pathways via horizontal gene transfer, in particular, from Proteobacteria. Reviewers This article was reviewed by John A. Fuerst, Ludmila Chistoserdova, and Radhey S. Gupta. PMID:18593465

Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia.

PubMed

Hou, Shaobin; Makarova, Kira S; Saw, Jimmy H W; Senin, Pavel; Ly, Benjamin V; Zhou, Zhemin; Ren, Yan; Wang, Jianmei; Galperin, Michael Y; Omelchenko, Marina V; Wolf, Yuri I; Yutin, Natalya; Koonin, Eugene V; Stott, Matthew B; Mountain, Bruce W; Crowe, Michelle A; Smirnova, Angela V; Dunfield, Peter F; Feng, Lu; Wang, Lei; Alam, Maqsudul

2008-07-01

The phylum Verrucomicrobia is a widespread but poorly characterized bacterial clade. Although cultivation-independent approaches detect representatives of this phylum in a wide range of environments, including soils, seawater, hot springs and human gastrointestinal tract, only few have been isolated in pure culture. We have recently reported cultivation and initial characterization of an extremely acidophilic methanotrophic member of the Verrucomicrobia, strain V4, isolated from the Hell's Gate geothermal area in New Zealand. Similar organisms were independently isolated from geothermal systems in Italy and Russia. We report the complete genome sequence of strain V4, the first one from a representative of the Verrucomicrobia. Isolate V4, initially named "Methylokorus infernorum" (and recently renamed Methylacidiphilum infernorum) is an autotrophic bacterium with a streamlined genome of ~2.3 Mbp that encodes simple signal transduction pathways and has a limited potential for regulation of gene expression. Central metabolism of M. infernorum was reconstructed almost completely and revealed highly interconnected pathways of autotrophic central metabolism and modifications of C1-utilization pathways compared to other known methylotrophs. The M. infernorum genome does not encode tubulin, which was previously discovered in bacteria of the genus Prosthecobacter, or close homologs of any other signature eukaryotic proteins. Phylogenetic analysis of ribosomal proteins and RNA polymerase subunits unequivocally supports grouping Planctomycetes, Verrucomicrobia and Chlamydiae into a single clade, the PVC superphylum, despite dramatically different gene content in members of these three groups. Comparative-genomic analysis suggests that evolution of the M. infernorum lineage involved extensive horizontal gene exchange with a variety of bacteria. The genome of M. infernorum shows apparent adaptations for existence under extremely acidic conditions including a major upward shift in the isoelectric points of proteins. The results of genome analysis of M. infernorum support the monophyly of the PVC superphylum. M. infernorum possesses a streamlined genome but seems to have acquired numerous genes including those for enzymes of methylotrophic pathways via horizontal gene transfer, in particular, from Proteobacteria. This article was reviewed by John A. Fuerst, Ludmila Chistoserdova, and Radhey S. Gupta.

Extremely Low Loss Phonon-Trapping Cryogenic Acoustic Cavities for Future Physical Experiments

PubMed Central

Galliou, Serge; Goryachev, Maxim; Bourquin, Roger; Abbé, Philippe; Aubry, Jean Pierre; Tobar, Michael E.

2013-01-01

Low loss Bulk Acoustic Wave devices are considered from the point of view of the solid state approach as phonon-confining cavities. We demonstrate effective design of such acoustic cavities with phonon-trapping techniques exhibiting extremely high quality factors for trapped longitudinally-polarized phonons of various wavelengths. Quality factors of observed modes exceed 1 billion, with a maximum Q-factor of 8 billion and Q × f product of 1.6 · 1018 at liquid helium temperatures. Such high sensitivities allow analysis of intrinsic material losses in resonant phonon systems. Various mechanisms of phonon losses are discussed and estimated. PMID:23823569

Mitigating Climate Change with Earth Orbital Sunshades

NASA Technical Reports Server (NTRS)

Coverstone, Victoria; Johnson, Les

2015-01-01

An array of rotating sunshades based on emerging solar sail technology will be deployed in a novel Earth orbit to provide near-continuous partial shading of the Earth, reducing the heat input to the atmosphere by blocking a small percentage of the incoming sunlight, and mitigating local weather effects of anticipated climate change over the next century. The technology will provide local cooling relief during extreme heat events (and heating relief during extreme cold events) thereby saving human lives, agriculture, livestock, water and energy needs. A synthesis of the solar sail design, the sails' operational modes, and the selected orbit combine to provide local weather modification.

New Hydrocarbon Degradation Pathways in the Microbial Metagenome from Brazilian Petroleum Reservoirs

PubMed Central

Sierra-García, Isabel Natalia; Correa Alvarez, Javier; Pantaroto de Vasconcellos, Suzan; Pereira de Souza, Anete; dos Santos Neto, Eugenio Vaz; de Oliveira, Valéria Maia

2014-01-01

Current knowledge of the microbial diversity and metabolic pathways involved in hydrocarbon degradation in petroleum reservoirs is still limited, mostly due to the difficulty in recovering the complex community from such an extreme environment. Metagenomics is a valuable tool to investigate the genetic and functional diversity of previously uncultured microorganisms in natural environments. Using a function-driven metagenomic approach, we investigated the metabolic abilities of microbial communities in oil reservoirs. Here, we describe novel functional metabolic pathways involved in the biodegradation of aromatic compounds in a metagenomic library obtained from an oil reservoir. Although many of the deduced proteins shared homology with known enzymes of different well-described aerobic and anaerobic catabolic pathways, the metagenomic fragments did not contain the complete clusters known to be involved in hydrocarbon degradation. Instead, the metagenomic fragments comprised genes belonging to different pathways, showing novel gene arrangements. These results reinforce the potential of the metagenomic approach for the identification and elucidation of new genes and pathways in poorly studied environments and contribute to a broader perspective on the hydrocarbon degradation processes in petroleum reservoirs. PMID:24587220

An enhanced effective mode area fluorine doped octagonal photonic crystal fiber with extremely low loss

NASA Astrophysics Data System (ADS)

Kabir, Sumaiya; Razzak, S. M. Abdur

2018-07-01

In our paper an enhanced effective mode area octagonal photonic crystal fiber (PCF) is presented. This PCF ensures large effective mode area along with ultra-low confinement loss and bending loss. Both the elimination of air-holes from the rings near the core region and inclusion of low index fluorine doped silica rods in an octagonal pattern are the vital design features. We have used full vectorial finite element method (FEM) based software with circularly perfectly matched layer (PML) to simulate the guiding properties of PCF. Our proposed fiber achieves effective mode area of 1110 μm2. Moreover, it offers ultra-low confinement loss of 1.14 × 10-15 dB/m and can be bent as small as 30 cm without any significant bending loss of 6.49 × 10-9 dB/m. The PCF also ensures low non-linearity with small amount of splice loss. However, our proposed PCF can be used in applications like fiber amplifiers and lasers.

Modeling the Influence of Injection Modes on the Evolution of Solution Sprays in a Plasma Jet

NASA Astrophysics Data System (ADS)

Shan, Y.; Coyle, T. W.; Mostaghimi, J.

2010-01-01

Solution precursor plasma spraying (SPPS) is a novel technology with great potential for depositing finely structured ceramic coatings with nano- and sub-micrometric features. The solution is injected into the plasma jet either as a liquid stream or gas atomized droplets. Solution droplets or the stream interact with the plasma jet and break up into fine droplets. The solvent vaporizes very fast as the droplets travel downstream. Solid particles are finally formed, and the particle are heated up and accelerated to the substrate to generate the coating. The deposition process and the properties of coatings obtained are extremely sensitive to the process parameters, such as torch operating conditions, injection modes, injection parameters, and substrate temperatures. This article numerically investigates the effect of injection modes, a liquid stream injection and a gas-blast injection, on the size distribution of injected droplets. The particle/droplet size, temperature, and position distributions on the substrate are predicted for different injection modes.

Spatial drought reconstructions for central High Asia based on tree rings

NASA Astrophysics Data System (ADS)

Fang, Keyan; Davi, Nicole; Gou, Xiaohua; Chen, Fahu; Cook, Edward; Li, Jinbao; D'Arrigo, Rosanne

2010-11-01

Spatial reconstructions of drought for central High Asia based on a tree-ring network are presented. Drought patterns for central High Asia are classified into western and eastern modes of variability. Tree-ring based reconstructions of the Palmer drought severity index (PDSI) are presented for both the western central High Asia drought mode (1587-2005), and for the eastern central High Asia mode (1660-2005). Both reconstructions, generated using a principal component regression method, show an increased variability in recent decades. The wettest epoch for both reconstructions occurred from the 1940s to the 1950s. The most extreme reconstructed drought for western central High Asia was from the 1640s to the 1650s, coinciding with the collapse of the Chinese Ming Dynasty. The eastern central High Asia reconstruction has shown a distinct tendency towards drier conditions since the 1980s. Our spatial reconstructions agree well with previous reconstructions that fall within each mode, while there is no significant correlation between the two spatial reconstructions.

Transverse excitations in liquid Fe, Cu and Zn

NASA Astrophysics Data System (ADS)

Hosokawa, S.; Inui, M.; Kajihara, Y.; Tsutsui, S.; Baron, A. Q. R.

2015-05-01

Transverse acoustic (TA) excitation modes were observed in inelastic x-ray scattering spectra of liquid Fe, Cu and Zn. From the analysis of current correlation functions, we concluded that TA excitation modes can experimentally be detected through the quasi-TA branches in the longitudinal current correlation spectra in these liquid metals. The microscopic elastic constants are estimated and a characteristic difference from macroscopic polycrystalline value was found in Poisson's ratio of liquid Fe, which shows an extremely softer value of ∼0.38 compared with the macroscopic value of ∼0.275. The lifetime of the TA modes were determined to be ∼0.45 ps for liquid Fe and Cu and ∼0.55 ps for liquid Zn, reflecting different interatomic correlations between liquid transition metals and non-transition metals. The propagation length of the TA modes are ∼0.85 nm in all of liquid metals, corresponding to the size of icosahedral or similar size of cages formed instantaneously in these liquid metals.

Validation of the ‘full reconnection model’ of the sawtooth instability in KSTAR

NASA Astrophysics Data System (ADS)

Nam, Y. B.; Ko, J. S.; Choe, G. H.; Bae, Y.; Choi, M. J.; Lee, W.; Yun, G. S.; Jardin, S.; Park, H. K.

2018-06-01

The central safety factor (q 0) during sawtooth oscillation has been measured with a great accuracy with the motional Stark effect (MSE) system on KSTAR and the measured value was However, this measurement alone cannot validate the disputed full and partial reconnection models definitively due to non-trivial off-set error (~0.05). Supplemental experiment of the excited m  =  2, m  =  3 modes that are extremely sensitive to the background q 0 and core magnetic shear definitively validates the ‘full reconnection model’. The radial position of the excited modes right after the crash and time evolution into the 1/1 kink mode before the crash in a sawtoothing plasma suggests that in the MHD quiescent period after the crash and before the crash. Additional measurement of the long lived m  =  3, m  =  5 modes in a non-sawtoothing discharge (presumably ) further validates the ‘full reconnection model’.

The seco-iridoid pathway from Catharanthus roseus

PubMed Central

Miettinen, Karel; Dong, Lemeng; Navrot, Nicolas; Schneider, Thomas; Burlat, Vincent; Pollier, Jacob; Woittiez, Lotte; van der Krol, Sander; Lugan, Raphaël; Ilc, Tina; Verpoorte, Robert; Oksman-Caldentey, Kirsi-Marja; Martinoia, Enrico; Bouwmeester, Harro; Goossens, Alain; Memelink, Johan; Werck-Reichhart, Danièle

2014-01-01

The (seco)iridoids and their derivatives, the monoterpenoid indole alkaloids (MIAs), form two large families of plant-derived bioactive compounds with a wide spectrum of high-value pharmacological and insect-repellent activities. Vinblastine and vincristine, MIAs used as anticancer drugs, are produced by Catharanthus roseus in extremely low levels, leading to high market prices and poor availability. Their biotechnological production is hampered by the fragmentary knowledge of their biosynthesis. Here we report the discovery of the last four missing steps of the (seco)iridoid biosynthesis pathway. Expression of the eight genes encoding this pathway, together with two genes boosting precursor formation and two downstream alkaloid biosynthesis genes, in an alternative plant host, allows the heterologous production of the complex MIA strictosidine. This confirms the functionality of all enzymes of the pathway and highlights their utility for synthetic biology programmes towards a sustainable biotechnological production of valuable (seco)iridoids and alkaloids with pharmaceutical and agricultural applications. PMID:24710322

Current progress in orchid flowering/flower development research

PubMed Central

Wang, Hsin-Mei; Tong, Chii-Gong

2017-01-01

ABSTRACT Genetic pathways relevant to flowering of Arabidopsis are under the control of environmental cues such as day length and temperatures, and endogenous signals including phytohormones and developmental aging. However, genes and even regulatory pathways for flowering identified in crops show divergence from those of Arabidopsis and often do not have functional equivalents to Arabidopsis and/or existing species- or genus-specific regulators and show modified or novel pathways. Orchids are the largest, most highly evolved flowering plants, and form an extremely peculiar group of plants. Here, we briefly summarize the flowering pathways of Arabidopsis, rice and wheat and present them alongside recent discoveries/progress in orchid flowering and flower developmental processes including our transgenic Phalaenopsis orchids for LEAFY overexpression. Potential biotechnological applications in flowering/flower development of orchids with potential target genes are also discussed from an interactional and/or comparative viewpoint. PMID:28448202

Prediction of Metabolite Concentrations, Rate Constants and Post-Translational Regulation Using Maximum Entropy-Based Simulations with Application to Central Metabolism of Neurospora crassa

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cannon, William; Zucker, Jeremy; Baxter, Douglas

We report the application of a recently proposed approach for modeling biological systems using a maximum entropy production rate principle in lieu of having in vivo rate constants. The method is applied in four steps: (1) a new ODE-based optimization approach based on Marcelin’s 1910 mass action equation is used to obtain the maximum entropy distribution, (2) the predicted metabolite concentrations are compared to those generally expected from experiment using a loss function from which post-translational regulation of enzymes is inferred, (3) the system is re-optimized with the inferred regulation from which rate constants are determined from the metabolite concentrationsmore » and reaction fluxes, and finally (4) a full ODE-based, mass action simulation with rate parameters and allosteric regulation is obtained. From the last step, the power characteristics and resistance of each reaction can be determined. The method is applied to the central metabolism of Neurospora crassa and the flow of material through the three competing pathways of upper glycolysis, the non-oxidative pentose phosphate pathway, and the oxidative pentose phosphate pathway are evaluated as a function of the NADP/NADPH ratio. It is predicted that regulation of phosphofructokinase (PFK) and flow through the pentose phosphate pathway are essential for preventing an extreme level of fructose 1, 6-bisphophate accumulation. Such an extreme level of fructose 1,6-bisphophate would otherwise result in a glassy cytoplasm with limited diffusion, dramatically decreasing the entropy and energy production rate and, consequently, biological competitiveness.« less

High-Order Dielectric Metasurfaces for High-Efficiency Polarization Beam Splitters and Optical Vortex Generators

NASA Astrophysics Data System (ADS)

Guo, Zhongyi; Zhu, Lie; Guo, Kai; Shen, Fei; Yin, Zhiping

2017-08-01

In this paper, a high-order dielectric metasurface based on silicon nanobrick array is proposed and investigated. By controlling the length and width of the nanobricks, the metasurfaces could supply two different incremental transmission phases for the X-linear-polarized (XLP) and Y-linear-polarized (YLP) light with extremely high efficiency over 88%. Based on the designed metasurface, two polarization beam splitters working in high-order diffraction modes have been designed successfully, which demonstrated a high transmitted efficiency. In addition, we have also designed two vortex-beam generators working in high-order diffraction modes to create vortex beams with the topological charges of 2 and 3. The employment of dielectric metasurfaces operating in high-order diffraction modes could pave the way for a variety of new ultra-efficient optical devices.

Cortical reorganization associated lower extremity motor recovery as evidenced by functional MRI and diffusion tensor tractography in a stroke patient.

PubMed

Jang, Sung Ho; You, Sung H; Kwon, Yong-Hyun; Hallett, Mark; Lee, Mi Young; Ahn, Sang Ho

2005-01-01

Recovery mechanisms supporting upper extremity motor recovery following stroke are well established, but cortical mechanism associated with lower extremity motor recovery is unknown. The aim of this study was to assess cortical reorganization associated with lower extremity motor recovery in a hemiparetic patient. Six control subjects and a 17 year-old woman with left intracerebral hemorrhage due to an arterio-venous malformation rupture were evaluated. The motor function of the paretic (left) hip and knee had recovered slowly to the extent of her being able to overcome gravity for 10 months after the onset of stroke. However, her paretic upper extremity showed no significant motor recovery. Blood oxygenation level dependent (BOLD) functional MRI at 1.5 Tesla was used to determine the acutual location of cortical activation in the predefined regions of interest. Concurrently, Diffusion Tensor Imaging (DTI) in combination with a novel 3D-fiber reconstruction algorithm was utilized to investigate the pattern of the corticospinal pathway connectivity between the areas of the motor stream. All subjects' body parts were secured in the scanner and performed a sequential knee flexion-extension with a predetermined angle of 0-60 degrees at 0.5 Hz. Controls showed anticipated activation in the contralateral sensorimotor cortex (SM1) and the descending corticospinal fibers stemming from motor cortex. In contrast to control normal subjects, the stroke patient showed fMRI activation only in the unaffected (right) primary SM1 during either paretic or nonparetic knee movements. DTT fiber tracing data showed that the corticospinal tract fibers were found only in the unaffected hemisphere but not in the affected hemisphere. Our results indicate that an ipsilateral motor pathway from the unaffected (right) motor cortex to the paretic (right) leg was present in this patient. This study raises the potential that the contralesional (ipsilateral) SM1 is involved in cortical reorganization associated lower extremity motor recovery in stroke. This study is the first neuroimaging evidence that the combined fMRI and DTI fiber tracing can significantly expand the explanatory power of probing cortical reorganization underlying motor recovery mechanism in stroke.

Gene expression changes leading extreme alkaline tolerance in Amur ide (Leuciscus waleckii) inhabiting soda lake

PubMed Central

2013-01-01

Background Amur ide (Leuciscus waleckii) is an economically and ecologically important cyprinid species in Northern Asia. The Dali Nor population living in the soda lake Dali Nor can adapt the extremely high alkalinity, providing us a valuable material to understand the adaptation mechanism against extreme environmental stress in teleost. Results In this study, we generated high-throughput RNA-Seq data from three tissues gill, liver and kidney of L. waleckii living in the soda lake Dali Nor and the fresh water lake Ganggeng Nor, then performed parallel comparisons of three tissues. Our results showed that out of assembled 64,603 transcript contigs, 28,391 contigs had been assigned with a known function, corresponding to 20,371 unique protein accessions. We found 477, 2,761 and 3,376 differentially expressed genes (DEGs) in the gill, kidney, and liver, respectively, of Dali Nor population compared to Ganggeng Nor population with FDR ≤ 0.01and fold-change ≥ 2. Further analysis revealed that well-known functional categories of genes and signaling pathway, which are associated with stress response and extreme environment adaptation, have been significantly enriched, including the functional categories of “response to stimulus”, “transferase activity”, “transporter activity” and “oxidoreductase activity”, and signaling pathways of “mTOR signaling”, “EIF2 signaling”, “superpathway of cholesterol biosynthesis”. We also identified significantly DEGs encoding important modulators on stress adaptation and tolerance, including carbonic anhydrases, heat shock proteins, superoxide dismutase, glutathione S-transferases, aminopeptidase N, and aminotransferases. Conclusions Overall, this study demonstrated that transcriptome changes in L. waleckii played a role in adaptation to complicated environmental stress in the highly alkalized Dali Nor lake. The results set a foundation for further analyses on alkaline-responsive candidate genes, which help us understand teleost adaptation under extreme environmental stress and ultimately benefit future breeding for alkaline-tolerant fish strains. PMID:24094069

Studying Weather and Climate Extremes in a Non-stationary Framework

NASA Astrophysics Data System (ADS)

Wu, Z.

2010-12-01

The study of weather and climate extremes often uses the theory of extreme values. Such a detection method has a major problem: to obtain the probability distribution of extremes, one has to implicitly assume the Earth’s climate is stationary over a long period within which the climatology is defined. While such detection makes some sense in a purely statistical view of stationary processes, it can lead to misleading statistical properties of weather and climate extremes caused by long term climate variability and change, and may also cause enormous difficulty in attributing and predicting these extremes. To alleviate this problem, here we report a novel non-stationary framework for studying weather and climate extremes in a non-stationary framework. In this new framework, the weather and climate extremes will be defined as timescale-dependent quantities derived from the anomalies with respect to non-stationary climatologies of different timescales. With this non-stationary framework, the non-stationary and nonlinear nature of climate system will be taken into account; and the attribution and the prediction of weather and climate extremes can then be separated into 1) the change of the statistical properties of the weather and climate extremes themselves and 2) the background climate variability and change. The new non-stationary framework will use the ensemble empirical mode decomposition (EEMD) method, which is a recent major improvement of the Hilbert-Huang Transform for time-frequency analysis. Using this tool, we will adaptively decompose various weather and climate data from observation and climate models in terms of the components of the various natural timescales contained in the data. With such decompositions, the non-stationary statistical properties (both spatial and temporal) of weather and climate anomalies and of their corresponding climatologies will be analyzed and documented.

Biomarkers: d13C and d15N Distribution Tightly Coupled to Nutrient Dynamics and Viral Lysing in a Microbial Mat From Death Valley, California

NASA Astrophysics Data System (ADS)

Hewson, I.; Archer, R.; Mahaffey, C.; Scott, J.; Tsapin, A.

2002-12-01

Extrapolations into ancient biomes make many assumptions and inferences regarding life modes and environmental habitat. While definition of a stromatolite as an extinct microbial biome by petrographic analysis is promising, Life interacts with is environment, actively manipulating energy flow across chemical disequilibria gradients, harvesting energy crucial for physiological maintenance and reproduction. Such structuring of communities in turn, leaves specific chemical/isotopic imprints related to physiological processes of prokaryotic communities specific to each oxidation/redox horizon. We examine stable isotopic d13C signals (d13C and d15N) as potential biomarkers reflecting bacterial physiology and microbial community nutrient-energy dynamics. While isotopes may reveal ancient chemical structuring of microbial mats, we also turn to invoking viral lysing of bacterial hosts in nutrient cycling within modern extreme environments as well as ancient stromatic structures of early Earth. Our records of d13C indicate extreme enrichment(-12%) for Corg in our extant mat due to CO2 limitation across a hypersaline diffusive barrier at the mat's surface. d15N is lowest at the mat's surface (indicating N2- fixation) where nitrogen- fixing cyanobacteria Microcoleus sp. are present . Viruses are extremely abundant in the microbial mat, exceeding bacterial abundances by a factor of ten. The ratio of viruses to bacteria was very high (VBR = 39 ñ 10) compared with abundances in marine sediments. Distribution of viruses closely follows distribution of bacteria, suggesting bacteria as primary hosts. The ratio of viruses to bacteria is inversely correlated to the concentration of organic C suggesting virus abundance is responsive to host substrate availability. High ratios of viruses to bacteria in mid-mat horizons (2.5 - 3.7 cm) above increasing levels of d13C in deeper horizons, coupled with a lack of increase in bacteria, suggests that viral lysis contributes to significant downward organic C (polysaccaride exudates) transport within the mat. Subsequent accumulation of d13C as well as heavier d15N in deeper sediment(denitrification)horizons elucidates tight nutrient coupling between evaporite substrate, nitrogen fixing primary producers and downcore zones of active denitrification and sulphate reduction. Discrepencies between d13C of ancient stromatolites (in line with C-3 photosynthetic pathways) and modern analogues (Badwater, CA) suggest a migration of microbial mats towards more extreme environments through time. A methodology for isotopically testing environmental and physiological responses in the geological record is presented here.

North American extreme temperature events and related large scale meteorological patterns: A review of statistical methods, dynamics, modeling, and trends

DOE PAGES

Grotjahn, Richard; Black, Robert; Leung, Ruby; ...

2015-05-22

This paper reviews research approaches and open questions regarding data, statistical analyses, dynamics, modeling efforts, and trends in relation to temperature extremes. Our specific focus is upon extreme events of short duration (roughly less than 5 days) that affect parts of North America. These events are associated with large scale meteorological patterns (LSMPs). Methods used to define extreme events statistics and to identify and connect LSMPs to extreme temperatures are presented. Recent advances in statistical techniques can connect LSMPs to extreme temperatures through appropriately defined covariates that supplements more straightforward analyses. A wide array of LSMPs, ranging from synoptic tomore » planetary scale phenomena, have been implicated as contributors to extreme temperature events. Current knowledge about the physical nature of these contributions and the dynamical mechanisms leading to the implicated LSMPs is incomplete. There is a pressing need for (a) systematic study of the physics of LSMPs life cycles and (b) comprehensive model assessment of LSMP-extreme temperature event linkages and LSMP behavior. Generally, climate models capture the observed heat waves and cold air outbreaks with some fidelity. However they overestimate warm wave frequency and underestimate cold air outbreaks frequency, and underestimate the collective influence of low-frequency modes on temperature extremes. Climate models have been used to investigate past changes and project future trends in extreme temperatures. Overall, modeling studies have identified important mechanisms such as the effects of large-scale circulation anomalies and land-atmosphere interactions on changes in extreme temperatures. However, few studies have examined changes in LSMPs more specifically to understand the role of LSMPs on past and future extreme temperature changes. Even though LSMPs are resolvable by global and regional climate models, they are not necessarily well simulated so more research is needed to understand the limitations of climate models and improve model skill in simulating extreme temperatures and their associated LSMPs. Furthermore, the paper concludes with unresolved issues and research questions.« less

Ultrafast terahertz control of extreme tunnel currents through single atoms on a silicon surface

NASA Astrophysics Data System (ADS)

Jelic, Vedran; Iwaszczuk, Krzysztof; Nguyen, Peter H.; Rathje, Christopher; Hornig, Graham J.; Sharum, Haille M.; Hoffman, James R.; Freeman, Mark R.; Hegmann, Frank A.

2017-06-01

Ultrafast control of current on the atomic scale is essential for future innovations in nanoelectronics. Extremely localized transient electric fields on the nanoscale can be achieved by coupling picosecond duration terahertz pulses to metallic nanostructures. Here, we demonstrate terahertz scanning tunnelling microscopy (THz-STM) in ultrahigh vacuum as a new platform for exploring ultrafast non-equilibrium tunnelling dynamics with atomic precision. Extreme terahertz-pulse-driven tunnel currents up to 107 times larger than steady-state currents in conventional STM are used to image individual atoms on a silicon surface with 0.3 nm spatial resolution. At terahertz frequencies, the metallic-like Si(111)-(7 × 7) surface is unable to screen the electric field from the bulk, resulting in a terahertz tunnel conductance that is fundamentally different than that of the steady state. Ultrafast terahertz-induced band bending and non-equilibrium charging of surface states opens new conduction pathways to the bulk, enabling extreme transient tunnel currents to flow between the tip and sample.

The role of extreme floods in estuary-coastal behaviour: contrasts between river- and tide-dominated microtidal estuaries

NASA Astrophysics Data System (ADS)

Cooper, J. A. G.

2002-06-01

Contrasting modes of sedimentation and facies arrangement in tide- and river-dominated microtidal estuaries arise from the degree to which river or tidal discharge and sediment supply influences an estuary. A distinct facies gradation exists in tide-dominated systems from sandy, barrier/tidal delta-associated environments at the coast through deep mud-dominated middle reaches to fluvial sediment in the upper reaches. In river-dominated systems, fluvial sediment extends to the barrier and flood-tidal deltas are poorly developed or absent from the estuary. A number of independent observations during extreme floods on the South African coast indicate that these types of estuary respond differently to extreme river floods and that the mode of response corresponds to estuary type. Tide-dominated systems exhibit preferential erosion of noncohesive barrier and tidal delta sediments during river floods while the middle reaches remain little modified. River-dominated systems experience consistent erosion throughout their channel length during extreme floods. The increased cohesion of riverine sediments and stabilisation of bars by vegetation in river-dominated channels means that higher magnitude floods are necessary to effect significant morphological change. Barrier erosion, including the tidal delta, results in deposition of an ephemeral delta composed almost entirely of sands from these deposits in tide-dominated estuaries. In river-dominated systems, eroded channel sediments and material from the river catchment may augment barrier sediments in the ephemeral delta deposit. Post-flood, wave-reworking of ephemeral delta sediments acts to restore barriers to pre-flood morphology within a few years; however, in river-dominated systems, the additional sediment volume may produce significant coastal progradation that requires several years or decades to redistribute. These different modes of flood response mediated by the nature of the estuary have implications for coastal behaviour at the time scale of months to several decades. Estuary-coastal behaviour at river-dominated estuaries may be influenced for several decades by post-flood morphological adjustment. Tide-dominated estuaries, however, respond more rapidly in reworking flood-eroded sediment and are typically fully adjusted to modal wave and tidal conditions within a few months to a few years. In addition, the facies arrangement within the two estuary types renders tide-dominated estuaries more responsive to minor floods, while river-dominated estuaries, by virtue of more cohesive channel sediments, require greater discharges to effect significant morphological change.

Integrated nanomaterials for extreme thermal management: a perspective for aerospace applications

NASA Astrophysics Data System (ADS)

Barako, Michael T.; Gambin, Vincent; Tice, Jesse

2018-04-01

Nanomaterials will play a disruptive role in next-generation thermal management for high power electronics in aerospace platforms. These high power and high frequency devices have been experiencing a paradigm shift toward designs that favor extreme integration and compaction. The reduction in form factor amplifies the intensity of the thermal loads and imposes extreme requirements on the thermal management architecture for reliable operation. In this perspective, we introduce the opportunities and challenges enabled by rationally integrating nanomaterials along the entire thermal resistance chain, beginning at the high heat flux source up to the system-level heat rejection. Using gallium nitride radio frequency devices as a case study, we employ a combination of viewpoints comprised of original research, academic literature, and industry adoption of emerging nanotechnologies being used to construct advanced thermal management architectures. We consider the benefits and challenges for nanomaterials along the entire thermal pathway from synthetic diamond and on-chip microfluidics at the heat source to vertically-aligned copper nanowires and nanoporous media along the heat rejection pathway. We then propose a vision for a materials-by-design approach to the rational engineering of complex nanostructures to achieve tunable property combinations on demand. These strategies offer a snapshot of the opportunities enabled by the rational design of nanomaterials to mitigate thermal constraints and approach the limits of performance in complex aerospace electronics.

Integrated nanomaterials for extreme thermal management: a perspective for aerospace applications.

PubMed

Barako, Michael T; Gambin, Vincent; Tice, Jesse

2018-04-02

Nanomaterials will play a disruptive role in next-generation thermal management for high power electronics in aerospace platforms. These high power and high frequency devices have been experiencing a paradigm shift toward designs that favor extreme integration and compaction. The reduction in form factor amplifies the intensity of the thermal loads and imposes extreme requirements on the thermal management architecture for reliable operation. In this perspective, we introduce the opportunities and challenges enabled by rationally integrating nanomaterials along the entire thermal resistance chain, beginning at the high heat flux source up to the system-level heat rejection. Using gallium nitride radio frequency devices as a case study, we employ a combination of viewpoints comprised of original research, academic literature, and industry adoption of emerging nanotechnologies being used to construct advanced thermal management architectures. We consider the benefits and challenges for nanomaterials along the entire thermal pathway from synthetic diamond and on-chip microfluidics at the heat source to vertically-aligned copper nanowires and nanoporous media along the heat rejection pathway. We then propose a vision for a materials-by-design approach to the rational engineering of complex nanostructures to achieve tunable property combinations on demand. These strategies offer a snapshot of the opportunities enabled by the rational design of nanomaterials to mitigate thermal constraints and approach the limits of performance in complex aerospace electronics.

Dynamic elementary mode modelling of non-steady state flux data.

PubMed

Folch-Fortuny, Abel; Teusink, Bas; Hoefsloot, Huub C J; Smilde, Age K; Ferrer, Alberto

2018-06-18

A novel framework is proposed to analyse metabolic fluxes in non-steady state conditions, based on the new concept of dynamic elementary mode (dynEM): an elementary mode activated partially depending on the time point of the experiment. Two methods are introduced here: dynamic elementary mode analysis (dynEMA) and dynamic elementary mode regression discriminant analysis (dynEMR-DA). The former is an extension of the recently proposed principal elementary mode analysis (PEMA) method from steady state to non-steady state scenarios. The latter is a discriminant model that permits to identify which dynEMs behave strongly different depending on the experimental conditions. Two case studies of Saccharomyces cerevisiae, with fluxes derived from simulated and real concentration data sets, are presented to highlight the benefits of this dynamic modelling. This methodology permits to analyse metabolic fluxes at early stages with the aim of i) creating reduced dynamic models of flux data, ii) combining many experiments in a single biologically meaningful model, and iii) identifying the metabolic pathways that drive the organism from one state to another when changing the environmental conditions.

Communication: Probing non-equilibrium vibrational relaxation pathways of highly excited C≡N stretching modes following ultrafast back-electron transfer.

PubMed

Lynch, Michael S; Slenkamp, Karla M; Khalil, Munira

2012-06-28

Fifth-order nonlinear visible-infrared spectroscopy is used to probe coherent and incoherent vibrational energy relaxation dynamics of highly excited vibrational modes indirectly populated via ultrafast photoinduced back-electron transfer in a trinuclear cyano-bridged mixed-valence complex. The flow of excess energy deposited into four C≡N stretching (ν(CN)) modes of the molecule is monitored by performing an IR pump-probe experiment as a function of the photochemical reaction (τ(vis)). Our results provide experimental evidence that the nuclear motions of the molecule are both coherently and incoherently coupled to the electronic charge transfer process. We observe that intramolecular vibrational relaxation dynamics among the highly excited ν(CN) modes change significantly en route to equilibrium. The experiment also measures a 7 cm(-1) shift in the frequency of a ∼57 cm(-1) oscillation reflecting a modulation of the coupling between the probed high-frequency ν(CN) modes for τ(vis) < 500 fs.

Biosensing operations based on whispering-gallery-mode optical cavities in single 1.0-µm diameter hexagonal GaN microdisks grown by radio-frequency plasma-assisted molecular beam epitaxy

NASA Astrophysics Data System (ADS)

Kouno, Tetsuya; Sakai, Masaru; Kishino, Katsumi; Hara, Kazuhiko

2016-05-01

Biosensing operations based on a whispering-gallery-mode optical cavity in a single hexagonal GaN microdisk of approximately 1.0 µm diameter were demonstrated here. The sharp resonant peak in the photoluminescence spectrum obtained from the microdisk in aqueous sucrose solution redshifts with a change in sucrose concentration. The results indicate that an extremely small microdisk could be used as an optical transducer for sensing sugar, namely, as a biosensor. Furthermore, we investigate the relationship between the diameter of the microdisk and the sensitivity of the biosensor.

Continuous-variable quantum computing in optical time-frequency modes using quantum memories.

PubMed

Humphreys, Peter C; Kolthammer, W Steven; Nunn, Joshua; Barbieri, Marco; Datta, Animesh; Walmsley, Ian A

2014-09-26

We develop a scheme for time-frequency encoded continuous-variable cluster-state quantum computing using quantum memories. In particular, we propose a method to produce, manipulate, and measure two-dimensional cluster states in a single spatial mode by exploiting the intrinsic time-frequency selectivity of Raman quantum memories. Time-frequency encoding enables the scheme to be extremely compact, requiring a number of memories that are a linear function of only the number of different frequencies in which the computational state is encoded, independent of its temporal duration. We therefore show that quantum memories can be a powerful component for scalable photonic quantum information processing architectures.

Comb-Resolved Dual-Comb Spectroscopy Stabilized by Free-Running Continuous-Wave Lasers

NASA Astrophysics Data System (ADS)

Kuse, Naoya; Ozawa, Akira; Kobayashi, Yohei

2012-11-01

We demonstrate dual-comb spectroscopy with relatively phase-locked two frequency combs, instead of frequency combs firmly fixed to the absolute frequency references. By stabilizing two beat frequencies between two mode-locked lasers at different wavelengths observed via free-running continuous-wave (CW) lasers, two combs are tightly phase locked to each other. The frequency noise of the CW lasers barely affects the performance of dual-comb spectroscopy because of the extremely fast common-mode noise rejection. Transform-limited comb-resolved dual-comb spectroscopy with a 6 Hz radio frequency linewidth is demonstrated by the use of Yb-fiber oscillators.

Utility of Bacillary Index in Slit Skin Smears in Correlation with Clinical and Histopathological Alterations in Hansen's Disease: An Attempt to Revive a Simple Useful Procedure.

PubMed

Premalatha, P; Renuka, I V; Meghana, A; Devi, S I; Charyulu, Pavk; Sampoorna, G

2016-01-01

Leprosy, a relatively common chronic contagious disease having diverse modes of clinical presentation, can mimic a variety of unrelated diseases. For proper and adequate treatment, the diagnosis must be made accurately with subtyping which should be done with the help of bacillary index, histopathological features, and clinical correlation. This is extremely important in patient care as paucibacillary and multibacillary types have different modes of treatment. Our aim is to categorize leprosy into various types based on bacillary index, morphological findings both in slit skin smears, and biopsy along with clinical correlation.

Tapered-fiber-based refractive index sensor at an air/solution interface.

PubMed

Lu, Ping; Harris, Jeremie; Wang, Xiaozhen; Lin, Ganbin; Chen, Liang; Bao, Xiaoyi

2012-10-20

An approach to achieve refractive index sensing at an air and aqueous glycerol solution interface is proposed using a tapered-fiber-based microfiber Mach-Zehnder interferometer (MFMZI). Compared to a surrounding uniform medium of air or solutions, the spectral interference visibility of the MFMZI at the air/solution interface is significantly reduced due to a weak coupling between the fundamental cladding mode and high-order asymmetric cladding modes, which are extremely sensitive to the external refractive index. The MFMZI is experimentally demonstrated as an evanescent wave refractive index sensor to measure concentrations of glycerol solutions by monitoring average power attenuation of the tapered fiber.

Single Mode, Extreme Precision Doppler Spectrographs

NASA Astrophysics Data System (ADS)

Schwab, Christian; Leon-Saval, Sergio G.; Betters, Christopher H.; Bland-Hawthorn, Joss; Mahadevan, Suvrath

2014-04-01

The `holy grail' of exoplanet research today is the detection of an earth-like planet: a rocky planet in the habitable zone around a main-sequence star. Extremely precise Doppler spectroscopy is an indispensable tool to find and characterize earth-like planets; however, to find these planets around solar-type stars, we need nearly one order of magnitude better radial velocity (RV) precision than the best current spectrographs provide. Recent developments in astrophotonics (Bland-Hawthorn & Horton 2006, Bland-Hawthorn et al. 2010) and adaptive optics (AO) enable single mode fiber (SMF) fed, high resolution spectrographs, which can realize the next step in precision. SMF feeds have intrinsic advantages over multimode fiber or slit coupled spectrographs: The intensity distribution at the fiber exit is extremely stable, and as a result the line spread function of a well-designed spectrograph is fully decoupled from input coupling conditions, like guiding or seeing variations (Ihle et al. 2010). Modal noise, a limiting factor in current multimode fiber fed instruments (Baudrand & Walker 2001), can be eliminated by proper design, and the diffraction limited input to the spectrograph allows for very compact instrument designs, which provide excellent optomechanical stability. A SMF is the ideal interface for new, very precise wavelength calibrators, like laser frequency combs (Steinmetz et al. 2008, Osterman et al. 2012), or SMF based Fabry-Perot Etalons (Halverson et al. 2013). At near infrared wavelengths, these technologies are ready to be implemented in on-sky instruments, or already in use. We discuss a novel concept for such a spectrograph.

Source appointment of fine particle number and volume concentration during severe haze pollution in Beijing in January 2013.

PubMed

Liu, Zirui; Wang, Yuesi; Hu, Bo; Ji, Dongsheng; Zhang, Junke; Wu, Fangkun; Wan, Xin; Wang, Yonghong

2016-04-01

Extreme haze episodes repeatedly shrouded Beijing during the winter of 2012-2013, causing major environmental and health problems. To better understand these extreme events, particle number size distribution (PNSD) and particle chemical composition (PCC) data collected in an intensive winter campaign in an urban site of Beijing were used to investigate the sources of ambient fine particles. Positive matrix factorization (PMF) analysis resolved a total of eight factors: two traffic factors, combustion factors, secondary aerosol, two accumulation mode aerosol factors, road dust, and long-range transported (LRT) dust. Traffic emissions (54%) and combustion aerosol (27%) were found to be the most important sources for particle number concentration, whereas combustion aerosol (33%) and accumulation mode aerosol (37%) dominated particle volume concentrations. Chemical compositions and sources of fine particles changed dynamically in the haze episodes. An enhanced role of secondary inorganic species was observed in the formation of haze pollution. Regional transport played an important role for high particles, contribution of which was on average up to 24-49% during the haze episodes. Secondary aerosols from urban background presented the largest contributions (45%) for the rapid increase of fine particles in the severest haze episode. In addition, the invasion of LRT dust aerosols further elevated the fine particles during the extreme haze episode. Our results showed a clear impact of regional transport on the local air pollution, suggesting the importance of regional-scale emission control measures in the local air quality management of Beijing.

What is the safest mode of birth for extremely preterm breech singleton infants who are actively resuscitated? A systematic review and meta-analyses.

PubMed

Grabovac, M; Karim, J N; Isayama, T; Liyanage, S Korale; McDonald, S D

2018-05-01

The safest delivery mode of extremely preterm breech singletons is unknown. To determine safest delivery mode of actively resuscitated extremely preterm breech singletons. We searched Cochrane CENTRAL, MEDLINE, EMBASE, CINAHL and ClinicalTrials.gov from January 1994 to May 2017. We included studies comparing outcomes by delivery mode in actively resuscitated breech infants between 23 +0 and 27 +6 weeks. We synthesised data using random effects, generated odds ratios, 95% confidence intervals and number-needed-to-treat (NNT). Our primary outcomes were death (neonatal, before discharge, or by 6 months) and severe intraventricular haemorrhage (grades III/IV), stratified by gestational age (23 +0 -24 +6 , 25 +0 -26 +6 , 27 +0 -27 +6 weeks). We included 15 studies with 12 335 infants. We found that caesarean section was associated with a 41% decrease in odds of death between 23 +0 and 27 +6 weeks [odds ratio (OR) 0.59, 95% CI 0.36-0.95, NNT 8], with the greatest decrease at 23 +0 -24 +6 weeks (OR 0.58, 95% CI 0.44-0.75, NNT 7). The OR at 25 +0 -26 +6 and 27 +0 -27 +6 weeks were 0.72 (95% CI 0.34-1.52) and 2.04 (95% CI 0.20-20.62), respectively. We found that caesarean section was associated with 49% decrease in odds of severe intraventricular haemorrhage between 23 +0 and 27 +6 weeks (OR 0.51, 95% CI 0.29-0.91, NNT 12), whereas the OR at 25 +0 -26 +6 and 27 +0 -27 +6 was 0.29 (95% CI 0.07-1.12) and 0.91 (95% CI 0.27-3.05), respectively. Caesarean section was associated with reductions in the odds of death by 41% and of severe intraventricular haemorrhage by 49% in actively resuscitated breech singletons < 28 weeks of gestation. The data are mostly observational, which may be inherently biased, and scarce on other morbidities, necessitating thorough discussion between parents and clinicians. Caesarean section associated with lower odds of death and severe intraventricular haemorrhage in actively resuscitated breech singletons <28 weeks. © 2017 Royal College of Obstetricians and Gynaecologists.

Instantaneous normal mode analysis of the vibrational relaxation of the amide I mode of alanine dipeptide in water.

PubMed

Farag, Marwa H; Zúñiga, José; Requena, Alberto; Bastida, Adolfo

2013-05-28

Nonequilibrium Molecular Dynamics (MD) simulations coupled to instantaneous normal modes (INMs) analysis are used to study the vibrational relaxation of the acetyl and amino-end amide I modes of the alanine dipeptide (AlaD) molecule dissolved in water (D2O). The INMs are assigned in terms of the equilibrium normal modes using the Effective Atomic Min-Cost algorithm as adapted to make use of the outputs of standard MD packages, a method which is well suited for the description of flexible molecules. The relaxation energy curves of both amide I modes show multiexponential decays, in good agreement with the experimental findings. It is found that ~85%-90% of the energy relaxes through intramolecular vibrational redistribution. The main relaxation pathways are also identified. The rate at which energy is transferred into the solvent is similar for the acetyl-end and amino-end amide I modes. The conformational changes occurring during relaxation are investigated, showing that the populations of the alpha and beta region conformers are altered by energy transfer in such a way that it takes 15 ps for the equilibrium conformational populations to be recovered after the initial excitation of the AlaD molecule.

Extreme reaction times determine fluctuation scaling in human color vision

NASA Astrophysics Data System (ADS)

Medina, José M.; Díaz, José A.

2016-11-01

In modern mental chronometry, human reaction time defines the time elapsed from stimulus presentation until a response occurs and represents a reference paradigm for investigating stochastic latency mechanisms in color vision. Here we examine the statistical properties of extreme reaction times and whether they support fluctuation scaling in the skewness-kurtosis plane. Reaction times were measured for visual stimuli across the cardinal directions of the color space. For all subjects, the results show that very large reaction times deviate from the right tail of reaction time distributions suggesting the existence of dragon-kings events. The results also indicate that extreme reaction times are correlated and shape fluctuation scaling over a wide range of stimulus conditions. The scaling exponent was higher for achromatic than isoluminant stimuli, suggesting distinct generative mechanisms. Our findings open a new perspective for studying failure modes in sensory-motor communications and in complex networks.

Effect of Vibration Training on Anaerobic Power and Quardroceps Surface EMG in Long Jumpers

ERIC Educational Resources Information Center

Liu, Bin; Luo, Jiong

2015-01-01

Objective: To explore the anaerobic power and surface EMG (sEMG) of quardrocep muscle in lower extremities after single vibration training intervention. Methods: 8 excellent male long jumpers voluntarily participated in this study. Four intervention modes were devised, including high frequency high amplitude (HFHA,30Hz,6mm), low frequency low…

Help! Active Student Learning and Error Remediation in an Online Calculus e-Help Community

ERIC Educational Resources Information Center

van de Sande, Carla; Leinhardt, Gaea

2007-01-01

Free, open, online homework help sites appear to be extremely popular and exist for many school subjects. Students can anonymously post problems at their convenience and receive responses from forum members. This mode of tutoring may be especially critical for school subjects such as calculus that are intrinsically challenging and have high…

Extreme differences in population structure and genetic diversity for three invasive congeners: knotweeds in western North America

USDA-ARS?s Scientific Manuscript database

Japanese, giant, and the hybrid Bohemian knotweeds (Fallopia japonica, F. sachalinensis and F. x bohemica) have invaded the western USA and Canada, as well as other regions of the world. The distribution of these species in western North America, and their mode of invasion, is relatively unresolved....

Inheritance and world variation in thermal requirements for egg hatch in Lymantria dispar (Lepidoptera: Erebidae)

Treesearch

M.A. Keena

2016-01-01

Mode of inheritance of hatch traits in Lymantria dispar L. was determined by crossing populations nearly fixed for the phenotypic extremes. The nondiapausing phenotype was inherited via a single recessive gene and the phenotype with reduced low temperature exposure requirements before hatch was inherited via a single dominant gene. There was no...

Trading-off emission reduction, carbon capture and geoengineering to reach the Paris agreement

NASA Astrophysics Data System (ADS)

Gasser, T.; Boucher, O.; Lecocq, F.; Obersteiner, M.

2017-12-01

We explore virtually all possible future pathways that respect the Paris agreement, with an innovative modeling framework. We show that immediate and extreme mitigation of CO2 and non-CO2 species alike, carbon dioxide removal (CDR) and/or solar radiation management (SRM) technologies are required. We analyze the tradeoffs between these solutions. We generate thousands of temperature change pathways that extend historical records, stay below 2°C, and aim at 1.5°C in the long run. Non-CO2 forcings are generated likewise. With a simple model of the Earth system, we then back-calculate anthropogenic CO2 emissions compatible with these pathways. Other key global variables such as ocean acidity, sea level and permafrost thaw are also simulated. From this large ensemble of fully consistent scenarios, we analyze subsets that meet certain criteria: physical targets, emission levels, technology use, or any combination thereof. We show that staying below 1.5°C is feasible if CO2 emissions peak before 2025 and non-CO2 forcings are also reduced to zero. In case of a positive long-term non-CO2 forcing (a mitigation floor), CDR is necessary. Alternatively, emissions can peak later and/or higher if SRM is allowed. For pathways overshooting 1.5°C, results depend on the overshoot's size and length. Because of thawing permafrost, virtually all overshoot pathways require CDR, unless non-CO2 species (possibly SRM) are cooling the system at the time of peak temperature. When considering additional physical targets, which can be relevant for preserving ecosystems, the space of allowable pathways is systematically reduced. Especially: limiting ocean acidification rules out SRM. The nationally determined contributions (NDCs) indicate that reaching even the strictest interpretation of the agreement is feasible. However, if SRM is ruled out and only a reasonable amount of CDR is allowed, NDCs are compatible with very few of our pathways (≈5%). If a mitigation floor is added on top of that, virtually no pathways remain (<1%). We conclude that, in its strictest interpretation, the Paris agreement relies heavily on currently non-existent (and potentially harmful) technologies. In a looser interpretation, these technologies may not be needed, although the window of opportunity is closing extremely fast.

Adaptive optics at the Subaru telescope: current capabilities and development

NASA Astrophysics Data System (ADS)

Guyon, Olivier; Hayano, Yutaka; Tamura, Motohide; Kudo, Tomoyuki; Oya, Shin; Minowa, Yosuke; Lai, Olivier; Jovanovic, Nemanja; Takato, Naruhisa; Kasdin, Jeremy; Groff, Tyler; Hayashi, Masahiko; Arimoto, Nobuo; Takami, Hideki; Bradley, Colin; Sugai, Hajime; Perrin, Guy; Tuthill, Peter; Mazin, Ben

2014-08-01

Current AO observations rely heavily on the AO188 instrument, a 188-elements system that can operate in natural or laser guide star (LGS) mode, and delivers diffraction-limited images in near-IR. In its LGS mode, laser light is transported from the solid state laser to the launch telescope by a single mode fiber. AO188 can feed several instruments: the infrared camera and spectrograph (IRCS), a high contrast imaging instrument (HiCIAO) or an optical integral field spectrograph (Kyoto-3DII). Adaptive optics development in support of exoplanet observations has been and continues to be very active. The Subaru Coronagraphic Extreme-AO (SCExAO) system, which combines extreme-AO correction with advanced coronagraphy, is in the commissioning phase, and will greatly increase Subaru Telescope's ability to image and study exoplanets. SCExAO currently feeds light to HiCIAO, and will soon be combined with the CHARIS integral field spectrograph and the fast frame MKIDs exoplanet camera, which have both been specifically designed for high contrast imaging. SCExAO also feeds two visible-light single pupil interferometers: VAMPIRES and FIRST. In parallel to these direct imaging activities, a near-IR high precision spectrograph (IRD) is under development for observing exoplanets with the radial velocity technique. Wide-field adaptive optics techniques are also being pursued. The RAVEN multi-object adaptive optics instrument was installed on Subaru telescope in early 2014. Subaru Telescope is also planning wide field imaging with ground-layer AO with the ULTIMATE-Subaru project.

Transitions from near-surface to interior redox upon lithiation in conversion electrode materials.

PubMed

He, Kai; Xin, Huolin L; Zhao, Kejie; Yu, Xiqian; Nordlund, Dennis; Weng, Tsu-Chien; Li, Jing; Jiang, Yi; Cadigan, Christopher A; Richards, Ryan M; Doeff, Marca M; Yang, Xiao-Qing; Stach, Eric A; Li, Ju; Lin, Feng; Su, Dong

2015-02-11

Nanoparticle electrodes in lithium-ion batteries have both near-surface and interior contributions to their redox capacity, each with distinct rate capabilities. Using combined electron microscopy, synchrotron X-ray methods and ab initio calculations, we have investigated the lithiation pathways that occur in NiO electrodes. We find that the near-surface electroactive (Ni(2+) → Ni(0)) sites saturated very quickly, and then encounter unexpected difficulty in propagating the phase transition into the electrode (referred to as a "shrinking-core" mode). However, the interior capacity for Ni(2+) → Ni(0) can be accessed efficiently following the nucleation of lithiation "fingers" that propagate into the sample bulk, but only after a certain incubation time. Our microstructural observations of the transition from a slow shrinking-core mode to a faster lithiation finger mode corroborate with synchrotron characterization of large-format batteries and can be rationalized by stress effects on transport at high-rate discharge. The finite incubation time of the lithiation fingers sets the intrinsic limitation for the rate capability (and thus the power) of NiO for electrochemical energy storage devices. The present work unravels the link between the nanoscale reaction pathways and the C-rate-dependent capacity loss and provides guidance for the further design of battery materials that favors high C-rate charging.

Projected regional changes in the characteristics of dry and moist heat waves in the United States derived from downscaled CMIP5 models

NASA Astrophysics Data System (ADS)

Schoof, J. T.

2017-12-01

Extreme temperatures affect society in multiple ways, but the impacts are often different depending on the concurrent humidity. For example, the greatest impacts on human morbidity and mortality result when the temperature and humidity are both elevated. Conversely, high temperatures coupled with low humidity often lead to agricultural impacts resulting in lower yields. Despite the importance of humidity in determining heat wave impacts, relatively few students of future temperature extremes have also considered possible changes in humidity. In a recent study, we investigated recent historical changes in the frequency and intensity and low humidity and high humidity extreme temperature events using a framework based on isobaric equivalent temperature. Here, we extend this approach to climate projections from CMIP5 models to explore possible regional changes in extreme heat characteristics. After using quantile mapping to bias correct and downscale the CMIP5 model outputs, we analyze results from two future periods (2031-2055 and 2061-2085) and two representative concentration pathways, RCP 4.5 and RCP 8.5, corresponding to moderate and high levels of radiative forcing from greenhouse gases. For each of seven US regions, we consider changes in extreme temperature frequency, changes in the proportion of extreme temperature days characterized by high humidity, and changes in the magnitude of temperature and humidity on extreme temperature days.

Construction and Validation of the Rhodobacter sphaeroides 2.4.1 DNA Microarray: Transcriptome Flexibility at Diverse Growth Modes

PubMed Central

Pappas, Christopher T.; Sram, Jakub; Moskvin, Oleg V.; Ivanov, Pavel S.; Mackenzie, R. Christopher; Choudhary, Madhusudan; Land, Miriam L.; Larimer, Frank W.; Kaplan, Samuel; Gomelsky, Mark

2004-01-01

A high-density oligonucleotide DNA microarray, a genechip, representing the 4.6-Mb genome of the facultative phototrophic proteobacterium, Rhodobacter sphaeroides 2.4.1, was custom-designed and manufactured by Affymetrix, Santa Clara, Calif. The genechip contains probe sets for 4,292 open reading frames (ORFs), 47 rRNA and tRNA genes, and 394 intergenic regions. The probe set sequences were derived from the genome annotation generated by Oak Ridge National Laboratory after extensive revision, which was based primarily upon codon usage characteristic of this GC-rich bacterium. As a result of the revision, numerous missing ORFs were uncovered, nonexistent ORFs were deleted, and misidentified start codons were corrected. To evaluate R. sphaeroides transcriptome flexibility, expression profiles for three diverse growth modes—aerobic respiration, anaerobic respiration in the dark, and anaerobic photosynthesis—were generated. Expression levels of one-fifth to one-third of the R. sphaeroides ORFs were significantly different in cells under any two growth modes. Pathways involved in energy generation and redox balance maintenance under three growth modes were reconstructed. Expression patterns of genes involved in these pathways mirrored known functional changes, suggesting that massive changes in gene expression are the major means used by R. sphaeroides in adaptation to diverse conditions. Differential expression was observed for genes encoding putative new participants in these pathways (additional photosystem genes, duplicate NADH dehydrogenase, ATP synthases), whose functionality has yet to be investigated. The DNA microarray data correlated well with data derived from quantitative reverse transcription-PCR, as well as with data from the literature, thus validating the R. sphaeroides genechip as a powerful and reliable tool for studying unprecedented metabolic versatility of this bacterium. PMID:15231807

Phenobarbital and propiconazole toxicogenomic profiles in mice show major similarities consistent with the key role that constitutive androstane receptor (CAR) activation plays in their mode of action

PubMed Central

Currie, Richard A.; Peffer, Richard C.; Goetz, Amber K.; Omiecinski, Curtis J.; Goodman, Jay I.

2014-01-01

Toxicogenomics (TGx) is employed frequently to investigate underlying molecular mechanisms of the compound of interest and, thus, has become an aid to mode of action determination. However, the results and interpretation of a TGx dataset are influenced by the experimental design and methods of analysis employed. This article describes an evaluation and reanalysis, by two independent laboratories, of previously published TGx mouse liver microarray data for a triazole fungicide, propiconazole (PPZ), and the anticonvulsant drug phenobarbital (PB). Propiconazole produced an increase incidence of liver tumors in male CD-1 mice only at a dose that exceeded the maximum tolerated dose (2500 ppm). Firstly, we illustrate how experimental design differences between two in vivo studies with PPZ and PB may impact the comparisons of TGx results. Secondly, we demonstrate that different researchers using different pathway analysis tools can come to different conclusions on specific mechanistic pathways, even when using the same datasets. Finally, despite these differences the results across three different analyses also show a striking degree of similarity observed for PPZ and PB treated livers when the expression data are viewed as major signaling pathways and cell processes affected. Additional studies described here show that the postulated key event of hepatocellular proliferation was observed in CD-1 mice for both PPZ and PB, and that PPZ is also a potent activator of the mouse CAR nuclear receptor. Thus, with regard to the events which are hallmarks of CAR-induced effects that are key events in the mode of action (MOA) of mouse liver carcinogenesis with PB, PPZ-induced tumors can be viewed as being promoted by a similar PB-like CAR-dependent MOA. PMID:24675475

6'-Guanidinonaltrindole (6'-GNTI) is a G protein-biased κ-opioid receptor agonist that inhibits arrestin recruitment.

PubMed

Rives, Marie-Laure; Rossillo, Mary; Liu-Chen, Lee-Yuan; Javitch, Jonathan A

2012-08-03

κ-Opioid receptor (KOR) agonists do not activate the reward pathway stimulated by morphine-like μ-opioid receptor (MOR) agonists and thus have been considered to be promising nonaddictive analgesics. However, KOR agonists produce other adverse effects, including dysphoria, diuresis, and constipation. The therapeutic promise of KOR agonists has nonetheless recently been revived by studies showing that their dysphoric effects require arrestin recruitment, whereas their analgesic effects do not. Moreover, KOR agonist-induced antinociceptive tolerance observed in vivo has also been proposed to be correlated to the ability to induce arrestin-dependent phosphorylation, desensitization, and internalization of the receptor. The discovery of functionally selective drugs that are therapeutically effective without the adverse effects triggered by the arrestin pathway is thus an important goal. We have identified such an extreme G protein-biased KOR compound, 6'-guanidinonaltrindole (6'-GNTI), a potent partial agonist at the KOR receptor for the G protein activation pathway that does not recruit arrestin. Indeed, 6'-GNTI functions as an antagonist to block the arrestin recruitment and KOR internalization induced by other nonbiased agonists. As an extremely G protein-biased KOR agonist, 6'-GNTI represents a promising lead compound in the search for nonaddictive opioid analgesic as its signaling profile suggests that it will be without the dysphoria and other adverse effects promoted by arrestin recruitment and its downstream signaling.

Divergent and convergent modes of interaction between wheat and Puccinia graminis f. sp. tritici isolates revealed by the comparative gene co-expression network and genome analyses.

PubMed

Rutter, William B; Salcedo, Andres; Akhunova, Alina; He, Fei; Wang, Shichen; Liang, Hanquan; Bowden, Robert L; Akhunov, Eduard

2017-04-12

Two opposing evolutionary constraints exert pressure on plant pathogens: one to diversify virulence factors in order to evade plant defenses, and the other to retain virulence factors critical for maintaining a compatible interaction with the plant host. To better understand how the diversified arsenals of fungal genes promote interaction with the same compatible wheat line, we performed a comparative genomic analysis of two North American isolates of Puccinia graminis f. sp. tritici (Pgt). The patterns of inter-isolate divergence in the secreted candidate effector genes were compared with the levels of conservation and divergence of plant-pathogen gene co-expression networks (GCN) developed for each isolate. Comprative genomic analyses revealed substantial level of interisolate divergence in effector gene complement and sequence divergence. Gene Ontology (GO) analyses of the conserved and unique parts of the isolate-specific GCNs identified a number of conserved host pathways targeted by both isolates. Interestingly, the degree of inter-isolate sub-network conservation varied widely for the different host pathways and was positively associated with the proportion of conserved effector candidates associated with each sub-network. While different Pgt isolates tended to exploit similar wheat pathways for infection, the mode of plant-pathogen interaction varied for different pathways with some pathways being associated with the conserved set of effectors and others being linked with the diverged or isolate-specific effectors. Our data suggest that at the intra-species level pathogen populations likely maintain divergent sets of effectors capable of targeting the same plant host pathways. This functional redundancy may play an important role in the dynamic of the "arms-race" between host and pathogen serving as the basis for diverse virulence strategies and creating conditions where mutations in certain effector groups will not have a major effect on the pathogen's ability to infect the host.

Modelling Precipitation and Temperature Extremes: The Importance of Horizontal Resolution

NASA Astrophysics Data System (ADS)

Shields, C. A.; Kiehl, J. T.; Meehl, G. A.

2013-12-01

Understanding Earth's water cycle on a warming planet is of critical importance in society's ability to adapt to climate change. Extreme weather events, such as floods, heat waves, and drought will likely change with the water cycle as greenhouse gases continue to rise. Location, duration, and intensity of extreme events can be studied using complex earth system models. Here, we employ the fully coupled Community Earth System Model (CESM1.0) to evaluate extreme event impacts for different possible future forcing scenarios. Simulations applying the Representative Concentration Pathway (RCP) scenarios 2.6 and 8.5 were chosen to bracket the range of model responses. Because extreme weather events happen on a regional scale, there is a tendency to favor using higher resolution models, i.e. models that can represent regional features with greater accuracy. Within the CESM1.0 framework, we evaluate both the standard 1 degree resolution (1 degree atmosphere/land coupled to 1 degree ocean/sea ice), and the higher 0.5 degree resolution version (0.5 degree atmosphere/land coupled to 1 degree ocean/sea ice), focusing on extreme precipitation events, heat waves, and droughts. We analyze a variety of geographical regions, but generally find that benefits from increased horizontal resolution are most significant on the regional scale.

True Tapping Mode Scanning Near-Field Optical Microscopy with Bent Glass Fiber Probes

PubMed Central

Yasinskii, V. M.; Filimonenko, D. S.; Rostova, E.; Dietler, G.; Sekatskii, S. K.

2018-01-01

In scanning near-field optical microscopy, the most popular probes are made of sharpened glass fiber attached to a quartz tuning fork (TF) and exploiting the shear force-based feedback. The use of tapping mode feedback could be preferable. Such an approach can be realized, for example, using bent fiber probes. Detailed analysis of fiber vibration modes shows that realization of truly tapping mode of the probe dithering requires an extreme caution. In case of using the second resonance mode, probes vibrate mostly in shear force mode unless the bending radius is rather small (ca. 0.3 mm) and the probe's tip is short. Otherwise, the shear force character of the dithering persists. Probes having these characteristics were prepared by irradiation of a tapered etched glass fiber with a CW CO2 laser. These probes were attached to the TF in double resonance conditions which enables achieving significant quality factor (4000–6000) of the TF + probe system (Cherkun et al., 2006). We also show that, to achieve a truly tapping character, dithering, short, and not exceeding 3 mm lengths of a freestanding part of bent fiber probe beam should also be used in the case of nonresonant excitation. PMID:29849857

Electron Bernstein Wave Studies in MST

NASA Astrophysics Data System (ADS)

Seltzman, Andrew; Anderson, Jay; Forest, Cary; Nonn, Paul; Thomas, Mark; Reusch, Joshua; Hendries, Eric

2013-10-01

The overdense condition in a RFP prevents electromagnetic waves from propagating past the extreme edge. However use of the electron Bernstein wave (EBW) has the potential to heat and drive current in the plasma. MHD simulations have demonstrated that resistive tearing mode stability is very sensitive to the gradient in the edge current density profile, allowing EBW current drive to influence and potentially stabilize tearing mode activity. Coupling between the X-mode and Bernstein waves is strongly dependent on the edge density gradient. The effects on coupling of plasma density, magnetic field strength, antenna radial position and launch polarization have been examined. Coupling as high as 90% has been observed. Construction of a 450 kw RF source is complete and initial experimental results will be reported. The power and energy of this auxiliary system should be sufficient for several scientific purposes, including verifying mode conversion, EBW propagation and absorption in high beta plasmas. Target plasmas in the 300-400 kA range will be heated near the reversal surface, potentially allowing mode control, while target plasmas in the 250 kA range will allow heating near the core, allowing better observation of heating effects. Heating and heat pulse propagation experiments are planned, as well as probing the stability of parametric decay during mode conversion, at moderate injected power. Work supported by USDOE.

“MODAL NOISE” IN SINGLE-MODE FIBERS: A CAUTIONARY NOTE FOR HIGH PRECISION RADIAL VELOCITY INSTRUMENTS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Halverson, Samuel; Roy, Arpita; Mahadevan, Suvrath

2015-12-01

Exploring the use of single-mode fibers (SMFs) in high precision Doppler spectrometers has become increasingly attractive since the advent of diffraction-limited adaptive optics systems on large-aperture telescopes. Spectrometers fed with these fibers can be made significantly smaller than typical “seeing-limited” instruments, greatly reducing cost and overall complexity. Importantly, classical mode interference and speckle issues associated with multi-mode fibers, also known as “modal noise,” are mitigated when using SMFs, which also provide perfect radial and azimuthal image scrambling. However, SMFs do support multiple polarization modes, an issue that is generally ignored for larger-core fibers given the large number of propagation modes.more » Since diffraction gratings used in most high resolution astronomical instruments have dispersive properties that are sensitive to incident polarization changes, any birefringence variations in the fiber can cause variations in the efficiency profile, degrading illumination stability. Here we present a cautionary note outlining how the polarization properties of SMFs can affect the radial velocity (RV) measurement precision of high resolution spectrographs. This work is immediately relevant to the rapidly expanding field of diffraction-limited, extreme precision RV spectrographs that are currently being designed and built by a number of groups.« less

Higgs-mode radiance and charge-density-wave order in 2 H -NbSe2

NASA Astrophysics Data System (ADS)

Grasset, Romain; Cea, Tommaso; Gallais, Yann; Cazayous, Maximilien; Sacuto, Alain; Cario, Laurent; Benfatto, Lara; Méasson, Marie-Aude

2018-03-01

Despite being usually considered two competing phenomena, charge-density wave and superconductivity coexist in few systems, the most emblematic one being the transition-metal dichalcogenide 2 H -NbSe2 . This unusual condition is responsible for specific Raman signatures across the two phase transitions in this compound. While the appearance of a soft phonon mode is a well-established fingerprint of the charge-density-wave order, the nature of the sharp subgap mode emerging below the superconducting temperature is still under debate. In this work we use external pressure as a knob to unveil the delicate interplay between the two orders, and consequently the nature of the superconducting mode. Thanks to an advanced extreme-conditions Raman technique, we are able to follow the pressure evolution and the simultaneous collapse of the two intertwined charge-density-wave and superconducting modes. The comparison with microscopic calculations in a model system supports the Higgs-type nature of the superconducting mode and suggests that charge-density wave and superconductivity in 2 H -NbSe2 involve mutual electronic degrees of freedom. These findings fill the knowledge gap on the electronic mechanisms at play in transition-metal dichalcogenides, a crucial step to fully exploit their properties in few-layer systems optimized for device applications.

The effect of Jupiter oscillations on Juno gravity measurements

NASA Astrophysics Data System (ADS)

Durante, Daniele; Guillot, Tristan; Iess, Luciano

2017-01-01

Seismology represents a unique method to probe the interiors of giant planets. Recently, Saturn's f-modes have been indirectly observed in its rings, and there is strong evidence for the detection of Jupiter global modes by means of ground-based, spatially-resolved, velocimetry measurements. We propose to exploit Juno's extremely accurate radio science data by looking at the gravity perturbations that Jupiter's acoustic modes would produce. We evaluate the perturbation to Jupiter's gravitational field using the oscillation spectrum of a polytrope with index 1 and the corresponding radial eigenfunctions. We show that Juno will be most sensitive to the fundamental mode (n = 0), unless its amplitude is smaller than 0.5 cm/s, i.e. 100 times weaker than the n ∼ 4 - 11 modes detected by spatially-resolved velocimetry. The oscillations yield contributions to Juno's measured gravitational coefficients similar to or larger than those expected from shallow zonal winds (extending to depths less than 300 km). In the case of a strong f-mode (radial velocity ∼ 30 cm/s), these contributions would become of the same order as those expected from deep zonal winds (extending to 3000 km), especially on the low degree zonal harmonics, therefore requiring a new approach to the analysis of Juno data.

Modeling the optimal central carbon metabolic pathways under feedback inhibition using flux balance analysis.

PubMed

De, Rajat K; Tomar, Namrata

2012-12-01

Metabolism is a complex process for energy production for cellular activity. It consists of a cascade of reactions that form a highly branched network in which the product of one reaction is the reactant of the next reaction. Metabolic pathways efficiently produce maximal amount of biomass while maintaining a steady-state behavior. The steady-state activity of such biochemical pathways necessarily incorporates feedback inhibition of the enzymes. This observation motivates us to incorporate feedback inhibition for modeling the optimal activity of metabolic pathways using flux balance analysis (FBA). We demonstrate the effectiveness of the methodology on a synthetic pathway with and without feedback inhibition. Similarly, for the first time, the Central Carbon Metabolic (CCM) pathways of Saccharomyces cerevisiae and Homo sapiens have been modeled and compared based on the above understanding. The optimal pathway, which maximizes the amount of the target product(s), is selected from all those obtained by the proposed method. For this, we have observed the concentration of the product inhibited enzymes of CCM pathway and its influence on its corresponding metabolite/substrate. We have also studied the concentration of the enzymes which are responsible for the synthesis of target products. We further hypothesize that an optimal pathway would opt for higher flux rate reactions. In light of these observations, we can say that an optimal pathway should have lower enzyme concentration and higher flux rates. Finally, we demonstrate the superiority of the proposed method by comparing it with the extreme pathway analysis.

Observational limitations of Bose-Einstein photon statistics and radiation noise in thermal emission

NASA Astrophysics Data System (ADS)

Lee, Y.-J.; Talghader, J. J.

2018-01-01

For many decades, theory has predicted that Bose-Einstein statistics are a fundamental feature of thermal emission into one or a few optical modes; however, the resulting Bose-Einstein-like photon noise has never been experimentally observed. There are at least two reasons for this: (1) Relationships to describe the thermal radiation noise for an arbitrary mode structure have yet to be set forth, and (2) the mode and detector constraints necessary for the detection of such light is extremely hard to fulfill. Herein, photon statistics and radiation noise relationships are developed for systems with any number of modes and couplings to an observing space. The results are shown to reproduce existing special cases of thermal emission and are then applied to resonator systems to discuss physically realizable conditions under which Bose-Einstein-like thermal statistics might be observed. Examples include a single isolated cavity and an emitter cavity coupled to a small detector space. Low-mode-number noise theory shows major deviations from solely Bose-Einstein or Poisson treatments and has particular significance because of recent advances in perfect absorption and subwavelength structures both in the long-wave infrared and terahertz regimes. These microresonator devices tend to utilize a small volume with few modes, a regime where the current theory of thermal emission fluctuations and background noise, which was developed decades ago for free-space or single-mode cavities, has no derived solutions.

HBT-EP Program: MHD Dynamics and Active Control through 3D Fields and Currents

NASA Astrophysics Data System (ADS)

Navratil, G. A.; Bialek, J.; Brooks, J. W.; Byrne, P. J.; Desanto, S.; Levesque, J. P.; Mauel, M. E.; Stewart, I. G.; Hansen, C. J.

2017-10-01

The HBT-EP active mode control research program aims to: (i) advance understanding of the effects of 3D shaping on advanced tokamak fusion performance, (ii) resolve important MHD issues associated with disruptions, and (iii) measure and mitigate the effects of 3D scrape-off layer (SOL) currents through active and passive control of the plasma edge and conducting boundary structures. Comparison of kink mode structure and RMP response in circular versus diverted plasmas shows good agreement with DCON modeling. SOL current measurements have been used to study SOL current dynamics and current-sharing with the vacuum vessel wall during kink-mode growth and disruptions. A multi-chord extreme UV/soft X-ray array is being installed to provide detailed internal mode structure information. Internal local electrodes were used to apply local bias voltage at two radial locations to study the effect of rotation profile on MHD mode rotation and stability and radial current flow through the SOL. A GPU-based low latency control system using 96 inputs and 64 outputs to apply magnetic perturbations for active control of kink modes is extended to directly control the SOL currents for kink-mode control. An extensive array of SOL current monitors and edge drive electrodes are being installed for pioneering studies of helical edge current control. Supported by U.S. DOE Grant DE-FG02-86ER53222.

An Extrinsic Fabry-Perot Interferometric Sensor using Intermodal Phase Shifting and Demultiplexing of the Propagating Modes in a Few-Mode Fiber

NASA Astrophysics Data System (ADS)

Chatterjee, Julius

This dissertation demonstrates a fiber-optic phase shifted Fabry-Perot interferometer (PS-FPI) as a sensor using modal demultiplexing. Single wavelength Fabry-Perot interferometers suffer from fringe ambiguity and loss of sensitivity at fringe extremes. These hindrances cause it to be a secondary choice when being selected for a measurement task at hand, and more often than not, white light based sensors are selected in favor of the single wavelength Fabry-Perot sensors. This work aims to introduce a technique involving the demultiplexing of the propagating linearly polarized (LP) modes in few mode fibers to obtain two fringe systems from the same sensing cavity. This results in a few-mode interferometer that effectively has two to three orders of magnitude higher perturbation sensitivity than a conventional few mode interferometer for the same sensing region. In this work, two different modal demultiplexing techniques (MD) are used to demodulate the propagating modes and to obtain two fringe sets. These output fringe sets are shifted in phase with respect to each other by a phase shift due to the propagation of the modes in the fiber-optic layout. A method of controlling this phase shift by straining a length of a two mode fiber located separate from the PS-FPI cavity is demonstrated and corresponding changes in phase shifts are shown. The results show a controllable phase shift for both the MD techniques, which is useful in sensing by permitting quadrature demodulation of interferometric fringes and also results in a novel few-mode sensing system having more than two orders of magnitude sensitivity than conventional few-mode devices.

A Module Analysis Approach to Investigate Molecular Mechanism of TCM Formula: A Trial on Shu-feng-jie-du Formula

PubMed Central

Zhang, Fangbo; Tang, Shihuan; Liu, Xi; Gao, Yibo; Wang, Yanping

2013-01-01

At the molecular level, it is acknowledged that a TCM formula is often a complex system, which challenges researchers to fully understand its underlying pharmacological action. However, module detection technique developed from complex network provides new insight into systematic investigation of the mode of action of a TCM formula from the molecule perspective. We here proposed a computational approach integrating the module detection technique into a 2-class heterogeneous network (2-HN) which models the complex pharmacological system of a TCM formula. This approach takes three steps: construction of a 2-HN, identification of primary pharmacological units, and pathway analysis. We employed this approach to study Shu-feng-jie-du (SHU) formula, which aimed at discovering its molecular mechanism in defending against influenza infection. Actually, four primary pharmacological units were identified from the 2-HN for SHU formula and further analysis revealed numbers of biological pathways modulated by the four pharmacological units. 24 out of 40 enriched pathways that were ranked in top 10 corresponding to each of the four pharmacological units were found to be involved in the process of influenza infection. Therefore, this approach is capable of uncovering the mode of action underlying a TCM formula via module analysis. PMID:24376467

Evaluation of Triclosan in the Hershberger and H295R Steroidogenesis Assays

EPA Science Inventory

Triclosan (TCS) is an antibacterial widely used in personal care products that exhibits endocrine disrupting activity in several species with reports of altered thyroid, estrogen and androgen signaling pathways. To evaluate the androgen mode of action, TCS was evaluated for and...

Application of Toxicogenomics in Decision Making in Ecological and Human Health Risk Assessment

EPA Science Inventory

Uncertainties in risk assessment arise from sparse or inadequate data including gaps in our understanding of mode of action, the exposure-dose-response pathway, cross-species toxicokinetic and toxicodynamic information, and/or exposure data. There is an expectation that toxicogen...

Evaluation of the relative risk to birds of alternative pesticides using EPA’s TIM/MCnest Model

EPA Science Inventory

Agricultural producers today have many choices of active ingredients for crop protection. These products come with different active ingredients, different modes of action, and that initiate different adverse outcome pathways. Use patterns also differ considerably among products...

DEsubs: an R package for flexible identification of differentially expressed subpathways using RNA-seq experiments.

PubMed

Vrahatis, Aristidis G; Balomenos, Panos; Tsakalidis, Athanasios K; Bezerianos, Anastasios

2016-12-15

DEsubs is a network-based systems biology R package that extracts disease-perturbed subpathways within a pathway network as recorded by RNA-seq experiments. It contains an extensive and customized framework with a broad range of operation modes at all stages of the subpathway analysis, enabling so a case-specific approach. The operation modes include pathway network construction and processing, subpathway extraction, visualization and enrichment analysis with regard to various biological and pharmacological features. Its capabilities render DEsubs a tool-guide for both the modeler and experimentalist for the identification of more robust systems-level drug targets and biomarkers for complex diseases. DEsubs is implemented as an R package following Bioconductor guidelines: http://bioconductor.org/packages/DEsubs/ CONTACT: tassos.bezerianos@nus.edu.sgSupplementary information: Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Crystal structure of secretory protein Hcp3 from Pseudomonas aeruginosa.

PubMed

Osipiuk, Jerzy; Xu, Xiaohui; Cui, Hong; Savchenko, Alexei; Edwards, Aled; Joachimiak, Andrzej

2011-03-01

The Type VI secretion pathway transports proteins across the cell envelope of Gram-negative bacteria. Pseudomonas aeruginosa, an opportunistic Gram-negative bacterial pathogen infecting humans, uses the type VI secretion pathway to export specific effector proteins crucial for its pathogenesis. The HSI-I virulence locus encodes for several proteins that has been proposed to participate in protein transport including the Hcp1 protein, which forms hexameric rings that assemble into nanotubes in vitro. Two Hcp1 paralogues have been identified in the P. aeruginosa genome, Hsp2 and Hcp3. Here, we present the structure of the Hcp3 protein from P. aeruginosa. The overall structure of the monomer resembles Hcp1 despite the lack of amino-acid sequence similarity between the two proteins. The monomers assemble into hexamers similar to Hcp1. However, instead of forming nanotubes in head-to-tail mode like Hcp1, Hcp3 stacks its rings in head-to-head mode forming double-ring structures.

Comparing the effects of age, BMI and gender on severe injury (AIS 3+) in motor-vehicle crashes.

PubMed

Carter, Patrick M; Flannagan, Carol A C; Reed, Matthew P; Cunningham, Rebecca M; Rupp, Jonathan D

2014-11-01

The effects of age, body mass index (BMI) and gender on motor vehicle crash (MVC) injuries are not well understood and current prevention efforts do not effectively address variability in occupant characteristics. (1) Characterize the effects of age, BMI and gender on serious-to-fatal MVC injury. (2) Identify the crash modes and body regions where the effects of occupant characteristics on the numbers of occupants with injury is largest, and thereby aid in prioritizing the need for human surrogates that represent different types of occupant characteristics and adaptive restraint systems that consider these characteristics. Multivariate logistic regression was used to model the effects of occupant characteristics (age, BMI, gender), vehicle and crash characteristics on serious-to-fatal injuries (AIS 3+) by body region and crash mode using the 2000-2010 National Automotive Sampling System (NASS-CDS) dataset. Logistic regression models were applied to weighted crash data to estimate the change in the number of annual injured occupants with AIS 3+ injury that would occur if occupant characteristics were limited to their 5th percentiles (age≤17 years old, BMI≤19kg/m(2)) or male gender. Limiting age was associated with a decrease in the total number of occupants with head [8396, 95% CI 6871-9070] and thorax injuries [17,961, 95% CI 15,960-18,859] across all crash modes, decreased occupants with spine [3843, 95% CI 3065-4242] and upper extremity [3578, 95% CI 1402-4439] injuries in frontal and rollover crashes and decreased abdominal [1368, 95% CI 1062-1417] and lower extremity [4584, 95% CI 4012-4995] injuries in frontal impacts. The age effect was modulated by gender with older females more likely to have thorax and upper extremity injuries than older males. Limiting BMI was associated with 2069 [95% CI 1107-2775] fewer thorax injuries in nearside crashes, and 5304 [95% CI 4279-5688] fewer lower extremity injuries in frontal crashes. Setting gender to male resulted in fewer occupants with head injuries in farside crashes [1999, 95% CI 844-2685] and fewer thorax [5618, 95% CI 4212-6272], upper [3804, 95% CI 1781-4803] and lower extremity [2791, 95% CI 2216-3256] injuries in frontal crashes. Results indicate that age provides the greater relative contribution to injury when compared to gender and BMI, especially for thorax and head injuries. Restraint systems that account for the differential injury risks associated with age, BMI and gender could have a meaningful effect on injury in motor-vehicle crashes. Computational models of humans that represent older, high BMI, and female occupants are needed for use in simulations of particular types of crashes to develop these restraint systems. Copyright © 2014 Elsevier Ltd. All rights reserved.

Acoustics flow analysis in circular duct using sound intensity and dynamic mode decomposition

NASA Astrophysics Data System (ADS)

Weyna, S.

2014-08-01

Sound intensity generation in hard-walled duct with acoustic flow (no mean-flow) is treated experimentally and shown graphically. In paper, numerous methods of visualization illustrating the vortex flow (2D, 3D) can graphically explain diffraction and scattering phenomena occurring inside the duct and around open end area. Sound intensity investigation in annular duct gives a physical picture of sound waves in any duct mode. In the paper, modal energy analysis are discussed with particular reference to acoustics acoustic orthogonal decomposition (AOD). The image of sound intensity fields before and above "cut-off" frequency region are found to compare acoustic modes which might resonate in duct. The experimental results show also the effects of axial and swirling flow. However acoustic field is extremely complicated, because pressures in non-propagating (cut-off) modes cooperate with the particle velocities in propagating modes, and vice versa. Measurement in cylindrical duct demonstrates also the cut-off phenomenon and the effect of reflection from open end. The aim of experimental study was to obtain information on low Mach number flows in ducts in order to improve physical understanding and validate theoretical CFD and CAA models that still may be improved.

Fan Noise Source Diagnostic Test: Tone Modal Structure Results

NASA Technical Reports Server (NTRS)

Heidelberg, Laurence J.

2002-01-01

This investigation is part of a test series that was extremely comprehensive and included aerodynamic and acoustic testing of a fan stage using two different fan rotors and three different stator designs. The test series is known as the Source Diagnostic Test (SDT) and was conducted by NASA Glenn as part of the Advanced Subsonic Technology (AST) Noise Reduction Program. Tone mode measurements of one of the rotors with three different stators were made. The stator designs involve changes in vane count and sweep at constant solidity. The results of both inlet and exhaust tone mode measurements are presented in terms of mode power for both circumferential and radial mode orders. The results show benefits of vane sweep to be large, up to 13 dB in total tone power. At many conditions, the increase in power due to cutting on the rotor/stator interaction is more than offset by vane sweep. The rotor locked mode is shown as an important contributor to tone power when the blade tip speed is near and above Mach one. This is most evident in the inlet when the direct rotor field starts to cut on.

The genomic sequence of Exiguobacterium chiriqhucha str. N139 reveals a species that thrives in cold waters and extreme environmental conditions.

PubMed

Gutiérrez-Preciado, Ana; Vargas-Chávez, Carlos; Reyes-Prieto, Mariana; Ordoñez, Omar F; Santos-García, Diego; Rosas-Pérez, Tania; Valdivia-Anistro, Jorge; Rebollar, Eria A; Saralegui, Andrés; Moya, Andrés; Merino, Enrique; Farías, María Eugenia; Latorre, Amparo; Souza, Valeria

2017-01-01

We report the genome sequence of Exiguobacterium chiriqhucha str. N139, isolated from a high-altitude Andean lake. Comparative genomic analyses of the Exiguobacterium genomes available suggest that our strain belongs to the same species as the previously reported E. pavilionensis str. RW-2 and Exiguobacterium str. GIC 31. We describe this species and propose the chiriqhucha name to group them. 'Chiri qhucha' in Quechua means 'cold lake', which is a common origin of these three cosmopolitan Exiguobacteria. The 2,952,588-bp E. chiriqhucha str. N139 genome contains one chromosome and three megaplasmids. The genome analysis of the Andean strain suggests the presence of enzymes that confer E. chiriqhucha str. N139 the ability to grow under multiple environmental extreme conditions, including high concentrations of different metals, high ultraviolet B radiation, scavenging for phosphorous and coping with high salinity. Moreover, the regulation of its tryptophan biosynthesis suggests that novel pathways remain to be discovered, and that these pathways might be fundamental in the amino acid metabolism of the microbial community from Laguna Negra, Argentina.

Proteomics of vitamin B12 processing.

PubMed

Hannibal, Luciana; DiBello, Patricia M; Jacobsen, Donald W

2013-03-01

The causes of cobalamin (B12, Cbl) deficiency are multifactorial. Whether nutritional due to poor dietary intake, or functional due to impairments in absorption or intracellular processing and trafficking events, the major symptoms of Cbl deficiency include megaloblastic anemia, neurological deterioration and in extreme cases, failure to thrive and death. The common biomarkers of Cbl deficiency (hyperhomocysteinemia and methylmalonic acidemia) are extremely valuable diagnostic indicators of the condition, but little is known about the changes that occur at the protein level. A mechanistic explanation bridging the physiological changes associated with functional B12 deficiency with its intracellular processers and carriers is lacking. In this article, we will cover the effects of B12 deficiency in a cblC-disrupted background (also referred to as MMACHC) as a model of functional Cbl deficiency. As will be shown, major protein changes involve the cytoskeleton, the neurological system as well as signaling and detoxification pathways. Supplementation of cultured MMACHC-mutant cells with hydroxocobalamin (HOCbl) failed to restore these variants to the normal phenotype, suggesting that a defective Cbl processing pathway produces irreversible changes at the protein level.

Genetic dissection of cardiac growth control pathways

NASA Technical Reports Server (NTRS)

MacLellan, W. R.; Schneider, M. D.

2000-01-01

Cardiac muscle cells exhibit two related but distinct modes of growth that are highly regulated during development and disease. Cardiac myocytes rapidly proliferate during fetal life but exit the cell cycle irreversibly soon after birth, following which the predominant form of growth shifts from hyperplastic to hypertrophic. Much research has focused on identifying the candidate mitogens, hypertrophic agonists, and signaling pathways that mediate these processes in isolated cells. What drives the proliferative growth of embryonic myocardium in vivo and the mechanisms by which adult cardiac myocytes hypertrophy in vivo are less clear. Efforts to answer these questions have benefited from rapid progress made in techniques to manipulate the murine genome. Complementary technologies for gain- and loss-of-function now permit a mutational analysis of these growth control pathways in vivo in the intact heart. These studies have confirmed the importance of suspected pathways, have implicated unexpected pathways as well, and have led to new paradigms for the control of cardiac growth.

Evidence for phononic pairing in extremely overdoped ``pure'' d-wave superconductor Bi2212

NASA Astrophysics Data System (ADS)

He, Yu; Hishimoto, Makoto; Song, Dongjoon; Eisaki, Hiroshi; Shen, Zhi-Xun

2015-03-01

Recent advancement in High Tc cuprate superconductor research has elucidated strong interaction between superconductivity and competing orders. Therefore, the mechanism behind the 'pure' d-wave superconducting behavior becomes the next stepping stone to further the understanding. We have performed photoemission study on extremely overdoped Bi2212 single crystal synthesized via high pressure method. In this regime, we demonstrate the much reduced superconducting gap and the absence of pseudogap. Clear gap shifted bosonic mode coupling is observed throughout the entire Brillouin zone. Via full Eliashberg treatment, we find the electron-phonon coupling strength capable of producing a transition temperature very close to Tc. This strongly implies bosonic contribution to cuprate superconductivity's pairing glue.

Early Results from TUS, the First Orbital Detector of Extreme Energy Cosmic Rays

NASA Astrophysics Data System (ADS)

Zotov, Mikhail

TUS is the world's first orbital detector of extreme energy cosmic rays (EECRs), which operates as a part of the scientific payload of the Lomonosov satellite since May 19, 2016. TUS employs the nocturnal atmosphere of the Earth to register ultraviolet (UV) fluorescence and Cherenkov radiation from extensive air showers generated by EECRs as well as UV radiation from lightning strikes and transient luminous events, micro-meteors and space debris. The first months of its operation in orbit have demonstrated an unexpectedly rich variety of UV radiation in the atmosphere. We briefly review the design of TUS and present a few examples of events recorded in a mode dedicated to registering EECRs.

Magellan: Radar performance and data products

USGS Publications Warehouse

Pettengill, G.H.; Ford, P.G.; Johnson, W.T.K.; Raney, R.K.; Soderblom, L.A.

1991-01-01

The Magellan Venus orbiter carries only one scientific instrument: a 12.6-centimeter-wavelength radar system shared among three data-taking modes. The syntheticaperture mode images radar echoes from the Venus surface at a resolution of between 120 and 300 meters, depending on spacecraft altitude. In the altimetric mode, relative height measurement accuracies may approach 5 meters, depending on the terrain's roughness, although orbital uncertainties place a floor of about 50 meters on the absolute uncertainty. In areas of extremely rough topography, accuracy is limited by the inherent line-of-sight radar resolution of about 88 meters. The maximum elevation observed to date, corresponding to a planetary radius of 6062 kilometers, lies within Maxwell Mons. When used as a thermal emission radiometer, the system can determine surface emissivities to an absolute accuracy of about 0.02. Mosaicked and archival digital data products will be released in compact disk (CDROM) format.

Treatment of pediculosis capitis: a critical appraisal of the current literature.

PubMed

Feldmeier, Hermann

2014-10-01

Pediculosis capitis is the most common ectoparasitic disease in children in industrialized countries and extremely common in resource-poor communities of the developing world. The extensive use of pediculicides with a neurotoxic mode of action has led to the development and spread of resistant head lice populations all over the world. This triggered the development of compounds with other modes of action. The current literature on treatment approaches of head lice infestation was searched, and published randomized controlled trials were critically analyzed. The following compounds/family of compounds were identified: spinosad, a novel compound with a new neurotoxic mode of action, isopropyl myristate, 1,2-octanediol, ivermectin, plant-based products, and dimeticones. The efficacy and safety of these compounds are reviewed and recommendations for the treatment of pediculosis capitis in individuals as well as the interruption of ongoing epidemics are provided.

Orbital angular momentum mode division filtering for photon-phonon coupling

PubMed Central

Zhu, Zhi-Han; Sheng, Li-Wen; Lv, Zhi-Wei; He, Wei-Ming; Gao, Wei

2017-01-01

Stimulated Brillouin scattering (SBS), a fundamental nonlinear interaction between light and acoustic waves occurring in any transparency material, has been broadly studied for several decades and gained rapid progress in integrated photonics recently. However, the SBS noise arising from the unwanted coupling between photons and spontaneous non-coherent phonons in media is inevitable. Here, we propose and experimentally demonstrate this obstacle can be overcome via a method called orbital angular momentum mode division filtering. Owing to the introduction of a new distinguishable degree-of-freedom, even extremely weak signals can be discriminated and separated from a strong noise produced in SBS processes. The mechanism demonstrated in this proof-of-principle work provides a practical way for quasi-noise-free photonic-phononic operation, which is still valid in waveguides supporting multi-orthogonal spatial modes, permits more flexibility and robustness for future SBS devices. PMID:28071736

Generation of coherent magnons in NiO stimulated by EUV pulses from a seeded free-electron laser

NASA Astrophysics Data System (ADS)

Simoncig, A.; Mincigrucci, R.; Principi, E.; Bencivenga, F.; Calvi, A.; Foglia, L.; Kurdi, G.; Matruglio, A.; Dal Zilio, S.; Masciotti, V.; Lazzarino, M.; Masciovecchio, C.

2017-12-01

The full comprehension of magnetic phenomena at the femtosecond (fs) time scale is of high demand for current material science and technology. Here we report the observation of coherent collective modes in the antiferromagnetic insulator nickel oxide (NiO) identified by a frequency of 0.86 THz, which matches the expected out-of-plane single-mode magnon resonance. Such collective excitations are inelastically stimulated by extreme ultraviolet (EUV) pulses delivered by a seeded free-electron laser (FEL) and subsequently revealed probing the transient optical activity of NiO looking at the Faraday effect. Moreover, the unique capability of the employed FEL source to deliver circularly polarized pulses allows us to demonstrate optomagnetic control of such collective modes at EUV photon energies. These results may set a starting point for future investigations of magnetic materials at time scales comparable or faster than those typical of exchange interactions.

Sub-100 attosecond timing jitter from low-noise passively mode-locked solid-state laser at telecom wavelength.

PubMed

Portuondo-Campa, E; Paschotta, R; Lecomte, S

2013-08-01

We report on the ultralow timing jitter of the 100 MHz pulse trains generated by two identical passively mode-locked diode-pumped solid-state lasers (DPSSLs) emitting at 1556 nm. Ultralow timing jitter of 83 as (integrated from 10 kHz to 50 MHz) for one laser has been measured with a balanced optical cross-correlator as timing discriminator. Extremely low intensity noise has been measured as well. Several measurement techniques have been used and show similar jitter results. Different possible noise sources have been theoretically investigated and compared to the measured jitter power spectral density. It is found that although the measured integrated jitter is quite low, it is still significantly above the quantum limit in the considered frequency span. Therefore, there is a substantial potential for technical improvements that could make passively mode-locked DPSSL outperform fiber lasers as source of microwaves with low phase noise.

Water Quality Control for Shrimp Pond Using Adaptive Neuro Fuzzy Inference System : The First Project

NASA Astrophysics Data System (ADS)

Umam, F.; Budiarto, H.

2018-01-01

Shrimp farming becomes the main commodity of society in Madura Island East Java Indonesia. Because of Madura island has a very extreme weather, farmers have difficulty in keeping the balance of pond water. As a consequence of this condition, there are some farmers experienced losses. In this study an adaptive control system was developed using ANFIS method to control pH balance (7.5-8.5), Temperature (25-31°C), water level (70-120 cm) and Dissolved Oxygen (4-7,5 ppm). Each parameter (pH, temperature, level and DO) is controlled separately but can work together. The output of the control system is in the form of pump activation which provides the antidote to the imbalance that occurs in pond water. The system is built with two modes at once, which are automatic mode and manual mode. The manual control interface based on android which is easy to use.

Chronic stress and peripheral pain: Evidence for distinct, region-specific changes in visceral and somatosensory pain regulatory pathways.

PubMed

Zheng, Gen; Hong, Shuangsong; Hayes, John M; Wiley, John W

2015-11-01

Chronic stress alters the hypothalamic-pituitary-adrenal (HPA) axis and enhances visceral and somatosensory pain perception. It is unresolved whether chronic stress has distinct effects on visceral and somatosensory pain regulatory pathways. Previous studies reported that stress-induced visceral hyperalgesia is associated with reciprocal alterations of endovanilloid and endocannabinoid pain pathways in DRG neurons innervating the pelvic viscera. In this study, we compared somatosensory and visceral hyperalgesia with respect to differential responses of peripheral pain regulatory pathways in a rat model of chronic, intermittent stress. We found that chronic stress induced reciprocal changes in the endocannabinoid 2-AG (increased) and endocannabinoid degradation enzymes COX-2 and FAAH (decreased), associated with down-regulation of CB1 and up-regulation of TRPV1 receptors in L6-S2 DRG but not L4-L5 DRG neurons. In contrast, sodium channels Nav1.7 and Nav1.8 were up-regulated in L4-L5 but not L6-S2 DRGs in stressed rats, which was reproduced in control DRGs treated with corticosterone in vitro. The reciprocal changes of CB1, TRPV1 and sodium channels were cell-specific and observed in the sub-population of nociceptive neurons. Behavioral assessment showed that visceral hyperalgesia persisted, whereas somatosensory hyperalgesia and enhanced expression of Nav1.7 and Nav1.8 sodium channels in L4-L5 DRGs normalized 3 days after completion of the stress phase. These data indicate that chronic stress induces visceral and somatosensory hyperalgesia that involves differential changes in endovanilloid and endocannabinoid pathways, and sodium channels in DRGs innervating the pelvic viscera and lower extremities. These results suggest that chronic stress-induced visceral and lower extremity somatosensory hyperalgesia can be treated selectively at different levels of the spinal cord. Copyright © 2015 Elsevier Inc. All rights reserved.

EIMS Fragmentation Pathways and MRM Quantification of 7α/β-Hydroxy-Dehydroabietic Acid TMS Derivatives

NASA Astrophysics Data System (ADS)

Rontani, Jean-François; Aubert, Claude; Belt, Simon T.

2015-09-01

EI mass fragmentation pathways of TMS derivatives οf 7α/β-hydroxy-dehydroabietic acids resulting from NaBH4-reduction of oxidation products of dehydroabietic acid (a component of conifers) were investigated and deduced by a combination of (1) low energy CID-GC-MS/MS, (2) deuterium labeling, (3) different derivatization methods, and (4) GC-QTOF accurate mass measurements. Having identified the main fragmentation pathways, the TMS-derivatized 7α/β-hydroxy-dehydroabietic acids could be quantified in multiple reaction monitoring (MRM) mode in sea ice and sediment samples collected from the Arctic. These newly characterized transformation products of dehydroabietic acid constitute potential tracers of biotic and abiotic degradation of terrestrial higher plants in the environment.

Bilateral crosstalk of rho- and extracellular-signal-regulated-kinase (ERK) pathways is confined to an unidirectional mode in spinal muscular atrophy (SMA).

PubMed

Hensel, Niko; Stockbrügger, Inga; Rademacher, Sebastian; Broughton, Natasha; Brinkmann, Hella; Grothe, Claudia; Claus, Peter

2014-03-01

Rho-kinase (ROCK) as well as extracellular signal regulated kinase (ERK) control actin cytoskeletal organization thereby regulating dynamic changes of cellular morphology. In neurons, motility processes such as axonal guidance and neurite outgrowth demand a fine regulation of upstream pathways. Here we demonstrate a bilateral ROCK-ERK information flow in neurons. This process is shifted towards an unidirectional crosstalk in a model of the neurodegenerative disease Spinal Muscular Atrophy (SMA), ultimately leading to neurite outgrowth dysregulations. As both pathways are of therapeutic relevance for SMA, our results argue for a combinatorial ROCK/ERK-targeting as a future treatment strategy. Copyright © 2013 Elsevier Inc. All rights reserved.

Genetics of pheochromocytoma and paraganglioma: new developments.

PubMed

Pigny, P; Cardot-Bauters, C

2010-03-01

Since 2000, several new susceptibility genes for hereditary pheochromocytoma or paraganglioma have been discovered. The aim of this review is to highlight how these discoveries have improved our knowledge on the mode of inheritance of these tumors and also on their molecular pathogenesis. Concerning this specific point, we will show that the different key players of tumorigenesis can converge on two pathways, the first being the hypoxia/angiogenesis pathway and the second being the control of neural crest cell development pathway. Finally, practical issues are considered; for us, it would be preferable to apply easy-to-identify clinical predictors to preselect patients eligible for molecular testing in order to improve the efficiency of these high-cost tests. Copyright (c) 2009 Elsevier Masson SAS. All rights reserved.

Effects of Climate Change on Exposure to Coastal Flooding in Latin America and the Caribbean

PubMed Central

Reguero, Borja G.; Losada, Iñigo J.; Díaz-Simal, Pedro; Méndez, Fernando J.; Beck, Michael W.

2015-01-01

This study considers and compares several of the most important factors contributing to coastal flooding in Latin American and the Caribbean (LAC) while accounting for the variations of these factors with location and time. The study assesses the populations, the land areas and the built capital exposed at present and at the middle and end of the 21st century for a set of scenarios that include both climatic and non-climatic drivers. Climatic drivers include global mean sea level, natural modes of climate variability such as El Niño, natural subsidence, and extreme sea levels resulting from the combination of projected local sea-level rise, storm surges and wave setup. Population is the only human-related driver accounted for in the future. Without adaptation, more than 4 million inhabitants will be exposed to flooding from relative sea-level rise by the end of the century, assuming the 8.5 W m−2 trajectory of the Representative Concentration Pathways (RCPs), or RCP8.5. However, the contributions from El Niño events substantially raise the threat in several Pacific-coast countries of the region and sooner than previously anticipated. At the tropical Pacific coastlines, the exposure by the mid-century for an event similar to El Niño 1998 would be comparable to that of the RCP4.5 relative sea-level rise by the end of the century. Furthermore, more than 7.5 million inhabitants, 42,600 km2 and built capital valued at 334 billion USD are currently situated at elevations below the 100-year extreme sea level. With sea levels rising and the population increasing, it is estimated that more than 9 million inhabitants will be exposed by the end of the century for either of the RCPs considered. The spatial distribution of exposure and the comparison of scenarios and timeframes can serve as a guide in future adaptation and risk reduction policies in the region. PMID:26177285

Characteristics of the Different Modes of Walking and Hiking Conditions to Optimize the Movement of Tourists in the Desert

ERIC Educational Resources Information Center

Imangulova, Tatiyana; Makogonov, Aleksandr; Kulakhmetova, Gulbaram; Sardarov, Osman

2016-01-01

The development of desert areas in the industrial and tourist and educational purposes related to the implementation of physical activity in extreme conditions. A complex set of hot climate causes the body deep adaptive adjustment, impact on health, human physical performance. Optimization of physical activity in hot climates is of particular…

Scattering Tools for Nanostructure Phonon Engineering

DTIC Science & Technology

2013-09-25

characterization of phonons in nanomaterials, such as Raman scattering, are sensitive only to phonon modes with wavevectors of extremely small magnitude...Fundamentally the wavevectors that can be probed by Raman scattering are limited by the small momentum of photons in the visible spectrum. Our work...serious characterization challenge because existing experimental techniques for the characterization of phonons in nanomaterials, such as Raman

Extended-Range Prediction with Low-Dimensional, Stochastic-Dynamic Models: A Data-driven Approach

DTIC Science & Technology

2012-09-30

characterization of extratropical storms and extremes and link these to LFV modes. Mingfang Ting, Yochanan Kushnir, Andrew W. Robertson...simulating and predicting a wide range of climate phenomena including ENSO, tropical Atlantic sea surface temperatures (SSTs), storm track variability...into empirical prediction models. Use observations to improve low-order dynamical MJO models. Adam Sobel, Daehyun Kim. Extratropical variability

Test of the electric charge conservation law with Borexino detector

NASA Astrophysics Data System (ADS)

Vishneva, A.; Agostini, M.; Appel, S.; Bellini, G.; Benziger, J.; Bick, D.; Bonfini, G.; Bravo, D.; Caccianiga, B.; Calaprice, F.; Caminata, A.; Cavalcante, P.; Chepurnov, A.; D' Angelo, D.; Davini, S.; Derbin, A.; Di Noto, L.; Drachnev, I.; Etenko, A.; Fomenko, K.; Franco, D.; Gabriele, F.; Galbiati, C.; Ghiano, C.; Giammarchi, M.; Goeger-Neff, M.; Goretti, A.; Gromov, M.; Hagner, C.; Hungerford, E.; Ianni, Aldo; Ianni, Andrea; Jedrzejczak, K.; Kaiser, M.; Kobychev, V.; Korablev, D.; Korga, G.; Kryn, D.; Laubenstein, M.; Lehnert, B.; Litvinovich, E.; Lombardi, F.; Lombardi, P.; Ludhova, L.; Lukyanchenko, G.; Machulin, I.; Manecki, S.; Maneschg, W.; Marcocci, S.; Meroni, E.; Meyer, M.; Miramonti, L.; Misiaszek, M.; Montuschi, M.; Mosteiro, P.; Muratova, V.; Neumair, B.; Oberauer, L.; Obolensky, M.; Ortica, F.; Pallavicini, M.; Papp, L.; Perasso, L.; Pocar, A.; Ranucci, G.; Razeto, A.; Re, A.; Romani, A.; Roncin, R.; Rossi, N.; Schonert, S.; Semenov, D.; Simgen, H.; Skorokhvatov, M.; Smirnov, O.; Sotnikov, A.; Sukhotin, S.; Suvorov, Y.; Tartaglia, R.; Testera, G.; Thurn, J.; Toropova, M.; Unzhakov, E.; Vogelaar, R. B.; von Feilitzsch, F.; Wang, H.; Weinz, S.; Winter, J.; Wojcik, M.; Wurm, M.; Yokley, Z.; Zaimidoroga, O.; Zavatarelli, S.; Zuber, K.; Zuzel, G.

2016-02-01

The new limit on the electron lifetime is obtained from data of the Borexino experiment. The expected signal from the e → γν decay mode is a 256 keV photon detected in liquid scintillator. Because of the extremely low radioactive background level in the Borexino detector it was possible to improve the previous measurement by two orders of magnitude.

An Annotated Bibliography: Violence at Home.

ERIC Educational Resources Information Center

Lystad, Mary, Ed.

Violence in the family is defined as a mode of behavior involving the use of physical force among family members. Such force varies in severity from homicide at one extreme to mild spankings at the other. It also varies by intent. In some cases the intent is to control people's behavior; in other cases it is to vent personal hostility; in still…

Effective-one-body model for black-hole binaries with generic mass ratios and spins

NASA Astrophysics Data System (ADS)

Taracchini, Andrea; Buonanno, Alessandra; Pan, Yi; Hinderer, Tanja; Boyle, Michael; Hemberger, Daniel A.; Kidder, Lawrence E.; Lovelace, Geoffrey; Mroué, Abdul H.; Pfeiffer, Harald P.; Scheel, Mark A.; Szilágyi, Béla; Taylor, Nicholas W.; Zenginoglu, Anil

2014-03-01

Gravitational waves emitted by black-hole binary systems have the highest signal-to-noise ratio in LIGO and Virgo detectors when black-hole spins are aligned with the orbital angular momentum and extremal. For such systems, we extend the effective-one-body inspiral-merger-ringdown waveforms to generic mass ratios and spins calibrating them to 38 numerical-relativity nonprecessing waveforms produced by the SXS Collaboration. The numerical-relativity simulations span mass ratios from 1 to 8, spin magnitudes up to 98% of extremality, and last for 40 to 60 gravitational-wave cycles. When the total mass of the binary is between 20 and 200M⊙, the effective-one-body nonprecessing (dominant mode) waveforms have overlap above 99% (using the advanced-LIGO design noise spectral density) with all of the 38 nonprecessing numerical waveforms, when maximizing only on initial phase and time. This implies a negligible loss in event rate due to modeling. We also show that—without further calibration— the precessing effective-one-body (dominant mode) waveforms have overlap above 97% with two very long, strongly precessing numerical-relativity waveforms, when maximizing only on the initial phase and time.

The cutting of ultrathin sections with the thickness less than 20 nm from biological specimens embedded in resin blocks.

PubMed

Nebesářová, Jana; Hozák, Pavel; Frank, Luděk; Štěpan, Petr; Vancová, Marie

2016-06-01

Low voltage electron microscopes working in transmission mode, like LVEM5 (Delong Instruments, Czech Republic) working at accelerating voltage 5 kV or scanning electron microscope working in transmission mode with accelerating voltage below 1 kV, require ultrathin sections with the thickness below 20 nm. Decreasing of the primary electron energy leads to enhancement of image contrast, which is especially useful in the case of biological samples composed of elements with low atomic numbers. As a result treatments with heavy metals, like post-fixation with osmium tetroxide or ultrathin section staining, can by omitted. The disadvantage is reduced penetration ability of incident electrons influencing the usable thickness of the specimen resulting in the need of ultrathin sections of under 20 nm thickness. In this study we want to answer basic questions concerning the cutting of extremely ultrathin sections: Is it possible routinely and reproducibly to cut extremely thin sections of biological specimens embedded in commonly used resins with contemporary ultramicrotome techniques and under what conditions? Microsc. Res. Tech. 79:512-517, 2016. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Broadband low-frequency sound isolation by lightweight adaptive metamaterials

NASA Astrophysics Data System (ADS)

Liao, Yunhong; Chen, Yangyang; Huang, Guoliang; Zhou, Xiaoming

2018-03-01

Blocking broadband low-frequency airborne noises is highly desirable in lots of engineering applications, while it is extremely difficult to be realized with lightweight materials and/or structures. Recently, a new class of lightweight adaptive metamaterials with hybrid shunting circuits has been proposed, demonstrating super broadband structure-borne bandgaps. In this study, we aim at examining their potentials in broadband sound isolation by establishing an analytical model that rigorously combines the piezoelectric dynamic couplings between adaptive metamaterials and acoustics. Sound transmission loss of the adaptive metamaterial is investigated with respect to both the frequency and angular spectrum to demonstrate their sound-insulation effects. We find that efficient sound isolation can indeed be pursued in the broadband bi-spectrum for not only the case of the small resonator's periodicity where only one mode relevant to the mass-spring resonance exists, but also for the large-periodicity scenario, so that the total weight can be even lighter, in which the multiple plate-resonator coupling modes appear. In the latter case, the negative spring stiffness provided by the piezoelectric stack has been utilized to suppress the resonance-induced high acoustic transmission. Such kinds of adaptive metamaterials could open a new approach for broadband noise isolation with extremely lightweight structures.

Whole blood transcriptional profiling comparison between different milk yield of Chinese Holstein cows using RNA-seq data.

PubMed

Bai, Xue; Zheng, Zhuqing; Liu, Bin; Ji, Xiaoyang; Bai, Yongsheng; Zhang, Wenguang

2016-08-22

The objective of this research was to investigate the variation of gene expression in the blood transcriptome profile of Chinese Holstein cows associated to the milk yield traits. We used RNA-seq to generate the bovine transcriptome from the blood of 23 lactating Chinese Holstein cows with extremely high and low milk yield. A total of 100 differentially expressed genes (DEGs) (p < 0.05, FDR < 0.05) were revealed between the high and low groups. Gene ontology (GO) analysis demonstrated that the 100 DEGs were enriched in specific biological processes with regard to defense response, immune response, inflammatory response, icosanoid metabolic process, and fatty acid metabolic process (p < 0.05). The KEGG pathway analysis with 100 DEGs revealed that the most statistically-significant metabolic pathway was related with Toll-like receptor signaling pathway (p < 0.05). The expression level of four selected DEGs was analyzed by qRT-PCR, and the results indicated that the expression patterns were consistent with the deep sequencing results by RNA-Seq. Furthermore, alternative splicing analysis of 100 DEGs demonstrated that there were different splicing pattern between high and low yielders. The alternative 3' splicing site was the major splicing pattern detected in high yielders. However, in low yielders the major type was exon skipping. This study provides a non-invasive method to identify the DEGs in cattle blood using RNA-seq for milk yield. The revealed 100 DEGs between Holstein cows with extremely high and low milk yield, and immunological pathway are likely involved in milk yield trait. Finally, this study allowed us to explore associations between immune traits and production traits related to milk production.

Extremely Low-Frequency Electromagnetic Fields Cause G1 Phase Arrest through the Activation of the ATM-Chk2-p21 Pathway

PubMed Central

Huang, Chao-Ying; Chang, Cheng-Wei; Chen, Chaang-Ray; Chuang, Chun-Yu; Chiang, Chi-Shiun; Shu, Wun-Yi; Fan, Tai-Ching; Hsu, Ian C.

2014-01-01

In daily life, humans are exposed to the extremely low-frequency electromagnetic fields (ELF-EMFs) generated by electric appliances, and public concern is increasing regarding the biological effects of such exposure. Numerous studies have yielded inconsistent results regarding the biological effects of ELF-EMF exposure. Here we show that ELF-EMFs activate the ATM-Chk2-p21 pathway in HaCaT cells, inhibiting cell proliferation. To present well-founded results, we comprehensively evaluated the biological effects of ELF-EMFs at the transcriptional, protein, and cellular levels. Human HaCaT cells from an immortalized epidermal keratinocyte cell line were exposed to a 1.5 mT, 60 Hz ELF-EMF for 144 h. The ELF-EMF could cause G1 arrest and decrease colony formation. Protein expression experiments revealed that ELF-EMFs induced the activation of the ATM/Chk2 signaling cascades. In addition, the p21 protein, a regulator of cell cycle progression at G1 and G2/M, exhibited a higher level of expression in exposed HaCaT cells compared with the expression of sham-exposed cells. The ELF-EMF-induced G1 arrest was diminished when the CHK2 gene expression (which encodes checkpoint kinase 2; Chk2) was suppressed by specific small interfering RNA (siRNA). These findings indicate that ELF-EMFs activate the ATM-Chk2-p21 pathway in HaCaT cells, resulting in cell cycle arrest at the G1 phase. Based on the precise control of the ELF-EMF exposure and rigorous sham-exposure experiments, all transcriptional, protein, and cellular level experiments consistently supported the conclusion. This is the first study to confirm that a specific pathway is triggered by ELF-EMF exposure. PMID:25111195

Toxicity pathway-based mode of action modeling for risk assessment

EPA Science Inventory

In response to the 2007 NRC report on toxicity testing in the 21st century, the USEPA has entered into a memorandum of understanding with the National Human Genome Research Institute and the national Toxicology Program to jointly pursue ways to incorporate high throughput methods...

Genomic effects of androstenedione and sex-specific liver cancer susceptibility in mice

EPA Science Inventory

Current strategies for predicting carcinogenic mode of action for nongenotoxic chemicals are based on identification of early key events in toxicity pathways. The goal of this study was to evaluate short-term key event indicators resulting from exposure to androstenedione (A4), a...

The Influence of Hydration on Anaerobic Performance: A Review

ERIC Educational Resources Information Center

Kraft, Justin A.; Green, James M.; Bishop, Phillip A.; Richardson, Mark T.; Neggers, Yasmin H.; Leeper, James D.

2012-01-01

This review examines the influence of dehydration on muscular strength and endurance and on single and repeated anaerobic sprint bouts. Describing hydration effects on anaerobic performance is difficult because various exercise modes are dominated by anaerobic energy pathways, but still contain inherent physiological differences. The critical…

Decadal variability of extreme wave height representing storm severity in the northeast Atlantic and North Sea since the foundation of the Royal Society.

PubMed

Santo, H; Taylor, P H; Gibson, R

2016-09-01

Long-term estimation of extreme wave height remains a key challenge because of the short duration of available wave data, and also because of the possible impact of climate variability on ocean waves. Here, we analyse storm-based statistics to obtain estimates of extreme wave height at locations in the northeast Atlantic and North Sea using the NORA10 wave hindcast (1958-2011), and use a 5 year sliding window to examine temporal variability. The decadal variability is correlated to the North Atlantic oscillation and other atmospheric modes, using a six-term predictor model incorporating the climate indices and their Hilbert transforms. This allows reconstruction of the historic extreme climate back to 1661, using a combination of known and proxy climate indices. Significant decadal variability primarily driven by the North Atlantic oscillation is observed, and this should be considered for the long-term survivability of offshore structures and marine renewable energy devices. The analysis on wave climate reconstruction reveals that the variation of the mean, 99th percentile and extreme wave climates over decadal time scales for locations close to the dominant storm tracks in the open North Atlantic are comparable, whereas the wave climates for the rest of the locations including the North Sea are rather different.

Decadal variability of extreme wave height representing storm severity in the northeast Atlantic and North Sea since the foundation of the Royal Society

NASA Astrophysics Data System (ADS)

Santo, H.; Taylor, P. H.; Gibson, R.

2016-09-01

Long-term estimation of extreme wave height remains a key challenge because of the short duration of available wave data, and also because of the possible impact of climate variability on ocean waves. Here, we analyse storm-based statistics to obtain estimates of extreme wave height at locations in the northeast Atlantic and North Sea using the NORA10 wave hindcast (1958-2011), and use a 5 year sliding window to examine temporal variability. The decadal variability is correlated to the North Atlantic oscillation and other atmospheric modes, using a six-term predictor model incorporating the climate indices and their Hilbert transforms. This allows reconstruction of the historic extreme climate back to 1661, using a combination of known and proxy climate indices. Significant decadal variability primarily driven by the North Atlantic oscillation is observed, and this should be considered for the long-term survivability of offshore structures and marine renewable energy devices. The analysis on wave climate reconstruction reveals that the variation of the mean, 99th percentile and extreme wave climates over decadal time scales for locations close to the dominant storm tracks in the open North Atlantic are comparable, whereas the wave climates for the rest of the locations including the North Sea are rather different.

Bromothymol blue coated fiber optic Fabry-Perot interferometer for ammonia gas sensor

NASA Astrophysics Data System (ADS)

Pawar, Dnyandeo; Mane, S. A.; Kale, S. N.

2017-04-01

A single mode fiber is used in this study, in a Y-coupler mode; the mirror tip of which is coated with bromothymol blue (BTB), homogeneously mixed in polyvinyl alcohol (PVA) matrix. The setup operated at 1550 nm, and was used to sense extremely small quantities of ammonia gas, at room temperature. The sensor is able to detect ammonia in the range of 1.5 ppm to 150 ppm; with observed sensitivity in terms of wavelength shift of 0.7 nm. The sensor showed excellent reversibility with fast response and recovery time of the order of few seconds. The possible interaction of dye with ammonia was studied and compared with chloroform.

A proposal for antiparallel acceleration of positrons using CEBAF

NASA Astrophysics Data System (ADS)

Tiefenback, M.; Wojtsekhowski, B.

2018-05-01

We present a scheme for positron beam acceleration in CEBAF antiparallel to the normal electron path, requiring no change in polarity of the magnet systems. This feature is essential to the principal benefit: enabling extremely simple configuration changes between conventional (clockwise) e- acceleration and counter clockwise e+ acceleration. Additionally, it appears possible to configure the accelerating cavity phases to support concurrent acceleration of the electron and positron beams. The last mode also may enable use of the higher peak current electron beam for system diagnostics. The inherent penalty of the concurrent mode in acceleration efficiency and increased energy spread may render this a commissioning-only diagnostic option, but the possibility appears worthy of consideration.

Efficient channel-waveguide laser in Nd:GGG at 1.062 μm wavelength

NASA Astrophysics Data System (ADS)

Gerhardt, R.; Kleine-Börger, J.; Beilschmidt, L.; Frommeyer, M.; Dötsch, H.; Gather, B.

1999-08-01

Channel waveguide lasers in crystals of neodymium-doped gadolinium-gallium-garnet are realized. They are based on single-mode rib waveguides prepared by liquid phase epitaxy. By this growth technique the incorporation of certain impurities, which may cause severe quenching, is inevitable. The dominant quenching process could be identified and eliminated. Channel waveguides with extremely low losses, down to 0.25 dB/cm for both TE and TM modes, are fabricated by ion-beam etching. As a result, low thresholds of 5 mW and high slope efficiencies of 48% at the laser wavelength of 1.062 μm could be achieved when pumping at a wavelength of 807 nm.

A simple miniature device for wireless stimulation of neural circuits in small behaving animals.

PubMed

Zhang, Yisi; Langford, Bruce; Kozhevnikov, Alexay

2011-10-30

The use of wireless neural stimulation devices offers significant advantages for neural stimulation experiments in behaving animals. We demonstrate a simple, low-cost and extremely lightweight wireless neural stimulation device which is made from off-the-shelf components. The device has low power consumption and does not require a high-power RF preamplifier. Neural stimulation can be carried out in either a voltage source mode or a current source mode. Using the device, we carry out wireless stimulation in the premotor brain area HVC of a songbird and demonstrate that such stimulation causes rapid perturbations of the acoustic structure of the song. Published by Elsevier B.V.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Djavid, Mehrdad; Mi, Zetian, E-mail: zetian.mi@mcgill.ca

The performance of conventional AlGaN deep ultraviolet light emitting diodes has been limited by the extremely low light extraction efficiency (<10%), due to the unique transverse magnetic (TM) polarized light emission. Here, we show that, by exploiting the lateral side emission, the extraction efficiency of TM polarized light can be significantly enhanced in AlGaN nanowire structures. Using the three-dimensional finite-difference time domain simulation, we demonstrate that the nanowire structures can be designed to inhibit the emission of guided modes and redirect trapped light into radiated modes. A light extraction efficiency of more than 70% can, in principle, be achieved bymore » carefully optimizing the nanowire size, nanowire spacing, and p-GaN thickness.« less

The simultaneous generation of soliton bunches and Q-switched-like pulses in a partially mode-locked fiber laser with a graphene saturable absorber

NASA Astrophysics Data System (ADS)

Wang, Zhenhong; Wang, Zhi; Liu, Yan-ge; He, Ruijing; Wang, Guangdou; Yang, Guang; Han, Simeng

2018-05-01

We experimentally report the coexistence of soliton bunches and Q-switched-like pulses in a partially mode-locked fiber laser with a microfiber-based graphene saturable absorber. The soliton bunches, like isolated spikes with extreme amplitude and ultrashort duration, randomly generate in the background of the Q-switched-like pulses. The soliton bunches have some pulse envelopes in which pulses operate at a fundamental repetition rate in the temporal domain. Further investigation shows that the composite pulses are highly correlated with the noise-like pulses. Our work can make a further contribution to enrich the understanding of the nonlinear dynamics in fiber lasers.

Explorations Around "Graceful Failure" in Transportation Infrastructure: Lessons Learned By the Infrastructure and Climate Network (ICNet)

NASA Astrophysics Data System (ADS)

Jacobs, J. M.; Thomas, N.; Mo, W.; Kirshen, P. H.; Douglas, E. M.; Daniel, J.; Bell, E.; Friess, L.; Mallick, R.; Kartez, J.; Hayhoe, K.; Croope, S.

2014-12-01

Recent events have demonstrated that the United States' transportation infrastructure is highly vulnerable to extreme weather events which will likely increase in the future. In light of the 60% shortfall of the $900 billion investment needed over the next five years to maintain this aging infrastructure, hardening of all infrastructures is unlikely. Alternative strategies are needed to ensure that critical aspects of the transportation network are maintained during climate extremes. Preliminary concepts around multi-tier service expectations of bridges and roads with reference to network capacity will be presented. Drawing from recent flooding events across the U.S., specific examples for roads/pavement will be used to illustrate impacts, disruptions, and trade-offs between performance during events and subsequent damage. This talk will also address policy and cultural norms within the civil engineering practice that will likely challenge the application of graceful failure pathways during extreme events.

A systems biology approach uncovers cellular strategies used by Methylobacterium extorquens AM1 during the switch from multi- to single-carbon growth.

PubMed

Skovran, Elizabeth; Crowther, Gregory J; Guo, Xiaofeng; Yang, Song; Lidstrom, Mary E

2010-11-24

When organisms experience environmental change, how does their metabolic network reset and adapt to the new condition? Methylobacterium extorquens is a bacterium capable of growth on both multi- and single-carbon compounds. These different modes of growth utilize dramatically different central metabolic pathways with limited pathway overlap. This study focused on the mechanisms of metabolic adaptation occurring during the transition from succinate growth (predicted to be energy-limited) to methanol growth (predicted to be reducing-power-limited), analyzing changes in carbon flux, gene expression, metabolites and enzymatic activities over time. Initially, cells experienced metabolic imbalance with excretion of metabolites, changes in nucleotide levels and cessation of cell growth. Though assimilatory pathways were induced rapidly, a transient block in carbon flow to biomass synthesis occurred, and enzymatic assays suggested methylene tetrahydrofolate dehydrogenase as one control point. This "downstream priming" mechanism ensures that significant carbon flux through these pathways does not occur until they are fully induced, precluding the buildup of toxic intermediates. Most metabolites that are required for growth on both carbon sources did not change significantly, even though transcripts and enzymatic activities required for their production changed radically, underscoring the concept of metabolic setpoints. This multi-level approach has resulted in new insights into the metabolic strategies carried out to effect this shift between two dramatically different modes of growth and identified a number of potential flux control and regulatory check points as a further step toward understanding metabolic adaptation and the cellular strategies employed to maintain metabolic setpoints.

Hedgehog Is a Positive Regulator of FGF Signalling during Embryonic Tracheal Cell Migration

PubMed Central

Butí, Elisenda; Mesquita, Duarte; Araújo, Sofia J.

2014-01-01

Cell migration is a widespread and complex process that is crucial for morphogenesis and for the underlying invasion and metastasis of human cancers. During migration, cells are steered toward target sites by guidance molecules that induce cell direction and movement through complex intracellular mechanisms. The spatio-temporal regulation of the expression of these guidance molecules is of extreme importance for both normal morphogenesis and human disease. One way to achieve this precise regulation is by combinatorial inputs of different transcription factors. Here we used Drosophila melanogaster mutants with migration defects in the ganglionic branches of the tracheal system to further clarify guidance regulation during cell migration. By studying the cellular consequences of overactivated Hh signalling, using ptc mutants, we found that Hh positively regulates Bnl/FGF levels during embryonic stages. Our results show that Hh modulates cell migration non-autonomously in the tissues surrounding the action of its activity. We further demonstrate that the Hh signalling pathway regulates bnl expression via Stripe (Sr), a zinc-finger transcription factor with homology to the Early Growth Response (EGR) family of vertebrate transcription factors. We propose that Hh modulates embryonic cell migration by participating in the spatio-temporal regulation of bnl expression in a permissive mode. By doing so, we provide a molecular link between the activation of Hh signalling and increased chemotactic responses during cell migration. PMID:24651658

Hedgehog is a positive regulator of FGF signalling during embryonic tracheal cell migration.

PubMed

Butí, Elisenda; Mesquita, Duarte; Araújo, Sofia J

2014-01-01

Cell migration is a widespread and complex process that is crucial for morphogenesis and for the underlying invasion and metastasis of human cancers. During migration, cells are steered toward target sites by guidance molecules that induce cell direction and movement through complex intracellular mechanisms. The spatio-temporal regulation of the expression of these guidance molecules is of extreme importance for both normal morphogenesis and human disease. One way to achieve this precise regulation is by combinatorial inputs of different transcription factors. Here we used Drosophila melanogaster mutants with migration defects in the ganglionic branches of the tracheal system to further clarify guidance regulation during cell migration. By studying the cellular consequences of overactivated Hh signalling, using ptc mutants, we found that Hh positively regulates Bnl/FGF levels during embryonic stages. Our results show that Hh modulates cell migration non-autonomously in the tissues surrounding the action of its activity. We further demonstrate that the Hh signalling pathway regulates bnl expression via Stripe (Sr), a zinc-finger transcription factor with homology to the Early Growth Response (EGR) family of vertebrate transcription factors. We propose that Hh modulates embryonic cell migration by participating in the spatio-temporal regulation of bnl expression in a permissive mode. By doing so, we provide a molecular link between the activation of Hh signalling and increased chemotactic responses during cell migration.

When fast is better: protein folding fundamentals and mechanisms from ultrafast approaches

PubMed Central

Muñoz, Victor; Cerminara, Michele

2016-01-01

Protein folding research stalled for decades because conventional experiments indicated that proteins fold slowly and in single strokes, whereas theory predicted a complex interplay between dynamics and energetics resulting in myriad microscopic pathways. Ultrafast kinetic methods turned the field upside down by providing the means to probe fundamental aspects of folding, test theoretical predictions and benchmark simulations. Accordingly, experimentalists could measure the timescales for all relevant folding motions, determine the folding speed limit and confirm that folding barriers are entropic bottlenecks. Moreover, a catalogue of proteins that fold extremely fast (microseconds) could be identified. Such fast-folding proteins cross shallow free energy barriers or fold downhill, and thus unfold with minimal co-operativity (gradually). A new generation of thermodynamic methods has exploited this property to map folding landscapes, interaction networks and mechanisms at nearly atomic resolution. In parallel, modern molecular dynamics simulations have finally reached the timescales required to watch fast-folding proteins fold and unfold in silico. All of these findings have buttressed the fundamentals of protein folding predicted by theory, and are now offering the first glimpses at the underlying mechanisms. Fast folding appears to also have functional implications as recent results connect downhill folding with intrinsically disordered proteins, their complex binding modes and ability to moonlight. These connections suggest that the coupling between downhill (un)folding and binding enables such protein domains to operate analogically as conformational rheostats. PMID:27574021

Excitation of Alfvén modes by energetic particles in magnetic fusion

NASA Astrophysics Data System (ADS)

Gorelenkov, N. N.

2012-09-01

Ions with energies above the plasma ion temperature (also called super thermal, hot or energetic particles - EP) are utilized in laboratory experiments as a plasma heat source to compensate for energy loss. Sources for super thermal ions are direct injection via neutral beams, RF heating and fusion reactions. Being super thermal, ions have the potential to induce instabilities of a certain class of magnetohydrodynamics (MHD) cavity modes, in particular, various Alfvén and Alfvénacoustic Eigenmodes. It is an area where ideal MHD and kinetic theories can be tested with great accuracy. This paper touches upon key motivations to study the energetic ion interactions with MHD modes. One is the possibility of controlling the heating channel of present and future tokamak reactors via EP transport. In some extreme circumstances, uncontrolled instabilities led to vessel wall damages. This paper reviews some experimental and theoretical advances and the developments of the predictive tools in the area of EP wave interactions. Some recent important results and challenges are discussed. Many predicted instabilities pose a challenge for ITER, where the alpha-particle population is likely to excite various modes.

Infrared nano-sensor based on doubly splited optomechanical cavity

NASA Astrophysics Data System (ADS)

Zhang, Yeping; Ai, Jie; Xiang, Yanjun; Ma, Liehua; Li, Tao; Ma, Jingfang

2017-10-01

Optomechanical crystal (OMC) cavities are simultaneous have photonic and phononic bandgaps. The strong interaction between high co-localized optical mode and mechanical mode are excellent candidates for precision measurements due to their simplicity, sensitivity and all optical operation. Here, we investigate OMC nanobeam cavities in silicon operating at the near-infrared wavelengths to achieve high optomechanical coupling rate and ultra-small motion mass. Numerical simulation results show that the optical Q-factor reached to 1.2×105 , which possesses an optical mode resonating at the wavelength of 1181 nm and the extremely localized mechanical mode vibrating at 9.2GHz. Moreover, a novel type of doubly splited nanocavity tailored to sensitively measure torques and mass. In the nanomechanical resonator central hollow area suspended low-mass elements (<100fg) are sensitive to environmental stimulate. By changing the split width, an ultra-small effective motion mass of only 4fg with a mechanical frequency as high as 11.9GHz can be achieved, while the coupling rate up to 1.58MHz. Potential applications on these devices include sensing mass, acceleration, displacement, and magnetic probing the quantum properties of nanoscale systems.

Plasmon Modes of Graphene Nanoribbons with Periodic Planar Arrangements

NASA Astrophysics Data System (ADS)

Vacacela Gomez, C.; Pisarra, M.; Gravina, M.; Pitarke, J. M.; Sindona, A.

2016-09-01

Among their amazing properties, graphene and related low-dimensional materials show quantized charge-density fluctuations—known as plasmons—when exposed to photons or electrons of suitable energies. Graphene nanoribbons offer an enhanced tunability of these resonant modes, due to their geometrically controllable band gaps. The formidable effort made over recent years in developing graphene-based technologies is however weakened by a lack of predictive modeling approaches that draw upon available ab initio methods. An example of such a framework is presented here, focusing on narrow-width graphene nanoribbons, organized in periodic planar arrays. Time-dependent density-functional calculations reveal unprecedented plasmon modes of different nature at visible to infrared energies. Specifically, semimetallic (zigzag) nanoribbons display an intraband plasmon following the energy-momentum dispersion of a two-dimensional electron gas. Semiconducting (armchair) nanoribbons are instead characterized by two distinct intraband and interband plasmons, whose fascinating interplay is extremely responsive to either injection of charge carriers or increase in electronic temperature. These oscillations share some common trends with recent nanoinfrared imaging of confined edge and surface plasmon modes detected in graphene nanoribbons of 100-500 nm width.

Modeling extracellular electrical stimulation: I. Derivation and interpretation of neurite equations.

PubMed

Meffin, Hamish; Tahayori, Bahman; Grayden, David B; Burkitt, Anthony N

2012-12-01

Neuroprosthetic devices, such as cochlear and retinal implants, work by directly stimulating neurons with extracellular electrodes. This is commonly modeled using the cable equation with an applied extracellular voltage. In this paper a framework for modeling extracellular electrical stimulation is presented. To this end, a cylindrical neurite with confined extracellular space in the subthreshold regime is modeled in three-dimensional space. Through cylindrical harmonic expansion of Laplace's equation, we derive the spatio-temporal equations governing different modes of stimulation, referred to as longitudinal and transverse modes, under types of boundary conditions. The longitudinal mode is described by the well-known cable equation, however, the transverse modes are described by a novel ordinary differential equation. For the longitudinal mode, we find that different electrotonic length constants apply under the two different boundary conditions. Equations connecting current density to voltage boundary conditions are derived that are used to calculate the trans-impedance of the neurite-plus-thin-extracellular-sheath. A detailed explanation on depolarization mechanisms and the dominant current pathway under different modes of stimulation is provided. The analytic results derived here enable the estimation of a neurite's membrane potential under extracellular stimulation, hence bypassing the heavy computational cost of using numerical methods.

Tandem mass spectrometry characteristics of polyester anions and cations formed by electrospray ionization.

PubMed

Arnould, Mark A; Buehner, Rita W; Wesdemiotis, Chrys; Vargas, Rafael

2005-01-01

Electrospray ionization of polyesters composed of isophthalic acid and neopentyl glycol produces carboxylate anions in negative mode and mainly sodium ion adducts in positive mode. A tandem mass spectrometry (MS/MS) study of these ions in a quadrupole ion trap shows that the collisionally activated dissociation pathways of the anions are simpler than those of the corresponding cations. Charge-remote fragmentations predominate in both cases, but the spectra obtained in negative mode are devoid of the complicating cation exchange observed in positive mode. MS/MS of the Na(+) adducts gives rise to a greater number of fragments but not necessarily more structural information. In either positive or negative mode, polyester oligomers with different end groups fragment by similar mechanisms. The observed fragments are consistent with rearrangements initiated by the end groups. Single-stage ESI mass spectra also are more complex in positive mode because of extensive H/Na substitutions; this is also true for matrix-assisted laser desorption ionization (MALDI) mass spectra. Hence, formation and analysis of anions might be the method of choice for determining block length, end group structure and copolymer sequence, provided the polyester contains at least one carboxylic acid end group that is ionizable to anions.

Dissecting modes of action of non-genotoxic carcinogens in primary mouse hepatocytes.

PubMed

Schaap, Mirjam M; Zwart, Edwin P; Wackers, Paul F K; Huijskens, Ilse; van de Water, Bob; Breit, Timo M; van Steeg, Harry; Jonker, Martijs J; Luijten, Mirjam

2012-11-01

Under REACH, the European Community Regulation on chemicals, the testing strategy for carcinogenicity is based on in vitro and in vivo genotoxicity assays. Given that non-genotoxic carcinogens are negative for genotoxicity and chronic bioassays are no longer regularly performed, this class of carcinogens will go undetected. Therefore, test systems detecting non-genotoxic carcinogens, or even better their modes of action, are required. Here, we investigated whether gene expression profiling in primary hepatocytes can be used to distinguish different modes of action of non-genotoxic carcinogens. For this, primary mouse hepatocytes were exposed to 16 non-genotoxic carcinogens with diverse modes of action. Upon profiling, pathway analysis was performed to obtain insight into the biological relevance of the observed changes in gene expression. Subsequently, both a supervised and an unsupervised comparison approach were applied to recognize the modes of action at the transcriptomic level. These analyses resulted in the detection of three of eight compound classes, that is, peroxisome proliferators, metalloids and skin tumor promotors. In conclusion, gene expression profiles in primary hepatocytes, at least in rodent hepatocytes, appear to be useful to detect some, certainly not all, modes of action of non-genotoxic carcinogens.

Intricacies of hedgehog signaling pathways: A perspective in tumorigenesis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kar, Swayamsiddha; Deb, Moonmoon; Sengupta, Dipta

The hedgehog (HH) signaling pathway is a crucial negotiator of developmental proceedings in the embryo governing a diverse array of processes including cell proliferation, differentiation, and tissue patterning. The overall activity of the pathway is significantly curtailed after embryogenesis as well as in adults, yet it retains many of its functional capacities. However, aberration in HH signaling mediates the initiation, proliferation and continued sustenance of malignancy in different tissues to varying degrees through different mechanisms. In this review, we provide an overview of the role of constitutively active aberrant HH signaling pathway in different types of human cancer and themore » underlying molecular and genetic mechanisms that drive tumorigenesis in that particular tissue. An insight into the various modes of anomalous HH signaling in different organs will provide a comprehensive knowledge of the pathway in these tissues and open a window for individually tailored, tissue-specific therapeutic interventions. The synergistic cross talking of HH pathway with many other regulatory molecules and developmentally inclined signaling pathways may offer many avenues for pharmacological advances. Understanding the molecular basis of abnormal HH signaling in cancer will provide an opportunity to inhibit the deregulated pathway in many aggressive and therapeutically challenging cancers where promising options are not available.« less

Three-body dissociation of OCS3+: Separating sequential and concerted pathways

NASA Astrophysics Data System (ADS)

Kumar, Herendra; Bhatt, Pragya; Safvan, C. P.; Rajput, Jyoti

2018-02-01

Events from the sequential and concerted modes of the fragmentation of OCS3+ that result in coincident detection of fragments C+, O+, and S+ have been separated using a newly proposed representation. An ion beam of 1.8 MeV Xe9+ is used to make the triply charged molecular ion, with the fragments being detected by a recoil ion momentum spectrometer. By separating events belonging exclusively to the sequential mode of breakup, the electronic states of the intermediate molecular ion (CO2+ or CS2+) involved are determined, and from the kinetic energy release spectra, it is shown that the low lying excited states of the parent OCS3+ are responsible for this mechanism. An estimate of branching ratios of events coming from sequential versus concerted mode is presented.

A Call for Nominations of Quantitative High-Throughput ...

EPA Pesticide Factsheets

The National Research Council of the United States National Academies of Science has recently released a document outlining a long-range vision and strategy for transforming toxicity testing from largely whole animal-based testing to one based on in vitro assays. “Toxicity Testing in the 21st Century: A Vision and a Strategy” advises a focus on relevant human toxicity pathway assays. Toxicity pathways are defined in the document as “Cellular response pathways that, when sufficiently perturbed, are expected to result in adverse health effects”. Results of such pathway screens would serve as a filter to drive selection of more specific, targeted testing that will complement and validate the pathway assays. In response to this report, the US EPA has partnered with two NIH organizations, the National Toxicology Program and the NIH Chemical Genomics Center (NCGC), in a program named Tox21. A major goal of this collaboration is to screen chemical libraries consisting of known toxicants, chemicals of environmental and occupational exposure concern, and human pharmaceuticals in cell-based pathway assays. Currently, approximately 3000 compounds (increasing to 9000 by the end of 2009) are being validated and screened in quantitative high-throughput (qHTS) format at the NCGC producing extensive concentration-response data for a diverse set of potential toxicity pathways. The Tox21 collaboration is extremely interested in accessing additional toxicity pathway assa

REMO poor man's reanalysis

NASA Astrophysics Data System (ADS)

Ries, H.; Moseley, C.; Haensler, A.

2012-04-01

Reanalyses depict the state of the atmosphere as a best fit in space and time of many atmospheric observations in a physically consistent way. By essentially solving the data assimilation problem in a very accurate manner, reanalysis results can be used as reference for model evaluation procedures and as forcing data sets for different model applications. However, the spatial resolution of the most common and accepted reanalysis data sets (e.g. JRA25, ERA-Interim) ranges from approximately 124 km to 80 km. This resolution is too coarse to simulate certain small scale processes often associated with extreme events. In addition, many models need higher resolved forcing data ( e.g. land-surface models, tools for identifying and assessing hydrological extremes). Therefore we downscaled the ERA-Interim reanalysis over the EURO-CORDEX-Domain for the time period 1989 to 2008 to a horizontal resolution of approximately 12 km. The downscaling is performed by nudging REMO-simulations to lower and lateral boundary conditions of the reanalysis, and by re-initializing the model every 24 hours ("REMO in forecast mode"). In this study the three following questions will be addressed: 1.) Does the REMO poor man's reanalysis meet the needs (accuracy, extreme value distribution) in validation and forcing? 2.) What lessons can be learned about the model used for downscaling? As REMO is used as a pure downscaling procedure, any systematic deviations from ERA-Interim result from poor process modelling but not from predictability limitations. 3.) How much small scale information generated by the downscaling model is lost with frequent initializations? A comparison to a simulation that is performed in climate mode will be presented.

Diet-Induced Obesity and the Mechanism of Leptin Resistance.

PubMed

Engin, Atilla

2017-01-01

Leptin signaling blockade by chronic overstimulation of the leptin receptor or hypothalamic pro-inflammatory responses due to elevated levels of saturated fatty acid can induce leptin resistance by activating negative feedback pathways. Although, long form leptin receptor (Ob-Rb) initiates leptin signaling through more than seven different signal transduction pathways, excessive suppressor of cytokine signaling-3 (SOCS-3) activity is a potential mechanism for the leptin resistance that characterizes human obesity. Because the leptin-responsive metabolic pathways broadly integrate with other neurons to control energy balance, the methods used to counteract the leptin resistance has extremely limited effect. In this chapter, besides the impairment of central and peripheral leptin signaling pathways, limited access of leptin to central nervous system (CNS) through blood-brain barrier, mismatch between high leptin and the amount of leptin receptor expression, contradictory effects of cellular and circulating molecules on leptin signaling, the connection between leptin signaling and endoplasmic reticulum (ER) stress and self-regulation of leptin signaling has been discussed in terms of leptin resistance.

Use of genomic data in risk assessment case study: II. Evaluation of the dibutyl phthalate toxicogenomic data set

DOE Office of Scientific and Technical Information (OSTI.GOV)

Euling, Susan Y., E-mail: euling.susan@epa.gov; White, Lori D.; Kim, Andrea S.

An evaluation of the toxicogenomic data set for dibutyl phthalate (DBP) and male reproductive developmental effects was performed as part of a larger case study to test an approach for incorporating genomic data in risk assessment. The DBP toxicogenomic data set is composed of nine in vivo studies from the published literature that exposed rats to DBP during gestation and evaluated gene expression changes in testes or Wolffian ducts of male fetuses. The exercise focused on qualitative evaluation, based on a lack of available dose–response data, of the DBP toxicogenomic data set to postulate modes and mechanisms of action formore » the male reproductive developmental outcomes, which occur in the lower dose range. A weight-of-evidence evaluation was performed on the eight DBP toxicogenomic studies of the rat testis at the gene and pathway levels. The results showed relatively strong evidence of DBP-induced downregulation of genes in the steroidogenesis pathway and lipid/sterol/cholesterol transport pathway as well as effects on immediate early gene/growth/differentiation, transcription, peroxisome proliferator-activated receptor signaling and apoptosis pathways in the testis. Since two established modes of action (MOAs), reduced fetal testicular testosterone production and Insl3 gene expression, explain some but not all of the testis effects observed in rats after in utero DBP exposure, other MOAs are likely to be operative. A reanalysis of one DBP microarray study identified additional pathways within cell signaling, metabolism, hormone, disease, and cell adhesion biological processes. These putative new pathways may be associated with DBP effects on the testes that are currently unexplained. This case study on DBP identified data gaps and research needs for the use of toxicogenomic data in risk assessment. Furthermore, this study demonstrated an approach for evaluating toxicogenomic data in human health risk assessment that could be applied to future chemicals. - Highlights: ► We evaluate the dibutyl phthalate toxicogenomic data for use in risk assessment. ► We focus on information about the mechanism of action for the developing testis. ► Multiple studies report effects on testosterone and insl3-related pathways. ► We identify additional affected pathways that may explain some testis effects. ► The case study is a template for evaluating toxicogenomic data in risk assessment.« less

Dual binding in cohesin-dockerin complexes: the energy landscape and the role of short, terminal segments of the dockerin module.

PubMed

Wojciechowski, Michał; Różycki, Bartosz; Huy, Pham Dinh Quoc; Li, Mai Suan; Bayer, Edward A; Cieplak, Marek

2018-03-22

The assembly of the polysaccharide degradating cellulosome machinery is mediated by tight binding between cohesin and dockerin domains. We have used an empirical model known as FoldX as well as molecular mechanics methods to determine the free energy of binding between a cohesin and a dockerin from Clostridium thermocellum in two possible modes that differ by an approximately 180° rotation. Our studies suggest that the full-length wild-type complex exhibits dual binding at room temperature, i.e., the two modes of binding have comparable probabilities at equilibrium. The ability to bind in the two modes persists at elevated temperatures. However, single-point mutations or truncations of terminal segments in the dockerin result in shifting the equilibrium towards one of the binding modes. Our molecular dynamics simulations of mechanical stretching of the full-length wild-type cohesin-dockerin complex indicate that each mode of binding leads to two kinds of stretching pathways, which may be mistakenly taken as evidence of dual binding.

Projections of West African summer monsoon rainfall extremes from two CORDEX models

NASA Astrophysics Data System (ADS)

Akinsanola, A. A.; Zhou, Wen

2018-05-01

Global warming has a profound impact on the vulnerable environment of West Africa; hence, robust climate projection, especially of rainfall extremes, is quite important. Based on two representative concentration pathway (RCP) scenarios, projected changes in extreme summer rainfall events over West Africa were investigated using data from the Coordinated Regional Climate Downscaling Experiment models. Eight (8) extreme rainfall indices (CDD, CWD, r10mm, r20mm, PRCPTOT, R95pTOT, rx5day, and sdii) defined by the Expert Team on Climate Change Detection and Indices were used in the study. The performance of the regional climate model (RCM) simulations was validated by comparing with GPCP and TRMM observation data sets. Results show that the RCMs reasonably reproduced the observed pattern of extreme rainfall over the region and further added significant value to the driven GCMs over some grids. Compared to the baseline period 1976-2005, future changes (2070-2099) in summer rainfall extremes under the RCP4.5 and RCP8.5 scenarios show statistically significant decreasing total rainfall (PRCPTOT), while consecutive dry days and extreme rainfall events (R95pTOT) are projected to increase significantly. There are obvious indications that simple rainfall intensity (sdii) will increase in the future. This does not amount to an increase in total rainfall but suggests a likelihood of greater intensity of rainfall events. Overall, our results project that West Africa may suffer more natural disasters such as droughts and floods in the future.

Characteristics of atmospheric circulation patterns associated with extreme temperatures over North America in observations and climate models

NASA Astrophysics Data System (ADS)

Loikith, Paul C.

Motivated by a desire to understand the physical mechanisms involved in future anthropogenic changes in extreme temperature events, the key atmospheric circulation patterns associated with extreme daily temperatures over North America in the current climate are identified. Several novel metrics are used to systematically identify and describe these patterns for the entire continent. The orientation, physical characteristics, and spatial scale of these circulation patterns vary based on latitude, season, and proximity to important geographic features (i.e., mountains, coastlines). The anomaly patterns associated with extreme cold events tend to be similar to, but opposite in sign of, those associated with extreme warm events, especially within the westerlies, and tend to scale with temperature in the same locations. The influence of the Pacific North American (PNA) pattern, the Northern Annular Mode (NAM), and the El Niño-Southern Oscillation (ENSO) on extreme temperature days and months shows that associations between extreme temperatures and the PNA and NAM are stronger than associations with ENSO. In general, the association with extremes tends to be stronger on monthly than daily time scales. Extreme temperatures are associated with the PNA and NAM in locations typically influenced by these circulation patterns; however many extremes still occur on days when the amplitude and polarity of these patterns do not favor their occurrence. In winter, synoptic-scale, transient weather disturbances are important drivers of extreme temperature days; however these smaller-scale events are often concurrent with amplified PNA or NAM patterns. Associations are weaker in summer when other physical mechanisms affecting the surface energy balance, such as anomalous soil moisture content, are associated with extreme temperatures. Analysis of historical runs from seventeen climate models from the CMIP5 database suggests that most models simulate realistic circulation patterns associated with extreme temperature days in most places. Model-simulated patterns tend to resemble observed patterns better in the winter than the summer and at 500 hPa than at the surface. There is substantial variability among the suite of models analyzed and most models simulate circulation patterns more realistically away from influential features such as large bodies of water and complex topography.

The Influence of the Madden-Julian Oscillation (mjo) on Extreme Rainfall Over the Central and Southern Peruvian Andes

NASA Astrophysics Data System (ADS)

Heidinger, H.; Jones, C.; Carvalho, L. V.

2015-12-01

Extreme rainfall is important for the Andean region because of the large contribution of these events to the seasonal totals and consequent impacts on water resources for agriculture, water consumption, industry and hydropower generation, as well as the occurrence of floods and landslides. Over Central and Southern Peruvian Andes (CSPA), rainfall exceeding the 90th percentile contributed between 44 to 100% to the total Nov-Mar 1979-2010 rainfall. Additionally, precipitation from a large majority of stations in the CSPA exhibits statistically significant spectral peaks on intraseasonal time-scales (20 to 70 days). The Madden-Julian Oscillation (MJO) is the most important intraseasonal mode of atmospheric circulation and moist convection in the tropics and the occurrence of extreme weather events worldwide. Mechanisms explaining the relationships between the MJO and precipitation in the Peruvian Andes have not been properly described yet. The present study examines the relationships between the activity and phases of the MJO and the occurrence of extreme rainfall over the CSPA. We found that the frequency of extreme rainfall events increase in the CSPA when the MJO is active. MJO phases 5, 6 and 7 contribute to the overall occurrence of extreme rainfall events over the CSPA. However, how the MJO phases modulate extreme rainfall depends on the location of the stations. For instance, extreme precipitation (above the 90th percentile) in stations in the Amazon basin are slightly more sensitive to phases 2, 3 and 4; the frequency of extremes in stations in the Pacific basin increases in phases 5, 6 and 7 whereas phase 2, 3 and 7 modulates extreme precipitation in stations in the Titicaca basin. Greater variability among stations is observed when using the 95th and 99th percentiles to identify extremes. Among the main mechanisms that explain the increase in extreme rainfall events in the Peruvian Andes is the intensification of the easterly moisture flux anomalies, which are favored during certain phases of the MJO. Here dynamical mechanisms linking the MJO to the occurrence of extreme rainfall in stations in the Peruvian Andes are investigated using composites of integrated moisture flux and geopotential height anomalies.

Changes to extreme wave climates of islands within the Western Tropical Pacific throughout the 21st century under RCP 4.5 and RCP 8.5, with implications for island vulnerability and sustainability

USGS Publications Warehouse

Shope, James B.; Storlazzi, Curt; Erikson, Li; Hegermiller, Christie

2016-01-01

Waves are the dominant influence on coastal morphology and ecosystem structure of tropical Pacific islands. Wave heights, periods, and directions for the 21st century were projected using near-surface wind fields from four atmosphere-ocean coupled global climate models (GCM) under representative concentration pathways (RCP) 4.5 and 8.5. GCM-derived wind fields forced the global WAVEWATCH-III wave model to generate hourly time-series of bulk wave parameters around 25 islands in the mid to western tropical Pacific Ocean for historical (1976–2005), mid-, and end-of-century time periods. Extreme significant wave heights decreased (~10.0%) throughout the 21st century under both climate scenarios compared to historical wave conditions and the higher radiative forcing 8.5 scenario displayed a greater and more widespread decrease in extreme significant wave heights compared to the lower forcing 4.5 scenario. An exception was for the end-of-century June–August season. Offshore of islands in the central equatorial Pacific, extreme significant wave heights displayed the largest changes from historical values. The frequency of extreme events during December–February decreased under RCP 8.5, whereas the frequency increased under RCP 4.5. Mean wave directions often rotated more than 30° clockwise at several locations during June–August, which could indicate a weakening of the trade winds’ influence on extreme wave directions and increasing dominance of Southern Ocean swell or eastern shift of storm tracks. The projected changes in extreme wave heights, directions of extreme events, and frequencies at which extreme events occur will likely result in changes to the morphology and sustainability of island nations.

Nonstationarity in timing of extreme precipitation across China and impact of tropical cyclones

NASA Astrophysics Data System (ADS)

Gu, Xihui; Zhang, Qiang; Singh, Vijay P.; Shi, Peijun

2017-02-01

This study examines the seasonality and nonstationarity in the timing of extreme precipitation obtained by annual maximum (AM) sampling and peak-over-threshold (POT) sampling techniques using circular statistics. Daily precipitation data from 728 stations with record length of at least 55 years across China were analyzed. In general, the average seasonality is subject mainly to summer season (June-July - August), which is potentially related to East Asian monsoon and Indian monsoon activities. The strength of precipitation seasonality varied across China with the highest strength being in northeast, north, and central-north China; whereas the weakest seasonality was found in southeast China. There are three seasonality types: circular uniform, reflective symmetric, and asymmetric. However, the circular uniform seasonality of extreme precipitation was not detected at stations across China. The asymmetric distribution was observed mainly in southeast China, and the reflective distribution of precipitation extremes was also identified the other regions besides the above-mentioned regions. Furthermore, a strong signal of nonstationarity in the seasonality was detected at half of the weather stations considered in the study, exhibiting a significant shift in the timing of extreme precipitation, and also significant trends in the average and strength of seasonality. Seasonal vapor flux and related delivery pathways and also tropical cyclones (TCs) are most probably the driving factors for the shifts or changes in the seasonality of extreme precipitation across China. Timing of precipitation extremes is closely related to seasonal shifts of floods and droughts and which means much for management of agricultural irrigation and water resources management. This study sheds new light on nonstationarity in timing of precipitation extremes which differs from existing ones which focused on precipitation extremes from perspective of magnitude and intensity.

Impact of Chemical Proportions on the Acute Neurotoxicity of a Mixture of Seven Carbamates in Rats

EPA Science Inventory

Environmental exposures generally involve multiple chemicals and pathways, and statistical methodologies now exist to evaluate interactions among any number of chemicals in defined mixtures. N-methyl carbamate pesticides are presumed to act through a common mode of action, that i...

The Challenges of Online Learning Supporting and Engaging the Isolated Learner

ERIC Educational Resources Information Center

Gillett-Swan, Jenna

2017-01-01

Higher education providers are becoming increasingly aware of the diversity of their current and potential learners and are moving to provide a range of options for their engagement. The increasingly flexible delivery modes available for university students provide multiple pathways and opportunities for those seeking further education. In…

Bioassays for Evaluating Water Quality: Screening for total bioactivity to assess water safety

EPA Science Inventory

Bioassays are a potential solution for assessing complex samples since they screen for total bioactivity for a given pathway or mode of action (MOA), such as estrogen receptor activation, in the samples. Overall, they can account for the three challenges listed above, and can sim...

Additive effects on the androgen signaling pathway by chemicals with different modes of action-COW2015

EPA Science Inventory

Risk assessments have traditionally been developed on a chemical-by-chemical basis. However, regulatory agencies recently have been considering cumulative effects of chemicals that act via a common mechanism of toxicity. Here we present data on several mixture studies of chemic...

ICT Proficiency and Gender: A Validation on Training and Development

ERIC Educational Resources Information Center

Lin, Shinyi; Shih, Tse-Hua; Lu, Ruiling

2013-01-01

Use of innovative learning/instruction mode, embedded in the Certification Pathway System (CPS) developed by Certiport TM, is geared toward Internet and Computing Benchmark & Mentor specifically for IC[superscript 3] certification. The Internet and Computing Core Certification (IC[superscript 3]), as an industry-based credentialing program,…