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Sample records for optimal cytoplasmic transport

  1. Optimal cytoplasmic transport in viral infections.

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    Maria R D'Orsogna

    Full Text Available For many viruses, the ability to infect eukaryotic cells depends on their transport through the cytoplasm and across the nuclear membrane of the host cell. During this journey, viral contents are biochemically processed into complexes capable of both nuclear penetration and genomic integration. We develop a stochastic model of viral entry that incorporates all relevant aspects of transport, including convection along microtubules, biochemical conversion, degradation, and nuclear entry. Analysis of the nuclear infection probabilities in terms of the transport velocity, degradation, and biochemical conversion rates shows how certain values of key parameters can maximize the nuclear entry probability of the viral material. The existence of such "optimal" infection scenarios depends on the details of the biochemical conversion process and implies potentially counterintuitive effects in viral infection, suggesting new avenues for antiviral treatment. Such optimal parameter values provide a plausible transport-based explanation of the action of restriction factors and of experimentally observed optimal capsid stability. Finally, we propose a new interpretation of how genetic mutations unrelated to the mechanism of drug action may nonetheless confer novel types of overall drug resistance.

  2. Cytoplasmic permeation pathway of neurotransmitter transporters.

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    Rudnick, Gary

    2011-09-06

    Ion-coupled solute transporters are responsible for transporting nutrients, ions, and signaling molecules across a variety of biological membranes. Recent high-resolution crystal structures of several transporters from protein families that were previously thought to be unrelated show common structural features indicating a large structural family representing transporters from all kingdoms of life. This review describes studies that led to an understanding of the conformational changes required for solute transport in this family. The first structure in this family showed the bacterial amino acid transporter LeuT, which is homologous to neurotransmitter transporters, in an extracellularly oriented conformation with a molecule of leucine occluded at the substrate site. Studies with the mammalian serotonin transporter identified positions, buried in the LeuT structure, that defined a potential pathway leading from the cytoplasm to the substrate binding site. Modeling studies utilized an inverted structural repeat within the LeuT crystal structure to predict the conformation of LeuT in which the cytoplasmic permeation pathway, consisting of positions identified in SERT, was open for diffusion of the substrate to the cytoplasm. From the difference between the model and the crystal structures, a simple "rocking bundle" mechanism was proposed, in which a four-helix bundle changed its orientation with respect to the rest of the protein to close the extracellular pathway and open the cytoplasmic one. Subsequent crystal structures from structurally related proteins provide evidence supporting this model for transport.

  3. Optimal transport

    CERN Document Server

    Eckmann, B

    2008-01-01

    At the close of the 1980s, the independent contributions of Yann Brenier, Mike Cullen and John Mather launched a revolution in the venerable field of optimal transport founded by G Monge in the 18th century, which has made breathtaking forays into various other domains of mathematics ever since. The author presents a broad overview of this area.

  4. Nucleo-cytoplasmic transport of proteins and RNA in plants.

    Science.gov (United States)

    Merkle, Thomas

    2011-02-01

    Transport of macromolecules between the nucleus and the cytoplasm is an essential necessity in eukaryotic cells, since the nuclear envelope separates transcription from translation. In the past few years, an increasing number of components of the plant nuclear transport machinery have been characterised. This progress, although far from being completed, confirmed that the general characteristics of nuclear transport are conserved between plants and other organisms. However, plant-specific components were also identified. Interestingly, several mutants in genes encoding components of the plant nuclear transport machinery were investigated, revealing differential sensitivity of plant-specific pathways to impaired nuclear transport. These findings attracted attention towards plant-specific cargoes that are transported over the nuclear envelope, unravelling connections between nuclear transport and components of signalling and developmental pathways. The current state of research in plants is summarised in comparison to yeast and vertebrate systems, and special emphasis is given to plant nuclear transport mutants.

  5. A stochastic model for microtubule motors describes the in vivo cytoplasmic transport of human adenovirus.

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    Mattia Gazzola

    2009-12-01

    Full Text Available Cytoplasmic transport of organelles, nucleic acids and proteins on microtubules is usually bidirectional with dynein and kinesin motors mediating the delivery of cargoes in the cytoplasm. Here we combine live cell microscopy, single virus tracking and trajectory segmentation to systematically identify the parameters of a stochastic computational model of cargo transport by molecular motors on microtubules. The model parameters are identified using an evolutionary optimization algorithm to minimize the Kullback-Leibler divergence between the in silico and the in vivo run length and velocity distributions of the viruses on microtubules. The present stochastic model suggests that bidirectional transport of human adenoviruses can be explained without explicit motor coordination. The model enables the prediction of the number of motors active on the viral cargo during microtubule-dependent motions as well as the number of motor binding sites, with the protein hexon as the binding site for the motors.

  6. A stochastic model for microtubule motors describes the in vivo cytoplasmic transport of human adenovirus.

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    Gazzola, Mattia; Burckhardt, Christoph J; Bayati, Basil; Engelke, Martin; Greber, Urs F; Koumoutsakos, Petros

    2009-12-01

    Cytoplasmic transport of organelles, nucleic acids and proteins on microtubules is usually bidirectional with dynein and kinesin motors mediating the delivery of cargoes in the cytoplasm. Here we combine live cell microscopy, single virus tracking and trajectory segmentation to systematically identify the parameters of a stochastic computational model of cargo transport by molecular motors on microtubules. The model parameters are identified using an evolutionary optimization algorithm to minimize the Kullback-Leibler divergence between the in silico and the in vivo run length and velocity distributions of the viruses on microtubules. The present stochastic model suggests that bidirectional transport of human adenoviruses can be explained without explicit motor coordination. The model enables the prediction of the number of motors active on the viral cargo during microtubule-dependent motions as well as the number of motor binding sites, with the protein hexon as the binding site for the motors.

  7. Towards Optimal Transport Networks

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    Erik P. Vargo

    2010-08-01

    Full Text Available Our ultimate goal is to design transportation net- works whose dynamic performance metrics (e.g. pas- senger throughput, passenger delay, and insensitivity to weather disturbances are optimized. Here the fo- cus is on optimizing static features of the network that are known to directly affect the network dynamics. First, we present simulation results which support a connection between maximizing the first non-trivial eigenvalue of a network's Laplacian and superior air- port network performance. Then, we explore the ef- fectiveness of a tabu search heuristic for optimizing this metric by comparing experimental results to the- oretical upper bounds. We also consider generating upper bounds on a network's algebraic connectivity via the solution of semidefinite programming (SDP relaxations. A modification of an existing subgraph extraction algorithm is implemented to explore the underlying regional structures in the U.S. airport net- work, with the hope that the resulting localized struc- tures can be optimized independently and reconnected via a "backbone" network to achieve superior network performance.

  8. Cargo transport by cytoplasmic Dynein can center embryonic centrosomes.

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    Rafael A Longoria

    Full Text Available To complete meiosis II in animal cells, the male DNA material needs to meet the female DNA material contained in the female pronucleus at the egg center, but it is not known how the male pronucleus, deposited by the sperm at the periphery of the cell, finds the cell center in large eggs. Pronucleus centering is an active process that appears to involve microtubules and molecular motors. For small and medium-sized cells, the force required to move the centrosome can arise from either microtubule pushing on the cortex, or cortically-attached dynein pulling on microtubules. However, in large cells, such as the fertilized Xenopus laevis embryo, where microtubules are too long to support pushing forces or they do not reach all boundaries before centrosome centering begins, a different force generating mechanism must exist. Here, we present a centrosome positioning model in which the cytosolic drag experienced by cargoes hauled by cytoplasmic dynein on the sperm aster microtubules can move the centrosome towards the cell's center. We find that small, fast cargoes (diameter ∼100 nm, cargo velocity ∼2 µm/s are sufficient to move the centrosome in the geometry of the Xenopus laevis embryo within the experimentally observed length and time scales.

  9. Perturbation of nucleo-cytoplasmic transport affects size of nucleus and nucleolus in human cells.

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    Ganguly, Abira; Bhattacharjee, Chumki; Bhave, Madhura; Kailaje, Vaishali; Jain, Bhawik K; Sengupta, Isha; Rangarajan, Annapoorni; Bhattacharyya, Dibyendu

    2016-03-01

    Size regulation of human cell nucleus and nucleolus are poorly understood subjects. 3D reconstruction of live image shows that the karyoplasmic ratio (KR) increases by 30-80% in transformed cell lines compared to their immortalized counterpart. The attenuation of nucleo-cytoplasmic transport causes the KR value to increase by 30-50% in immortalized cell lines. Nucleolus volumes are significantly increased in transformed cell lines and the attenuation of nucleo-cytoplasmic transport causes a significant increase in the nucleolus volume of immortalized cell lines. A cytosol and nuclear fraction swapping experiment emphasizes the potential role of unknown cytosolic factors in nuclear and nucleolar size regulation.

  10. Optimization techniques for Transportation Problems

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    Gauthaman.P

    2017-06-01

    Full Text Available This paper infers about optimization technique for various problems in transportation engineering. While for pavement engineering, maintenance is priority issue, for traffic it is signalling which is priority issue. Many optimization methods are discussed though given importance of genetic algorithm approach. While optimization techniques nearly approach practicality, research works are on for modern optimization techniques which not only adds ease of structure but also provide compatibility to modern day problems encountered in transportation engineering. Some of the modern tools are discussed to employ optimization techniques which are quite simple to use and implement once it is calibrated to the desired objective.

  11. Transport of the outer dynein arm complex to cilia requires a cytoplasmic protein Lrrc6.

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    Inaba, Yasuko; Shinohara, Kyosuke; Botilde, Yanick; Nabeshima, Ryo; Takaoka, Katsuyoshi; Ajima, Rieko; Lamri, Lynda; Takeda, Hiroyuki; Saga, Yumiko; Nakamura, Tetsuya; Hamada, Hiroshi

    2016-07-01

    Lrrc6 encodes a cytoplasmic protein that is expressed specifically in cells with motile cilia including the node, trachea and testes of the mice. A mutation of Lrrc6 has been identified in human patients with primary ciliary dyskinesia (PCD). Mutant mice lacking Lrrc6 show typical PCD defects such as hydrocephalus and laterality defects. We found that in the absence of Lrrc6, the morphology of motile cilia remained normal, but their motility was completely lost. The 9 + 2 arrangement of microtubules remained normal in Lrrc6(-/-) mice, but the outer dynein arms (ODAs), the structures essential for the ciliary beating, were absent from the cilia. In the absence of Lrrc6, ODA proteins such as DNAH5, DNAH9 and IC2, which are assembled in the cytoplasm and transported to the ciliary axoneme, remained in the cytoplasm and were not transported to the ciliary axoneme. The IC2-IC1 interaction, which is the first step of ODA assembly, was normal in Lrrc6(-/-) mice testes. Our results suggest that ODA proteins may be transported from the cytoplasm to the cilia by an Lrrc6-dependent mechanism.

  12. Cell cycle-dependent microtubule-based dynamic transport of cytoplasmic dynein in mammalian cells.

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    Takuya Kobayashi

    Full Text Available BACKGROUND: Cytoplasmic dynein complex is a large multi-subunit microtubule (MT-associated molecular motor involved in various cellular functions including organelle positioning, vesicle transport and cell division. However, regulatory mechanism of the cell-cycle dependent distribution of dynein has not fully been understood. METHODOLOGY/PRINCIPAL FINDINGS: Here we report live-cell imaging of cytoplasmic dynein in HeLa cells, by expressing multifunctional green fluorescent protein (mfGFP-tagged 74-kDa intermediate chain (IC74. IC74-mfGFP was successfully incorporated into functional dynein complex. In interphase, dynein moved bi-directionally along with MTs, which might carry cargos such as transport vesicles. A substantial fraction of dynein moved toward cell periphery together with EB1, a member of MT plus end-tracking proteins (+TIPs, suggesting +TIPs-mediated transport of dynein. In late-interphase and prophase, dynein was localized at the centrosomes and the radial MT array. In prometaphase and metaphase, dynein was localized at spindle MTs where it frequently moved from spindle poles toward chromosomes or cell cortex. +TIPs may be involved in the transport of spindle dyneins. Possible kinetochore and cortical dyneins were also observed. CONCLUSIONS AND SIGNIFICANCE: These findings suggest that cytoplasmic dynein is transported to the site of action in preparation for the following cellular events, primarily by the MT-based transport. The MT-based transport may have greater advantage than simple diffusion of soluble dynein in rapid and efficient transport of the limited concentration of the protein.

  13. Optimal transport and the placenta

    Energy Technology Data Exchange (ETDEWEB)

    Morgan, Simon [Los Alamos National Laboratory; Xia, Qinglan [NON LANL; Salafia, Carolym [NON LANL

    2010-01-01

    The goal of this paper is to investigate the expected effects of (i) placental size, (ii) placental shape and (iii) the position of insertion of the umbilical cord on the work done by the foetus heart in pumping blood across the placenta. We use optimal transport theory and modeling to quantify the expected effects of these factors . Total transport cost and the shape factor contribution to cost are given by the optimal transport model. Total placental transport cost is highly correlated with birth weight, placenta weight, FPR and the metabolic scaling factor beta. The shape factor is also highly correlated with birth weight, and after adjustment for placental weight, is highly correlated with the metabolic scaling factor beta.

  14. [Age-dependent changes in mRNA transport (nucleus-cytoplasm)].

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    Müller, W E; Agutter, P S; Prochnow, D J; Fasold, H; Sève, A P; Tsiapalis, C M; Schröder, H C

    1993-01-01

    Transport of mRNA from nucleus to cytoplasm is an ATP-dependent process which occurs strictly vectorially. Because the mRNA is structurally bound during transport, mRNA transport is a "solid-state" process consisting of i) mRNA release from the nuclear matrix, ii) mRNA translocation through the nuclear pore, and iii) cytoskeletal binding. We identified and purified the following components involved in the translocation step: i) the nuclear envelope (NE) nucleoside triphosphatase (NTPase) which is stimulated by the 3'poly(A) tail of mRNA, ii) the poly(A)-recognizing mRNA carrier, iii) the NE protein kinase, and iv) the NE phosphatase. In addition, we found that an RNA helicase activity is present in NE, which also may be involved in RNA transport. Our results show that, besides poly(A), also double-stranded RNA structures may modulate RNA export. The amount of mRNA released from nuclei markedly decreases with age. Evidence is presented that this age-dependent change is caused by an impairment of polyadenylation of mRNA, hnRNA processing, release of mRNA from nuclear matrix, and translocations of mRNA from nuclear to cytoplasmic compartment (decrease in activities of NE NTPase, protein kinase, and phosphatase; decrease in poly(A)-binding affinity of mRNA carrier).

  15. Transport optimization on complex networks

    CERN Document Server

    Danila, Bogdan; Marsh, John A; Bassler, Kevin E

    2007-01-01

    We present a comparative study of the application of a recently introduced heuristic algorithm to the optimization of transport on three major types of complex networks. The algorithm balances network traffic iteratively by minimizing the maximum node betweenness with as little path lengthening as possible. We show that by using this optimal routing, a network can sustain significantly higher traffic without jamming than in the case of shortest path routing. A formula is proved that allows quick computation of the average number of hops along the path and of the average travel times once the betweennesses of the nodes are computed. Using this formula, we show that routing optimization preserves the small-world character exhibited by networks under shortest path routing, and that it significantly reduces the average travel time on congested networks with only a negligible increase in the average travel time at low loads. Finally, we study the correlation between the weights of the links in the case of optimal ...

  16. Models for solid-state transport: messenger RNA movement from nucleus to cytoplasm.

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    Agutter, P S

    1994-09-01

    This paper explores the idea that mRNAs are transported between their transcription and processing sites in the nucleus, and their translation and degradation sites in the cytoplasm, by a 'solid-state' process. The underlying assumption is that negligible quantities of mRNA and of mRNA precursors are in solution in vivo. Therefore, mRNA transport cannot be considered as movement in the aqueous phase of the cell. The main lines of experimental evidence supporting this 'solid-state' concept are summarized and related controversies are outlined. Three possible models for a solid-state transport mechanism are discussed: a direct transfer model, with receptors organized analogously to the components of a multienzyme complex; a motor-driven model, analogous to synaptic vesicle transport in axons; and an assembly-driven model which assumes net movement along a fibril resulting from differential activities at the poles. Qualitative evaluation indicates that each of these models has characteristic advantages and disadvantages. The possibility that other nucleocytoplasmic transport processes might operate by solid-state mechanisms is briefly discussed.

  17. Wall to Wall Optimal Transport

    CERN Document Server

    Hassanzadeh, Pedram; Doering, Charles R

    2013-01-01

    The calculus of variations is employed to find steady divergence-free velocity fields that maximize transport of a tracer between two parallel walls held at fixed concentration for one of two constraints on flow strength: a fixed value of the kinetic energy or a fixed value of the enstrophy. The optimizing flows consist of an array of (convection) cells of a particular aspect ratio Gamma. We solve the nonlinear Euler-Lagrange equations analytically for weak flows and numerically (and via matched asymptotic analysis in the fixed energy case) for strong flows. We report the results in terms of the Nusselt number Nu, a dimensionless measure of the tracer transport, as a function of the Peclet number Pe, a dimensionless measure of the energy or enstrophy of the flow. For both constraints the maximum transport Nu_{MAX}(Pe) is realized in cells of decreasing aspect ratio Gamma_{opt}(Pe) as Pe increases. For the fixed energy problem, Nu_{MAX} \\sim Pe and Gamma_{opt} \\sim Pe^{-1/2}, while for the fixed enstrophy scen...

  18. Importance of mammalian nuclear-envelope nucleoside triphosphatase in nucleo-cytoplasmic transport of ribonucleoproteins.

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    Agutter, P S; McCaldin, B; McArdle, H J

    1979-09-15

    The nucleoside triphosphate-stimulated efflux of RNA from isolated nuclei was studied under a range of conditions, and the effects of these conditions on the process were compared with the properties of the nucleoside triphosphatase located in the pore complex. A marked similarity between the rate of efflux and the rate of nucleoside triphosphate hydrolysis was apparent, in terms of substrate specificity, sensitivity to treatment with insolubilized trypsin, kinetics and the effects of increased ionic strength and of many inhibitors. These results are taken, in view of earlier evidence, to suggest that the activity of the nucleoside triphosphatase is a prerequisite for nucleo-cytoplasmic RNA transport in vivo. There are some indications that the nuclear-envelope lipid is also involved in regulating the efflux process.

  19. An ABC transporter B family protein, ABCB19, is required for cytoplasmic streaming and gravitropism of the inflorescence stems.

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    Okamoto, Keishi; Ueda, Haruko; Shimada, Tomoo; Tamura, Kentaro; Koumoto, Yasuko; Tasaka, Masao; Morita, Miyo Terao; Hara-Nishimura, Ikuko

    2016-01-01

    A significant feature of plant cells is the extensive motility of organelles and the cytosol, which was originally defined as cytoplasmic streaming. We suggested previously that a three-way interaction between plant-specific motor proteins myosin XIs, actin filaments, and the endoplasmic reticulum (ER) was responsible for cytoplasmic streaming. (1) Currently, however, there are no reports of molecular components for cytoplasmic streaming other than the actin-myosin-cytoskeleton and ER-related proteins. In the present study, we found that elongated cells of inflorescence stems of Arabidopsis thaliana exhibit vigorous cytoplasmic streaming. Statistical analysis showed that the maximal velocity of plastid movements is 7.26 µm/s, which is much faster than the previously reported velocities of organelles. Surprisingly, the maximal velocity of streaming in the inflorescence stem cells was significantly reduced to 1.11 µm/s in an Arabidopsis mutant, abcb19-101, which lacks ATP BINDING CASSETTE SUBFAMILY B19 (ABCB19) that mediates the polar transport of the phytohormone auxin together with PIN-FORMED (PIN) proteins. Polar auxin transport establishes the auxin concentration gradient essential for plant development and tropisms. Deficiency of ABCB19 activity eventually caused enhanced gravitropic responses of the inflorescence stems and abnormally flexed inflorescence stems. These results suggest that ABCB19-mediated auxin transport plays a role not only in tropism regulation, but also in cytoplasmic streaming.

  20. Coulomb interactions between cytoplasmic electric fields and phosphorylated messenger proteins optimize information flow in cells.

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    Robert A Gatenby

    Full Text Available BACKGROUND: Normal cell function requires timely and accurate transmission of information from receptors on the cell membrane (CM to the nucleus. Movement of messenger proteins in the cytoplasm is thought to be dependent on random walk. However, Brownian motion will disperse messenger proteins throughout the cytosol resulting in slow and highly variable transit times. We propose that a critical component of information transfer is an intracellular electric field generated by distribution of charge on the nuclear membrane (NM. While the latter has been demonstrated experimentally for decades, the role of the consequent electric field has been assumed to be minimal due to a Debye length of about 1 nanometer that results from screening by intracellular Cl- and K+. We propose inclusion of these inorganic ions in the Debye-Huckel equation is incorrect because nuclear pores allow transit through the membrane at a rate far faster than the time to thermodynamic equilibrium. In our model, only the charged, mobile messenger proteins contribute to the Debye length. FINDINGS: Using this revised model and published data, we estimate the NM possesses a Debye-Huckel length of a few microns and find this is consistent with recent measurement using intracellular nano-voltmeters. We demonstrate the field will accelerate isolated messenger proteins toward the nucleus through Coulomb interactions with negative charges added by phosphorylation. We calculate transit times as short as 0.01 sec. When large numbers of phosphorylated messenger proteins are generated by increasing concentrations of extracellular ligands, we demonstrate they generate a self-screening environment that regionally attenuates the cytoplasmic field, slowing movement but permitting greater cross talk among pathways. Preliminary experimental results with phosphorylated RAF are consistent with model predictions. CONCLUSION: This work demonstrates that previously unrecognized Coulomb interactions

  1. Calpain-dependent disruption of nucleo-cytoplasmic transport in ALS motor neurons

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    Yamashita, Takenari; Aizawa, Hitoshi; Teramoto, Sayaka; Akamatsu, Megumi; Kwak, Shin

    2017-01-01

    Nuclear dysfunction in motor neurons has been hypothesized to be a principal cause of amyotrophic lateral sclerosis (ALS) pathogenesis. Here, we investigated the mechanism by which the nuclear pore complex (NPC) is disrupted in dying motor neurons in a mechanistic ALS mouse model (adenosine deaminase acting on RNA 2 (ADAR2) conditional knockout (AR2) mice) and in ALS patients. We showed that nucleoporins (Nups) that constituted the NPC were cleaved by activated calpain via a Ca2+-permeable AMPA receptor-mediated mechanism in dying motor neurons lacking ADAR2 expression in AR2 mice. In these neurons, nucleo-cytoplasmic transport was disrupted, and the level of the transcript elongation enzyme RNA polymerase II phosphorylated at Ser2 was significantly decreased. Analogous changes were observed in motor neurons lacking ADAR2 immunoreactivity in sporadic ALS patients. Therefore, calpain-dependent NPC disruption may participate in ALS pathogenesis, and inhibiting Ca2+-mediated cell death signals may be a therapeutic strategy for ALS. PMID:28045133

  2. The ciliary inner dynein arm, I1 dynein, is assembled in the cytoplasm and transported by IFT before axonemal docking.

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    Viswanadha, Rasagnya; Hunter, Emily L; Yamamoto, Ryosuke; Wirschell, Maureen; Alford, Lea M; Dutcher, Susan K; Sale, Winfield S

    2014-10-01

    To determine mechanisms of assembly of ciliary dyneins, we focused on the Chlamydomonas inner dynein arm, I1 dynein, also known as dynein f. I1 dynein assembles in the cytoplasm as a 20S complex similar to the 20S I1 dynein complex isolated from the axoneme. The intermediate chain subunit, IC140 (IDA7), and heavy chains (IDA1, IDA2) are required for 20S I1 dynein preassembly in the cytoplasm. Unlike I1 dynein derived from the axoneme, the cytoplasmic 20S I1 complex will not rebind I1-deficient axonemes in vitro. To test the hypothesis that I1 dynein is transported to the distal tip of the cilia for assembly in the axoneme, we performed cytoplasmic complementation in dikaryons formed between wild-type and I1 dynein mutant cells. Rescue of I1 dynein assembly in mutant cilia occurred first at the distal tip and then proceeded toward the proximal axoneme. Notably, in contrast to other combinations, I1 dynein assembly was significantly delayed in dikaryons formed between ida7 and ida3. Furthermore, rescue of I1 dynein assembly required new protein synthesis in the ida7 × ida3 dikaryons. On the basis of the additional observations, we postulate that IDA3 is required for 20S I1 dynein transport. Cytoplasmic complementation in dikaryons using the conditional kinesin-2 mutant, fla10-1 revealed that transport of I1 dynein is dependent on kinesin-2 activity. Thus, I1 dynein complex assembly depends upon IFT for transport to the ciliary distal tip prior to docking in the axoneme.

  3. Reduced RAN expression and disrupted transport between cytoplasm and nucleus; a key event in Alzheimer's disease pathophysiology.

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    Diego Mastroeni

    Full Text Available Transcription of DNA is essential for cell maintenance and survival; inappropriate localization of proteins that are involved in transcription would be catastrophic. In Alzheimer's disease brains, and in vitro studies, we have found qualitative and quantitative deficits in transport into the nucleus of DNA methyltransferase 1 (DNMT1 and RNA polymerase II (RNA pol II, accompanied by their abnormal sequestration in the cytoplasm. RAN (RAs-related Nuclear protein knockdown, by siRNA and oligomeric Aβ42 treatment in neurons, replicate human data which indicate that transport disruption in AD may be mechanistically linked to reduced expression of RAN, a pivotal molecule in nucleocytoplasmic transport. In vitro studies also indicate a significant role for oligomeric Aβ42 in the observed phenomena. We propose a model in which reduced transcription regulators in the nucleus and their increased presence in the cytoplasm may lead to many of the cellular manifestations of Alzheimer's disease.

  4. Modulation of cell surface transport and lipid raft localization by the cytoplasmic tail of the influenza virus hemagglutinin.

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    Scolari, Silvia; Imkeller, Katharina; Jolmes, Fabian; Veit, Michael; Herrmann, Andreas; Schwarzer, Roland

    2016-01-01

    Viral glycoproteins are highly variable in their primary structure, but on the other hand feature a high functional conservation to fulfil their versatile tasks during the pathogenic life cycle. Typically, all protein domains are optimized in that indispensable functions can be assigned to small conserved motifs or even individual amino acids. The cytoplasmic tail of many viral spike proteins, although of particular relevance for the virus biology, is often only insufficiently characterized. Hemagglutinin (HA), the receptor-binding protein of the influenza virus comprises a short cytoplasmic tail of 13 amino acids that exhibits three highly conserved palmitoylation sites. However, the particular importance of these modifications and the tail in general for intracellular trafficking and lateral membrane organization remains elusive. In this study, we generated HA core proteins consisting of transmembrane domain, cytoplasmic tail and a minor part of the ectodomain, tagged with a yellow fluorescent protein. Different mutation and truncation variants of these chimeric proteins were investigated using confocal microscopy, to characterize the role of cytoplasmic tail and palmitoylation for the intracellular trafficking to plasma membrane and Golgi apparatus. In addition, we assessed raft partitioning of the variants by Foerster resonance energy transfer with an established raft marker. We revealed a substantial influence of the cytoplasmic tail length on the intracellular distribution and surface exposure of the proteins. A complete removal of the tail hampers a physiological trafficking of the protein, whereas a partial truncation can be compensated by cytoplasmic palmitoylations. Plasma membrane raft partitioning on the other hand was found to imperatively require palmitoylations, and the cysteine at position 551 turned out to be of most relevance. Our data shed further light on the tight interconnection between cytoplasmic elements and intracellular trafficking and

  5. Optimized RNA gel-shift and UV cross-linking assays for characterization of cytoplasmic RNA-protein interactions.

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    Thomson, A M; Rogers, J T; Walker, C E; Staton, J M; Leedman, P J

    1999-11-01

    Considerable interest has recently focused on defining the mechanisms involved in the regulation of gene expression at the level of mRNA stability and translational efficiency. However, the assays used to directly investigate interactions between RNA and cytoplasmic proteins have been difficult to establish, and methods are not widely available. Here, we describe a robust method for RNA electrophoretic mobility shift and UV cross-linking assays that allows rapid detection of cytoplasmic RNA-protein interactions. For added convenience to new investigators, these assays use mini-gels with an electrophoresis time of 15-20 min, enabling a high throughput of samples. The method works successfully with many different probes and cytoplasmic extracts from a variety of cell lines. Furthermore, we provide a system to optimize characterization of the RNA-protein complex and troubleshoot most assay difficulties.

  6. Fast transport optimization on the circle

    CERN Document Server

    Delon, Julie; Sobolevskii, Andrei

    2009-01-01

    Consider the problem of optimally matching two measures on the circle, or equivalently two periodic measures on the real line, and suppose the cost of matching two points satisfies the Monge condition. We introduce a notion of locally optimal transport plan, motivated by the weak KAM (Aubry-Mather) theory, and show that all locally optimal transport plans are conjugate to shifts. This theory is applied to a transportation problem arising in image processing: for two sets of point masses, both of which have the same total mass, find an optimal transport plan with respect to a given cost function that satisfies the Monge condition. For the case of N real-valued point masses we present an O(N log epsilon) algorithm that approximates the optimal cost within epsilon; when all masses are integer multiples of 1/M, the algorithm gives an exact solution in O(N log M) operations.

  7. Ramified optimal transportation in geodesic metric spaces

    CERN Document Server

    Xia, Qinglan

    2009-01-01

    An optimal transport path may be viewed as a geodesic in the space of probability measures under a suitable family of metrics. This geodesic may exhibit a tree-shaped branching structure in many applications such as trees, blood vessels, draining and irrigation systems. Here, we extend the study of ramified optimal transportation between probability measures from Euclidean spaces to a geodesic metric space. We investigate the existence as well as the behavior of optimal transport paths under various properties of the metric such as completeness, doubling, or curvature upper boundedness. We also introduce the transport dimension of a probability measure on a complete geodesic metric space, and show that the transport dimension of a probability measure is bounded above by the Minkowski dimension and below by the Hausdorff dimension of the measure. Moreover, we introduce a metric, called "the dimensional distance", on the space of probability measures. This metric gives a geometric meaning to the transport dimen...

  8. Regularity of optimal transport maps and applications

    CERN Document Server

    Philippis, Guido

    2013-01-01

    In this thesis, we study the regularity of optimal transport maps and its applications to the semi-geostrophic system. The first two chapters survey the known theory, in particular there is a self-contained proof of Brenier’ theorem on existence of optimal transport maps and of Caffarelli’s Theorem on Holder continuity of optimal maps. In the third and fourth chapter we start investigating Sobolev regularity of optimal transport maps, while in Chapter 5 we show how the above mentioned results allows to prove the existence of Eulerian solution to the semi-geostrophic equation. In Chapter 6 we prove partial regularity of optimal maps with respect to a generic cost functions (it is well known that in this case global regularity can not be expected). More precisely we show that if the target and source measure have smooth densities the optimal map is always smooth outside a closed set of measure zero.

  9. The cytoplasmic domain is essential for transport function of the integral membrane transport protein SLC4A11.

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    Loganathan, Sampath K; Lukowski, Chris M; Casey, Joseph R

    2016-01-15

    Large cytoplasmic domains (CD) are a common feature among integral membrane proteins. In virtually all cases, these CD have a function (e.g., binding cytoskeleton or regulatory factors) separate from that of the membrane domain (MD). Strong associations between CD and MD are rare. Here we studied SLC4A11, a membrane transport protein of corneal endothelial cells, the mutations of which cause genetic corneal blindness. SLC4A11 has a 41-kDa CD and a 57-kDa integral MD. One disease-causing mutation in the CD, R125H, manifests a catalytic defect, suggesting a role of the CD in transport function. Expressed in HEK-293 cells without the CD, MD-SLC4A11 is retained in the endoplasmic reticulum, indicating a folding defect. Replacement of CD-SLC4A11 with green fluorescent protein did not rescue MD-SLC4A11, suggesting some specific role of CD-SLC4A11. Homology modeling revealed that the structure of CD-SLC4A11 is similar to that of the Cl(-)/HCO3(-) exchange protein AE1 (SLC4A1) CD. Fusion to CD-AE1 partially rescued MD-SLC4A11 to the cell surface, suggesting that the structure of CD-AE1 is similar to that of CD-SLC4A11. The CD-AE1-MD-SLC4a11 chimera, however, had no functional activity. We conclude that CD-SLC4A11 has an indispensable role in the transport function of SLC4A11. CD-SLC4A11 forms insoluble precipitates when expressed in bacteria, suggesting that the domain cannot fold properly when expressed alone. Consistent with a strong association between CD-SLC4A11 and MD-SLC4A11, these domains specifically associate when coexpressed in HEK-293 cells. We conclude that SLC4A11 is a rare integral membrane protein in which the CD has strong associations with the integral MD, which contributes to membrane transport function.

  10. METHODS OF INTEGRATED OPTIMIZATION MAGLEV TRANSPORT SYSTEMS

    Directory of Open Access Journals (Sweden)

    A. Lasher

    2013-09-01

    Full Text Available Purpose. To demonstrate feasibility of the proposed integrated optimization of various MTS parameters to reduce capital investments as well as decrease any operational and maintenance expense. This will make use of MTS reasonable. At present, the Maglev Transport Systems (MTS for High-Speed Ground Transportation (HSGT almost do not apply. Significant capital investments, high operational and maintenance costs are the main reasons why Maglev Transport Systems (MTS are hardly currently used for the High-Speed Ground Transportation (HSGT. Therefore, this article justifies use of Theory of Complex Optimization of Transport (TCOT, developed by one of the co-authors, to reduce MTS costs. Methodology. According to TCOT, authors developed an abstract model of the generalized transport system (AMSTG. This model mathematically determines the optimal balance between all components of the system and thus provides the ultimate adaptation of any transport systems to the conditions of its application. To identify areas for effective use of MTS, by TCOT, the authors developed a dynamic model of distribution and expansion of spheres of effective use of transport systems (DMRRSEPTS. Based on this model, the most efficient transport system was selected for each individual track. The main estimated criterion at determination of efficiency of application of MTS is the size of the specific transportation tariff received from calculation of payback of total given expenses to a standard payback period or term of granting the credit. Findings. The completed multiple calculations of four types of MTS: TRANSRAPID, MLX01, TRANSMAG and TRANSPROGRESS demonstrated efficiency of the integrated optimization of the parameters of such systems. This research made possible expending the scope of effective usage of MTS in about 2 times. The achieved results were presented at many international conferences in Germany, Switzerland, United States, China, Ukraine, etc. Using MTS as an

  11. Optimization parameters system maintenance transport aircraft

    Directory of Open Access Journals (Sweden)

    І.І. Ліннік

    2006-01-01

    Full Text Available  The algorithm of unconditional and conditional optimization Markov models of maintenance systems of transport airplanes of their programs of technical operation used at improvement is considered.

  12. Green maritime transportation: Speed and route optimization

    DEFF Research Database (Denmark)

    Psaraftis, Harilaos N.; Kontovas, Christos A.

    2015-01-01

    Among the spectrum of logistics-based measures for green maritime transportation, this chapter focuses on speed optimization. This involves the selection of an appropriate speed by the vessel, so as to optimize a certain objective. As ship speed is not fixed, depressed shipping markets and/or high...

  13. Making it big : how characean algae use cytoplasmic streaming to enhance transport in giant cells

    NARCIS (Netherlands)

    Meent, Jan Willem van de

    2010-01-01

    Organisms show a remarkable variation in sizes, yet cell sizes are surprisingly similar across species, typically ranging from 10 μm to 100 μm. A striking exception are the giant cells of the algal weed Chara, which can exceed 10 cm in length and 1 mm in diameter. A circulation known as cytoplasmic

  14. Sub-Riemannian geometry and optimal transport

    CERN Document Server

    Rifford, Ludovic

    2014-01-01

    The book provides an introduction to sub-Riemannian geometry and optimal transport and presents some of the recent progress in these two fields. The text is completely self-contained: the linear discussion, containing all the proofs of the stated results, leads the reader step by step from the notion of distribution at the very beginning to the existence of optimal transport maps for Lipschitz sub-Riemannian structure. The combination of geometry presented from an analytic point of view and of optimal transport, makes the book interesting for a very large community. This set of notes grew from a series of lectures given by the author during a CIMPA school in Beirut, Lebanon.

  15. Optimal concentration for sugar transport in plants

    OpenAIRE

    Jensen, Kaare H; Savage, Jessica A; Holbrook, N. Michele

    2013-01-01

    Vascular plants transport energy in the form of sugars from the leaves where they are produced to sites of active growth. The mass flow of sugars through the phloem vascular system is determined by the sap flow rate and the sugar concentration. If the concentration is low, little energy is transferred from source to sink. If it is too high, sap viscosity impedes flow. An interesting question is therefore at which concentration is the sugar flow optimal. Optimization of sugar flow and transpor...

  16. Optimal transportation networks models and theory

    CERN Document Server

    Bernot, Marc; Morel, Jean-Michel

    2009-01-01

    The transportation problem can be formalized as the problem of finding the optimal way to transport a given measure into another with the same mass. In contrast to the Monge-Kantorovitch problem, recent approaches model the branched structure of such supply networks as minima of an energy functional whose essential feature is to favour wide roads. Such a branched structure is observable in ground transportation networks, in draining and irrigation systems, in electrical power supply systems and in natural counterparts such as blood vessels or the branches of trees. These lectures provide mathematical proof of several existence, structure and regularity properties empirically observed in transportation networks. The link with previous discrete physical models of irrigation and erosion models in geomorphology and with discrete telecommunication and transportation models is discussed. It will be mathematically proven that the majority fit in the simple model sketched in this volume.

  17. Optimal Transport for Seismic Full Waveform Inversion

    CERN Document Server

    Engquist, Bjorn; Yang, Yunan

    2016-01-01

    Full waveform inversion is a successful procedure for determining properties of the earth from surface measurements in seismology. This inverse problem is solved by a PDE constrained optimization where unknown coefficients in a computed wavefield are adjusted to minimize the mismatch with the measured data. We propose using the Wasserstein metric, which is related to optimal transport, for measuring this mismatch. Several advantageous properties are proved with regards to convexity of the objective function and robustness with respect to noise. The Wasserstein metric is computed by solving a Monge-Ampere equation. We describe an algorithm for computing its Frechet gradient for use in the optimization. Numerical examples are given.

  18. Optimal concentration for sugar transport in plants.

    Science.gov (United States)

    Jensen, Kaare H; Savage, Jessica A; Holbrook, N Michele

    2013-06-06

    Vascular plants transport energy in the form of sugars from the leaves where they are produced to sites of active growth. The mass flow of sugars through the phloem vascular system is determined by the sap flow rate and the sugar concentration. If the concentration is low, little energy is transferred from source to sink. If it is too high, sap viscosity impedes flow. An interesting question is therefore at which concentration is the sugar flow optimal. Optimization of sugar flow and transport efficiency predicts optimal concentrations of 23.5 per cent (if the pressure differential driving the flow is independent of concentration) and 34.5 per cent (if the pressure is proportional to concentration). Data from more than 50 experiments (41 species) collected from the literature show an average concentration in the range from 18.2 per cent (all species) to 21.1 per cent (active loaders), suggesting that the phloem vasculature is optimized for efficient transport at constant pressure and that active phloem loading may have developed to increase transport efficiency.

  19. Optimal transport on supply-demand networks.

    Science.gov (United States)

    Chen, Yu-Han; Wang, Bing-Hong; Zhao, Li-Chao; Zhou, Changsong; Zhou, Tao

    2010-06-01

    In the literature, transport networks are usually treated as homogeneous networks, that is, every node has the same function, simultaneously providing and requiring resources. However, some real networks, such as power grids and supply chain networks, show a far different scenario in which nodes are classified into two categories: supply nodes provide some kinds of services, while demand nodes require them. In this paper, we propose a general transport model for these supply-demand networks, associated with a criterion to quantify their transport capacities. In a supply-demand network with heterogeneous degree distribution, its transport capacity strongly depends on the locations of supply nodes. We therefore design a simulated annealing algorithm to find the near optimal configuration of supply nodes, which remarkably enhances the transport capacity compared with a random configuration and outperforms the degree target algorithm, the betweenness target algorithm, and the greedy method. This work provides a start point for systematically analyzing and optimizing transport dynamics on supply-demand networks.

  20. Optimal urban networks via mass transportation

    CERN Document Server

    Buttazzo, Giuseppe; Stepanov, Eugene; Solimini, Sergio

    2009-01-01

    Recently much attention has been devoted to the optimization of transportation networks in a given geographic area. One assumes the distributions of population and of services/workplaces (i.e. the network's sources and sinks) are known, as well as the costs of movement with/without the network, and the cost of constructing/maintaining it. Both the long-term optimization and the short-term, "who goes where" optimization are considered. These models can also be adapted for the optimization of other types of networks, such as telecommunications, pipeline or drainage networks. In the monograph we study the most general problem settings, namely, when neither the shape nor even the topology of the network to be constructed is known a priori.

  1. Insights into capacity-constrained optimal transport.

    Science.gov (United States)

    Korman, Jonathan; McCann, Robert J

    2013-06-18

    A variant of the classical optimal transportation problem is the following: among all joint measures with fixed marginals and that are dominated by a given density, find the optimal one. Existence and uniqueness of solutions to this variant were established by Korman and McCann. In the present article, we expose an unexpected symmetry leading to explicit examples in two and more dimensions. These are inspired in part by simulations in one dimension that display singularities and topology and in part by two further developments: the identification of all extreme points in the feasible set and an approach to uniqueness based on constructing feasible perturbations.

  2. Putative silicon transport vesicles in the cytoplasm of the diatom Synedra acus during surge uptake of silicon.

    Science.gov (United States)

    Annenkov, Vadim V; Basharina, Tatjana N; Danilovtseva, Elena N; Grachev, Mikhail A

    2013-10-01

    We studied the growth of the araphid pennate diatom Synedra acus subsp. radians (Kützing) Skabichevskii using a fluorescent dye N(1),N(3)-dimethyl-N(1)-(7-nitro-2,1,3-benzoxadiazol-4-yl)propane-1,3-diamine (NBD-N2), which stains growing siliceous frustules but does not stain other subcellular organelles. We used a clonal culture of S. acus that was synchronized by silicon starvation. Epifluorescence microscopy was performed in two different ways with cells stained by the addition of silicic acid and the dye. Individual cells immobilized on glass were observed during the first 15-20 min following the replenishment of silicic acid after silicon starvation. Alternatively, we examined cells of a batch culture at time intervals during 36 h after the replenishment of silicic acid using fluorescence and confocal microscopy. The addition of silicic acid and NBD-N2 resulted in the rapid (1-2 min) formation of several dozen green fluorescent submicrometer particles (GFSPs) in the cytoplasm, which was accompanied by the accumulation of fluorescent silica inside silica deposition vesicles (SDVs) along their full length. In 5-15 min, GFSPs disappeared from the cytoplasm. Mature siliceous valves were formed within the SDVs during the subsequent 14-16 h. In the next 8-10 h, GFSPs appeared again in the cytoplasm of daughter cells. The data obtained confirm observations about the two-stage mechanism of silicon assimilation, which includes rapid silicon uptake (surge uptake) followed by slow silica deposition. It is likely that the observed GFSPs are silicon transport vesicles, which were first proposed by Schmid and Schulz in (Protoplasma 100:267-288, 1979).

  3. Cytoplasmically Retargeted HSV1-tk/GFP Reporter Gene Mutants for Optimization of Noninvasive Molecular-Genetic Imaging

    Directory of Open Access Journals (Sweden)

    Vladimir Ponomarev

    2003-05-01

    Full Text Available To optimize the sensitivity of imaging HSV1-tk/GFP reporter gene expression, a series of HSV1-tk/GFP mutants was developed with altered nuclear localization and better cellular enzymatic activity, compared to that of the native HSV1-tk/GFP fusion protein (HSVi-tk/GFP. Several modifications of HSV1-tk/GFP reporter gene were performed, including targeted inactivating mutations in the nuclear localization signal (NLS, the addition of a nuclear export signal (NES, a combination of both mutation types, and a truncation of the first 135 by of the native hsvl-tk coding sequence containing a “cryptic” testicular promoter and the NLS. A recombinant HSV1-tk/GFP protein and a highly sensitive sandwich enzyme-linked immunosorbent assay for HSV1-tk/GFP were developed to quantitate the amount of reporter gene product in different assays to allow normalization of the data. These different mutations resulted in various degrees of nuclear clearance, predominant cytoplasmic distribution, and increased total cellular enzymatic activity of the HSV1-tk/GFP mutants, compared to native HSV1-tk/GFP when expressed at the same levels. This appears to be the result of improved metabolic bioavailability of cytoplasmically retargeted mutant HSV1-tk/GFP enzymes for reaction with the radiolabeled probe (e.g., FIAU. The analysis of enzymatic properties of different HSV1-tk/GFP mutants using FIAU as a substrate revealed no significant differences from that of the native HSV1-tk/GFP. Improved total cellular enzymatic activity of cytoplasmically retargeted HSV1-tk/GFP mutants observed in vitro was confirmed by noninvasive imaging of transduced subcutaneous tumor xenografts bearing these reporters using [131I]FIAU and γ-camera.

  4. A'-form RNA helices are required for cytoplasmic mRNA transport in Drosophila.

    Science.gov (United States)

    Bullock, Simon L; Ringel, Inbal; Ish-Horowicz, David; Lukavsky, Peter J

    2010-06-01

    Microtubule-based mRNA transport is widely used to restrict protein expression to specific regions in the cell and has important roles in defining cell polarity and axis determination as well as in neuronal function. However, the structural basis of recognition of cis-acting mRNA localization signals by motor complexes is poorly understood. We have used NMR spectroscopy to describe the first tertiary structure to our knowledge of an RNA element responsible for mRNA transport. The Drosophila melanogaster fs(1)K10 signal, which mediates transport by the dynein motor, forms a stem loop with two double-stranded RNA helices adopting an unusual A'-form conformation with widened major grooves reminiscent of those in B-form DNA. Structure determination of four mutant RNAs and extensive functional assays in Drosophila embryos indicate that the two spatially registered A'-form helices represent critical recognition sites for the transport machinery. Our study provides insights into the basis for RNA cargo recognition and reveals a key biological function encoded by A'-form RNA conformation.

  5. Cytotoxic cholesterol is generated by the hydrolysis of cytoplasmic cholesteryl ester and transported to the plasma membrane.

    Science.gov (United States)

    Kellner-Weibel, G; Geng, Y J; Rothblat, G H

    1999-10-01

    The present study examines the fate and effects of free cholesterol (FC) generated by the hydrolysis of cytoplasmic cholesteryl esters (CE) in model macrophage foam cells. J774 or elicited mouse peritoneal macrophages (MPM) were enriched with CE by incubating with acetylated low density lipoprotein (acLDL) and FC/phospholipid dispersions, thus creating model foam cells. Treatment of the foam cells with the acyl coenzyme-A:cholesterol acyltransferase (ACAT) inhibitor, CP-113,818, in the absence of any extracellular cholesterol acceptors, resulted in cellular toxicity. This was accompanied by an increase in the amount of FC available for oxidation by an exogenous cholesterol oxidase. Furthermore, cellular toxicity was proportional to the size of the oxidase susceptible pool of FC over time. Morphological analysis and in situ DNA fragmentation assay demonstrated the occurrence of apoptosis in the ACAT inhibited cells. Co-treatment with the hydrophobic amine U18666A, an intracellular cholesterol transport inhibitor, led to a dose dependent reduction in cytotoxicity and apoptosis, and blocked the movement of FC into the oxidase susceptible pool. In addition, treating model foam cells with CP-113,818 plus chloroquine, a compound that inhibits the function of acidic vesicles, also diminished cellular toxicity. Staining with the cholesterol binding dye filipin revealed that the macrophages treated with CP-113,818 contained a cholesterol oxidase accessible pool of FC in the plasma membrane. These results suggest that FC generated by the hydrolysis of cytoplasmic CE is transported through acidic vesicles to the plasma membrane, and accumulation of FC in this pool triggers cell death by necrosis and apoptosis.

  6. Inositol hexakisphosphate kinase 1 (IP6K1) activity is required for cytoplasmic dynein-driven transport

    Science.gov (United States)

    Chanduri, Manasa; Rai, Ashim; Malla, Aushaq Bashir; Wu, Mingxuan; Fiedler, Dorothea; Mallik, Roop; Bhandari, Rashna

    2016-01-01

    Inositol pyrophosphates, such as diphosphoinositol pentakisphosphate (IP7), are conserved eukaryotic signaling molecules that possess pyrophosphate and monophosphate moieties. Generated predominantly by inositol hexakisphosphate kinases (IP6Ks), inositol pyrophosphates can modulate protein function by posttranslational serine pyrophosphorylation. Here, we report inositol pyrophosphates as novel regulators of cytoplasmic dynein-driven vesicle transport. Mammalian cells lacking IP6K1 display defects in dynein-dependent trafficking pathways, including endosomal sorting, vesicle movement, and Golgi maintenance. Expression of catalytically active but not inactive IP6K1 reverses these defects, suggesting a role for inositol pyrophosphates in these processes. Endosomes derived from slime mold lacking inositol pyrophosphates also display reduced dynein-directed microtubule transport. We demonstrate that Ser51 in the dynein intermediate chain (IC) is a target for pyrophosphorylation by IP7, and this modification promotes the interaction of the IC N-terminus with the p150Glued subunit of dynactin. IC–p150Glued interaction is decreased, and IC recruitment to membranes is reduced in cells lacking IP6K1. Our study provides the first evidence for the involvement of IP6Ks in dynein function and proposes that inositol pyrophosphate-mediated pyrophosphorylation may act as a regulatory signal to enhance dynein-driven transport. PMID:27474409

  7. Cytoplasmic electric fields and electroosmosis: possible solution for the paradoxes of the intracellular transport of biomolecules.

    Directory of Open Access Journals (Sweden)

    Victor P Andreev

    Full Text Available The objective of the paper is to show that electroosmotic flow might play an important role in the intracellular transport of biomolecules. The paper presents two mathematical models describing the role of electroosmosis in the transport of the negatively charged messenger proteins to the negatively charged nucleus and in the recovery of the fluorescence after photobleaching. The parameters of the models were derived from the extensive review of the literature data. Computer simulations were performed within the COMSOL 4.2a software environment. The first model demonstrated that the presence of electroosmosis might intensify the flux of messenger proteins to the nucleus and allow the efficient transport of the negatively charged phosphorylated messenger proteins against the electrostatic repulsion of the negatively charged nucleus. The second model revealed that the presence of the electroosmotic flow made the time of fluorescence recovery dependent on the position of the bleaching spot relative to cellular membrane. The magnitude of the electroosmotic flow effect was shown to be quite substantial, i.e. increasing the flux of the messengers onto the nucleus up to 4-fold relative to pure diffusion and resulting in the up to 3-fold change in the values of fluorescence recovery time, and therefore the apparent diffusion coefficient determined from the fluorescence recovery after photobleaching experiments. Based on the results of the modeling and on the universal nature of the electroosmotic flow, the potential wider implications of electroosmotic flow in the intracellular and extracellular biological processes are discussed. Both models are available for download at ModelDB.

  8. Neutralizing antibody blocks adenovirus infection by arresting microtubule-dependent cytoplasmic transport.

    Science.gov (United States)

    Smith, Jason G; Cassany, Aurelia; Gerace, Larry; Ralston, Robert; Nemerow, Glen R

    2008-07-01

    Neutralizing antibodies are commonly elicited by viral infection. Most antibodies that have been characterized block early stages of virus entry that occur before membrane penetration, whereas inhibition of late stages in entry that occurs after membrane penetration has been poorly characterized. Here we provide evidence that the neutralizing antihexon monoclonal antibody 9C12 inhibits adenovirus infection by blocking microtubule-dependent translocation of the virus to the microtubule-organizing center following endosome penetration. These studies identify a previously undescribed mechanism by which neutralizing antibodies block virus infection, a situation that may be relevant for other nonenveloped viruses that use microtubule-dependent transport during cell entry.

  9. Effect of colchicine on mammalian liver nuclear envelope and on nucleo-cytoplasmic RNA transport.

    Science.gov (United States)

    Agutter, P S; Suckling, K E

    1982-09-27

    The binding of colchicine to nuclear envelopes was studied in order to elucidate the mechanism whereby this compound inhibits nucleocytoplasmic RNA transport. The results suggest that a single class of colchicine-binding site (dissociation constant=approx. 0.7 mM, concentration=approx. 330 nmol colchicine/mg protein) is localised in the nuclear periphery (pore-lamina) and that binding to these sites effects a constriction of the pore-complexes with concomitant inhibition of RNA egress and disordering of the nuclear membrane phospholipid bilayers.

  10. Efficient cell-specific uptake of binding proteins into the cytoplasm through engineered modular transport systems.

    Science.gov (United States)

    Verdurmen, Wouter P R; Luginbühl, Manuel; Honegger, Annemarie; Plückthun, Andreas

    2015-02-28

    Through advances in protein scaffold engineering and selection technologies, highly specific binding proteins, which fold under reducing conditions, can be generated against virtually all targets. Despite tremendous therapeutic opportunities, intracellular applications are hindered by difficulties associated with achieving cytosolic delivery, compounded by even correctly measuring it. Here, we addressed cytosolic delivery systematically through the development of a biotin ligase-based assay that objectively quantifies cytosolic delivery in a generic fashion. We developed modular transport systems that consist of a designed ankyrin repeat protein (DARPin) for receptor targeting and a different DARPin for intracellular recognition and a bacterial toxin-derived component for cytosolic translocation. We show that both anthrax pores and the translocation domain of Pseudomonas exotoxin A (ETA) efficiently deliver DARPins into the cytosol. We found that the cargo must not exceed a threshold thermodynamic stability for anthrax pores, which can be addressed by engineering, while the ETA pathway does not appear to have this restriction.

  11. BV Estimates in Optimal Transportation and Applications

    Science.gov (United States)

    De Philippis, Guido; Mészáros, Alpár Richárd; Santambrogio, Filippo; Velichkov, Bozhidar

    2016-02-01

    In this paper we study the BV regularity for solutions of certain variational problems in Optimal Transportation. We prove that the Wasserstein projection of a measure with BV density on the set of measures with density bounded by a given BV function f is of bounded variation as well and we also provide a precise estimate of its BV norm. Of particular interest is the case f = 1, corresponding to a projection onto a set of densities with an L ∞ bound, where we prove that the total variation decreases by projection. This estimate and, in particular, its iterations have a natural application to some evolutionary PDEs as, for example, the ones describing a crowd motion. In fact, as an application of our results, we obtain BV estimates for solutions of some non-linear parabolic PDE by means of optimal transportation techniques. We also establish some properties of the Wasserstein projection which are interesting in their own right, and allow, for instance, for the proof of the uniqueness of such a projection in a very general framework.

  12. Mitosin/CENP-F is a conserved kinetochore protein subjected to cytoplasmic dynein-mediated poleward transport

    Institute of Scientific and Technical Information of China (English)

    ZHEN YE YANG; JING GUO; NING LI; MIN QIAN; SHENG NIAN WANG; XUE LIANG ZHU

    2003-01-01

    Mitosin/CENP-F is a human nuclear protein transiently associated with the outer kinetochore plate in M phase and is involved in M phase progression. LEK1 and CMF1, which are its murine and chicken orthologs, however, are implicated in muscle differentiation and reportedly not distributed at kinetochores.We therefore conducted several assays to clarify this issue. The typical centromere staining patterns were observed in mitotic cells from both human primary culture and murine, canine, and mink cell lines. A C-terminal portion of LEK1 also conferred centromere localization. Our analysis further suggests conserved kinetochore localization of mammalian mitosin orthologs. Moreover, mitosin was associated preferentially with kinetochores of unaligned chromosomes. It was also constantly transported from kinetochores to spindle poles by cytoplasmic dynein. These properties resemble those of other kinetochore proteins important for the spindle checkpoint, thus implying a role of mitosin in this checkpoint. Therefore, mitosin family may serve as multifunctional proteins involved in both mitosis and differentiation.

  13. An Optimal Transportation Schedule of Mobile Equipment

    Directory of Open Access Journals (Sweden)

    S. Guillén-Burguete

    2012-10-01

    Full Text Available Motivated by a problem faced by road construction companies, we develop a new model to obtain an optimaltransportation schedule of mobile machines which have to travel to execute tasks. In this problem, each task ischaracterized by the location where it is to be executed, a work-content in terms of machine-time units, and one ormore time intervals within which it can be performed. The machines can be transported from one location to anotherat any time, thus the problem has an indefinite number of variables. However, this indefinite number of variables canbe reduced to a definite one because, as we prove, the problem has an optimal solution in which the arrivals ofmachines occur only at certain time instants. The objective is to minimize the total transportation cost such that all thetasks are executed within their time intervals. The constraints ensuring that the tasks are processed within theirprescribed time intervals are nonlinear; nevertheless, due to the sets of the possible arrival times of the machinesforming bounded convex polyhedra, our problem can be transformed into a mixed integer linear program by the samedevice used in the decomposition principle of Dantzig-Wolfe.

  14. Leukemia-Associated Nup214 Fusion Proteins Disturb the XPO1-Mediated Nuclear-Cytoplasmic Transport Pathway and Thereby the NF-κB Signaling Pathway.

    Science.gov (United States)

    Saito, Shoko; Cigdem, Sadik; Okuwaki, Mitsuru; Nagata, Kyosuke

    2016-07-01

    Nuclear-cytoplasmic transport through nuclear pore complexes is mediated by nuclear transport receptors. Previous reports have suggested that aberrant nuclear-cytoplasmic transport due to mutations or overexpression of nuclear pore complexes and nuclear transport receptors is closely linked to diseases. Nup214, a component of nuclear pore complexes, has been found as chimeric fusion proteins in leukemia. Among various Nup214 fusion proteins, SET-Nup214 and DEK-Nup214 have been shown to be engaged in tumorigenesis, but their oncogenic mechanisms remain unclear. In this study, we examined the functions of the Nup214 fusion proteins by focusing on their effects on nuclear-cytoplasmic transport. We found that SET-Nup214 and DEK-Nup214 interact with exportin-1 (XPO1)/CRM1 and nuclear RNA export factor 1 (NXF1)/TAP, which mediate leucine-rich nuclear export signal (NES)-dependent protein export and mRNA export, respectively. SET-Nup214 and DEK-Nup214 decreased the XPO1-mediated nuclear export of NES proteins such as cyclin B and proteins involved in the NF-κB signaling pathway by tethering XPO1 onto nuclear dots where Nup214 fusion proteins are localized. We also demonstrated that SET-Nup214 and DEK-Nup214 expression inhibited NF-κB-mediated transcription by abnormal tethering of the complex containing p65 and its inhibitor, IκB, in the nucleus. These results suggest that SET-Nup214 and DEK-Nup214 perturb the regulation of gene expression through alteration of the nuclear-cytoplasmic transport system.

  15. Multi-Scale Characean Experimental System: From Electrophysiology of Membrane Transporters to Cell-to-Cell Connectivity, Cytoplasmic Streaming and Auxin Metabolism

    Science.gov (United States)

    Beilby, Mary J.

    2016-01-01

    The morphology of characean algae could be mistaken for a higher plant: stem-like axes with leaf-like branchlets anchored in the soil by root-like rhizoids. However, all of these structures are made up of giant multinucleate cells separated by multicellular nodal complexes. The excised internodal cells survive long enough for the nodes to give rise to new thallus. The size of the internodes and their thick cytoplasmic layer minimize impalement injury and allow specific micro-electrode placement. The cell structure can be manipulated by centrifugation, perfusion of cell contents or creation of cytoplasmic droplets, allowing access to both vacuolar and cytoplasmic compartments and both sides of the cell membranes. Thousands of electrical measurements on intact or altered cells and cytoplasmic droplets laid down basis to modern plant electrophysiology. Furthermore, the giant internodal cells and whole thalli facilitate research into many other plant properties. As nutrients have to be transported from rhizoids to growing parts of the thallus and hormonal signals need to pass from cell to cell, Characeae possess very fast cytoplasmic streaming. The mechanism was resolved in the characean model. Plasmodesmata between the internodal cells and nodal complexes facilitate transport of ions, nutrients and photosynthates across the nodes. The internal structure was found to be similar to those of higher plants. Recent experiments suggest a strong circadian influence on metabolic pathways producing indole-3-acetic acid (IAA) and serotonin/melatonin. The review will discuss the impact of the characean models arising from fragments of cells, single cells, cell-to-cell transport or whole thalli on understanding of plant evolution and physiology. PMID:27504112

  16. Multi-scale characean experimental system: from electrophysiology of membrane transporters to cell-to-cell connectivity, cytoplasmic streaming and auxin metabolism.

    Directory of Open Access Journals (Sweden)

    Mary Jane Beilby

    2016-07-01

    Full Text Available The morphology of characean algae could be mistaken for a higher plant: stem-like axes with leaf-like branchlets anchored in the soil by root-like rhizoids. However, all of these structures are made up of giant multinucleate cells separated by multicellular nodal complexes. The excised internodal cells survive long enough for the nodes to give rise to new thallus. The size of the internodes and their thick cytoplasmic layer minimize impalement injury and allow specific micro-electrode placement. The cell structure can be manipulated by centrifugation, perfusion of cell contents or creation of cytoplasmic droplets, allowing access to both vacuolar and cytoplasmic compartments and both sides of the cell membranes. Thousands of electrical measurements on intact or altered cells and cytoplasmic droplets laid down basis to modern plant electrophysiology. Furthermore, the giant internodal cells and whole thalli facilitate research into many other plant properties. As nutrients have to be transported from rhizoids to growing parts of the thallus and hormonal signals need to pass from cell to cell, Characeae possess very fast cytoplasmic streaming. The mechanism was resolved in the characean model. Plasmodesmata between the internodal cells and nodal complexes facilitate transport of ions, nutrients and photosynthates across the nodes. The internal structure was found to be similar to those of higher plants. Recent experiments suggest a strong circadian influence on metabolic pathways producing indole-3-acetic acid (IAA and serotonin/melatonin. The review will discuss the impact of the characean models arising from fragments of cells, single cells, cell-to-cell transport or whole thalli on understanding of plant evolution and physiology.

  17. Multi-Scale Characean Experimental System: From Electrophysiology of Membrane Transporters to Cell-to-Cell Connectivity, Cytoplasmic Streaming and Auxin Metabolism.

    Science.gov (United States)

    Beilby, Mary J

    2016-01-01

    The morphology of characean algae could be mistaken for a higher plant: stem-like axes with leaf-like branchlets anchored in the soil by root-like rhizoids. However, all of these structures are made up of giant multinucleate cells separated by multicellular nodal complexes. The excised internodal cells survive long enough for the nodes to give rise to new thallus. The size of the internodes and their thick cytoplasmic layer minimize impalement injury and allow specific micro-electrode placement. The cell structure can be manipulated by centrifugation, perfusion of cell contents or creation of cytoplasmic droplets, allowing access to both vacuolar and cytoplasmic compartments and both sides of the cell membranes. Thousands of electrical measurements on intact or altered cells and cytoplasmic droplets laid down basis to modern plant electrophysiology. Furthermore, the giant internodal cells and whole thalli facilitate research into many other plant properties. As nutrients have to be transported from rhizoids to growing parts of the thallus and hormonal signals need to pass from cell to cell, Characeae possess very fast cytoplasmic streaming. The mechanism was resolved in the characean model. Plasmodesmata between the internodal cells and nodal complexes facilitate transport of ions, nutrients and photosynthates across the nodes. The internal structure was found to be similar to those of higher plants. Recent experiments suggest a strong circadian influence on metabolic pathways producing indole-3-acetic acid (IAA) and serotonin/melatonin. The review will discuss the impact of the characean models arising from fragments of cells, single cells, cell-to-cell transport or whole thalli on understanding of plant evolution and physiology.

  18. Particle swarm optimization - Genetic algorithm (PSOGA) on linear transportation problem

    Science.gov (United States)

    Rahmalia, Dinita

    2017-08-01

    Linear Transportation Problem (LTP) is the case of constrained optimization where we want to minimize cost subject to the balance of the number of supply and the number of demand. The exact method such as northwest corner, vogel, russel, minimal cost have been applied at approaching optimal solution. In this paper, we use heurisitic like Particle Swarm Optimization (PSO) for solving linear transportation problem at any size of decision variable. In addition, we combine mutation operator of Genetic Algorithm (GA) at PSO to improve optimal solution. This method is called Particle Swarm Optimization - Genetic Algorithm (PSOGA). The simulations show that PSOGA can improve optimal solution resulted by PSO.

  19. Heuristic Optimization Approach to Selecting a Transport Connection in City Public Transport

    Directory of Open Access Journals (Sweden)

    Kul’ka Jozef

    2017-02-01

    Full Text Available The article presents a heuristic optimization approach to select a suitable transport connection in the framework of a city public transport. This methodology was applied on a part of the public transport in Košice, because it is the second largest city in the Slovak Republic and its network of the public transport creates a complex transport system, which consists of three different transport modes, namely from the bus transport, tram transport and trolley-bus transport. This solution focused on examining the individual transport services and their interconnection in relevant interchange points.

  20. Optimizing sales areas of combined transport chains

    Directory of Open Access Journals (Sweden)

    Philip Michalk

    2013-12-01

    Full Text Available Background: Combined transport chains (such as intermodal transport, have certain advantages. The main advantage from customer points of view is the possibility to bundle freight and thereby decrease transport costs. On the other hand, a combined transport chain can cause longer transport times, due to the necessary transshipment processes. Methods: The area around a terminal, in which a combined service has favourable properties to a customer in comparison to a direct transport, can be understood as a sales-area, in which a combined transport product is marketable. The aim of this paper was to find a method to determine the best shape and size of this area. Results and conclusions: The paper at hand lined out a method in order to calculate such a sales area and determine which geographical points around a terminal have an advantage in comparison to a direct transport service.

  1. OPTIMIZATION PROBLEMS ON SUBURBAN TRANSPORT SYSTEMS

    OpenAIRE

    T. M. Grigorovа

    2015-01-01

    The paper considers problems that permit to solve such issue as organization of  transport service for suburban population with due account of passenger transport fatigue which is considered as one of subconscious criteria for selection of a travel mode. Improvement of transportation process entails an increase in demand for such service. Demands predetermine transport supply and situation on the market depends on supply-and-demand balance.  The paper presents an analysis of approaches to the...

  2. Procedures for Dealing with Optimism Bias in Transport Planning

    DEFF Research Database (Denmark)

    Flyvbjerg, Bent; Glenting, Carsten; Rønnest, Arne Kvist

    of the document are to provide empirically based optimism bias up-lifts for selected reference classes of transport infrastructure projects and provide guidance on using the established uplifts to produce more realistic forecasts for the individual project's capital expenditures. Furthermore, the underlying...... causes and institutional context for optimism bias in British transport projects are discussed and some possibilities for reducing optimism bias in project preparation and decision-making are identified....

  3. PERIODIC TIMETABLE OPTIMIZATION IN THE PUBLIC ROAD TRANSPORT SERVICES

    OpenAIRE

    Béla Illés; Richárd Ladányi; György Sárközi3

    2009-01-01

    A prospering transport system is an important precondition for a modern society, for economic growth, employment and welfare. Concerning the development in rural areas an easy access to the infrastructures is essential. Making regional accessibility better is not only investing in the rolling fleets of public transport but also optimizing public transport networks. Changes in the elements and connections of transport networks have an influence on the quality and price of public services offer...

  4. OPTIMIZATION PROBLEMS ON SUBURBAN TRANSPORT SYSTEMS

    Directory of Open Access Journals (Sweden)

    T. M. Grigorovа

    2015-01-01

    Full Text Available The paper considers problems that permit to solve such issue as organization of  transport service for suburban population with due account of passenger transport fatigue which is considered as one of subconscious criteria for selection of a travel mode. Improvement of transportation process entails an increase in demand for such service. Demands predetermine transport supply and situation on the market depends on supply-and-demand balance.  The paper presents an analysis of approaches to the estimation of  parameters for a suburban transport system with due regard for influence of transport process parameters on the rate of passenger transport fatigue.  This rate is estimated through value of an index which demonstrates an activity of passenger’s regulatory systems while performing every element of motion process. Nonlinear regression equation has been used to describe changes in the activity index of the passenger’s regulatory systems when a passenger is taking a standing position in a passenger compartment of a suburban transport facility. In this case value of activity index of regulatory systems  before transportation, passenger age, transportation duration,   operation factor of transport  capacity and ratio of new bus cost to nominal capacity have been taken as variables for calculations.The paper proposes an index change model for assessment of passenger’s transport fatigue when a passenger has a standing position in a transport facility. The model has shown that an impact of the activity index of passenger’s regulatory systems before  making any elemental motion is rather pertinent because this index provides information on an initial condition of a person before executing any other elemental motion. The influence of the activity index of passenger’s regulatory systems before  making any elemental motion is considered as an important characteristic because it has an impact on passenger’s condition after executing

  5. Probabilistic Swarm Guidance using Optimal Transport

    Science.gov (United States)

    2014-10-10

    satellites) are being developed for challenging formation flying missions like synthetic aperture radar , interferometry , etc [6]. In this paper, we introduce...plan (transferring part of the initial mass to part of the final mass) is optimal too. • Shortening principle : Two distinct optimal transference

  6. Route optimization of urban public transportation

    OpenAIRE

    PATRICIA JARAMILLO-ÁLVAREZ; GONZÁLEZ-CALDERÓN, CARLOS A.; GUILLERMO GONZÁLEZ-CALDERÓN

    2013-01-01

    Este artículo muestra el proceso de optimización de rutas de transporte público urbano basado en las técnicas de investigación de operaciones. Éste muestra en el contorno del desarrollo e importancia de la planifi cación del transporte público colectivo, sus etapas, diseño y modelos. Se presenta el diseño de redes de rutas de buses donde se muestran las generalidades y antecedentes de los modelos de optimización aptos para el sistema de transporte público colectivo. Se desarrolla un modelo de ...

  7. Optimal directional volatile transport in retronasal olfaction

    Science.gov (United States)

    Ni, Rui; Michalski, Mark H.; Brown, Elliott; Doan, Ngoc; Zinter, Joseph; Ouellette, Nicholas T.; Shepherd, Gordon M.

    2015-01-01

    The ability of humans to distinguish the delicate differences in food flavors depends mostly on retronasal smell, in which food volatiles entrained into the airway at the back of the oral cavity are transported by exhaled air through the nasal cavity to stimulate the olfactory receptor neurons. Little is known whether food volatiles are preferentially carried by retronasal flow toward the nasal cavity rather than by orthonasal flow into the lung. To study the differences between retronasal and orthonasal flow, we obtained computed tomography (CT) images of the orthonasal airway from a healthy human subject, printed an experimental model using a 3D printer, and analyzed the flow field inside the airway. The results show that, during inhalation, the anatomical structure of the oropharynx creates an air curtain outside a virtual cavity connecting the oropharynx and the back of the mouth, which prevents food volatiles from being transported into the main stream toward the lung. In contrast, during exhalation, the flow preferentially sweeps through this virtual cavity and effectively enhances the entrainment of food volatiles into the main retronasal flow. This asymmetrical transport efficiency is also found to have a nonmonotonic Reynolds number dependence: The asymmetry peaks at a range of an intermediate Reynolds number close to 800, because the air curtain effect during inhalation becomes strongest in this range. This study provides the first experimental evidence, to our knowledge, for adaptations of the geometry of the human oropharynx for efficient transport of food volatiles toward the olfactory receptors in the nasal cavity. PMID:26553982

  8. Optimally designed quantum transport across disordered networks.

    Science.gov (United States)

    Walschaers, Mattia; Diaz, Jorge Fernandez-de-Cossio; Mulet, Roberto; Buchleitner, Andreas

    2013-11-01

    We establish a general mechanism for highly efficient quantum transport through finite, disordered 3D networks. It relies on the interplay of disorder with centrosymmetry and a dominant doublet spectral structure and can be controlled by the proper tuning of only coarse-grained quantities. Photosynthetic light harvesting complexes are discussed as potential biological incarnations of this design principle.

  9. ROUTE OPTIMIZATION OF URBAN PUBLIC TRANSPORTATION

    Directory of Open Access Journals (Sweden)

    PATRICIA JARAMILLO-ÁLVAREZ

    2013-01-01

    Full Text Available Este artículo muestra el proceso de optimización de rutas de transporte público urbano basado en las técnicas de investigación de operaciones. Éste muestra en el contorno del desarrollo e importancia de la planifi cación del transporte público colectivo, sus etapas, diseño y modelos. Se presenta el diseño de redes de rutas de buses donde se muestran las generalidades y antecedentes de los modelos de optimización aptos para el sistema de transporte público colectivo. Se desarrolla un modelo de optimización minimizando transbordos y se discuten sus resultados de acuerdo a la teoría planteada. El artículo fi naliza con las principales conclusiones y recomendaciones encontradas en el estudio para mejorar la optimización de rutas del transporte público urbano.

  10. Optimal directional volatile transport in retronasal olfaction.

    Science.gov (United States)

    Ni, Rui; Michalski, Mark H; Brown, Elliott; Doan, Ngoc; Zinter, Joseph; Ouellette, Nicholas T; Shepherd, Gordon M

    2015-11-24

    The ability of humans to distinguish the delicate differences in food flavors depends mostly on retronasal smell, in which food volatiles entrained into the airway at the back of the oral cavity are transported by exhaled air through the nasal cavity to stimulate the olfactory receptor neurons. Little is known whether food volatiles are preferentially carried by retronasal flow toward the nasal cavity rather than by orthonasal flow into the lung. To study the differences between retronasal and orthonasal flow, we obtained computed tomography (CT) images of the orthonasal airway from a healthy human subject, printed an experimental model using a 3D printer, and analyzed the flow field inside the airway. The results show that, during inhalation, the anatomical structure of the oropharynx creates an air curtain outside a virtual cavity connecting the oropharynx and the back of the mouth, which prevents food volatiles from being transported into the main stream toward the lung. In contrast, during exhalation, the flow preferentially sweeps through this virtual cavity and effectively enhances the entrainment of food volatiles into the main retronasal flow. This asymmetrical transport efficiency is also found to have a nonmonotonic Reynolds number dependence: The asymmetry peaks at a range of an intermediate Reynolds number close to 800, because the air curtain effect during inhalation becomes strongest in this range. This study provides the first experimental evidence, to our knowledge, for adaptations of the geometry of the human oropharynx for efficient transport of food volatiles toward the olfactory receptors in the nasal cavity.

  11. Bi-objective optimization for multi-modal transportation routing planning problem based on Pareto optimality

    Directory of Open Access Journals (Sweden)

    Yan Sun

    2015-09-01

    Full Text Available Purpose: The purpose of study is to solve the multi-modal transportation routing planning problem that aims to select an optimal route to move a consignment of goods from its origin to its destination through the multi-modal transportation network. And the optimization is from two viewpoints including cost and time. Design/methodology/approach: In this study, a bi-objective mixed integer linear programming model is proposed to optimize the multi-modal transportation routing planning problem. Minimizing the total transportation cost and the total transportation time are set as the optimization objectives of the model. In order to balance the benefit between the two objectives, Pareto optimality is utilized to solve the model by gaining its Pareto frontier. The Pareto frontier of the model can provide the multi-modal transportation operator (MTO and customers with better decision support and it is gained by the normalized normal constraint method. Then, an experimental case study is designed to verify the feasibility of the model and Pareto optimality by using the mathematical programming software Lingo. Finally, the sensitivity analysis of the demand and supply in the multi-modal transportation organization is performed based on the designed case. Findings: The calculation results indicate that the proposed model and Pareto optimality have good performance in dealing with the bi-objective optimization. The sensitivity analysis also shows the influence of the variation of the demand and supply on the multi-modal transportation organization clearly. Therefore, this method can be further promoted to the practice. Originality/value: A bi-objective mixed integer linear programming model is proposed to optimize the multi-modal transportation routing planning problem. The Pareto frontier based sensitivity analysis of the demand and supply in the multi-modal transportation organization is performed based on the designed case.

  12. Global Optimization for Transport Network Expansion and Signal Setting

    Directory of Open Access Journals (Sweden)

    Haoxiang Liu

    2015-01-01

    Full Text Available This paper proposes a model to address an urban transport planning problem involving combined network design and signal setting in a saturated network. Conventional transport planning models usually deal with the network design problem and signal setting problem separately. However, the fact that network capacity design and capacity allocation determined by network signal setting combine to govern the transport network performance requires the optimal transport planning to consider the two problems simultaneously. In this study, a combined network capacity expansion and signal setting model with consideration of vehicle queuing on approaching legs of intersection is developed to consider their mutual interactions so that best transport network performance can be guaranteed. We formulate the model as a bilevel program and design an approximated global optimization solution method based on mixed-integer linearization approach to solve the problem, which is inherently nnonlinear and nonconvex. Numerical experiments are conducted to demonstrate the model application and the efficiency of solution algorithm.

  13. Metal binding to the N-terminal cytoplasmic domain of the PIB ATPase HMA4 is required for metal transport in Arabidopsis.

    Science.gov (United States)

    Laurent, Clémentine; Lekeux, Gilles; Ukuwela, Ashwinie A; Xiao, Zhiguang; Charlier, Jean-Benoit; Bosman, Bernard; Carnol, Monique; Motte, Patrick; Damblon, Christian; Galleni, Moreno; Hanikenne, Marc

    2016-03-01

    PIB ATPases are metal cation pumps that transport metals across membranes. These proteins possess N- and C-terminal cytoplasmic extensions that contain Cys- and His-rich high affinity metal binding domains, which may be involved in metal sensing, metal ion selectivity and/or in regulation of the pump activity. The PIB ATPase HMA4 (Heavy Metal ATPase 4) plays a central role in metal homeostasis in Arabidopsis thaliana and has a key function in zinc and cadmium hypertolerance and hyperaccumulation in the extremophile plant species Arabidopsis halleri. Here, we examined the function and structure of the N-terminal cytoplasmic metal-binding domain of HMA4. We mutagenized a conserved CCTSE metal-binding motif in the domain and assessed the impact of the mutations on protein function and localization in planta, on metal-binding properties in vitro and on protein structure by Nuclear Magnetic Resonance spectroscopy. The two Cys residues of the motif are essential for the function, but not for localization, of HMA4 in planta, whereas the Glu residue is important but not essential. These residues also determine zinc coordination and affinity. Zinc binding to the N-terminal domain is thus crucial for HMA4 protein function, whereas it is not required to maintain the protein structure. Altogether, combining in vivo and in vitro approaches in our study provides insights towards the molecular understanding of metal transport and specificity of metal P-type ATPases.

  14. Optimizing sealed transports of small ornamental fish

    Directory of Open Access Journals (Sweden)

    Rui Esteves da Silva

    2014-06-01

    Full Text Available This is a report on multiple simulated long-term transports of small ornamental fish inside plastic bags. The species involved were Diplodus sargus, Gobius paganellus, Gobiusculus flavescens, Lepadogaster lepadogaster and Lipophrys pholis. The objective of such simulations was moving the maximum bioload possible while ensuring 100% survivorship, ultimately resulting in savings for the end-receiver. Transports were simulated over 24, 48 and 72 hours, with increasing animal bioloads per bag. Half of the trials were performed with “regular” saltwater while the other half involved seawater buffered with Amquel ®, sodium carbonate and sodium bicarbonate, with the objective of keeping ammonia low and pH similar to initial baseline values. At the end of each trial, temperature, dissolved oxygen, pH and ammonia were analized and the survival rate calculated and recorded. L. lepadogaster endured the highest bioloads at 100% survivorship (i.e. up to 30 g / L, which is not surprising given the intertidal nature of this species. D. sargus exhibited mortalities with bioloads as low as 3,23 g / L, which echoes its predominantly pelagic nature and relatively lesser ability to endure confinement. The three remaining species showed varying degrees of tolerance to increasing bioloads in transport: L. pholis, also an intertidal species, handled up to 20 g/L over 72 hours, while G. paganellus handled up to 7 g/L over 72 hours, and G. flavescens (a predominantly pelagic species could deal with no more than 6 g/L up to 72 hours.

  15. Optimal traffic control in highway transportation networks using linear programming

    KAUST Repository

    Li, Yanning

    2014-06-01

    This article presents a framework for the optimal control of boundary flows on transportation networks. The state of the system is modeled by a first order scalar conservation law (Lighthill-Whitham-Richards PDE). Based on an equivalent formulation of the Hamilton-Jacobi PDE, the problem of controlling the state of the system on a network link in a finite horizon can be posed as a Linear Program. Assuming all intersections in the network are controllable, we show that the optimization approach can be extended to an arbitrary transportation network, preserving linear constraints. Unlike previously investigated transportation network control schemes, this framework leverages the intrinsic properties of the Halmilton-Jacobi equation, and does not require any discretization or boolean variables on the link. Hence this framework is very computational efficient and provides the globally optimal solution. The feasibility of this framework is illustrated by an on-ramp metering control example.

  16. Complex Quantum Networks: From Universal Breakdown to Optimal Transport

    CERN Document Server

    Muelken, Oliver; Galiceanu, Mircea

    2015-01-01

    We show that all sequentially growing networks yield the same universal behavior at the breakdown of single-particle quantum transport. For this, we study the global time-averaged transport efficiency of excitations on complex quantum networks. Further, we observe the transition to optimal transport by starting from a network with complete-graph-like sequential subgraphs and systematically reducing the number of loops. These effects are explained on the basis of the spectral properties of the network's Hamiltonian. Our theoretical considerations are supported by numerical Monte-Carlo simulations for complex quantum networks with a scale-free size distribution of sequential subgraphs and a small-world-type transition to optimal transport.

  17. Optimization of Nonlinear Transport-Production Task of Medical Waste

    Science.gov (United States)

    Michlowicz, Edward

    2012-09-01

    The paper reflects on optimization of transportation - production tasks for the processing of medical waste. For the existing network of collection points and processing plants, according to its algorithm, the optimal allocation of tasks to the cost of transport to the respective plants has to be determined. It was assumed that the functions determining the processing costs are polynomials of the second degree. To solve the problem, a program written in MatLab environment equalization algorithm based on a marginal cost JCC was used.

  18. Optimal Heat Transport in Rayleigh-B\\'enard Convection

    CERN Document Server

    Sondak, David; Waleffe, Fabian

    2015-01-01

    Steady flows that optimize heat transport are obtained for two-dimensional Rayleigh-B\\'enard convection with no-slip horizontal walls for a variety of Prandtl numbers $Pr$ and Rayleigh number up to $Ra\\sim 10^9$. Power law scalings of $Nu\\sim Ra^{\\gamma}$ are observed with $\\gamma\\approx 0.31$, where the Nusselt number $Nu$ is a non-dimensional measure of the vertical heat transport. Any dependence of the scaling exponent on $Pr$ is found to be extremely weak. On the other hand, the presence of two local maxima of $Nu$ with different horizontal wavenumbers at the same $Ra$ leads to the emergence of two different flow structures as candidates for optimizing the heat transport. For $Pr \\lesssim 7$, optimal transport is achieved at the smaller maximal wavenumber. In these fluids, the optimal structure is a plume of warm rising fluid which spawns left/right horizontal arms near the top of the channel, leading to downdrafts adjacent to the central updraft. For $Pr > 7$ at high-enough Ra, the optimal structure is a...

  19. A MILP-Model for the Optimization of Transports

    Science.gov (United States)

    Björk, Kaj-Mikael

    2010-09-01

    This paper presents a work in developing a mathematical model for the optimization of transports. The decisions to be made are routing decisions, truck assignment and the determination of the pickup order for a set of loads and available trucks. The model presented takes these aspects into account simultaneously. The MILP model is implemented in the Microsoft Excel environment, utilizing the LP-solve freeware as the optimization engine and Visual Basic for Applications as the modeling interface.

  20. Transporting bovine oocytes in a medium supplemented with different macromolecules and antioxidants: Effects on nuclear and cytoplasmic maturation and embryonic development in vitro.

    Science.gov (United States)

    Ambrogi, M; Dall'Acqua, P C; Rocha-Frigoni, Nas; Leão, Bcs; Mingoti, G Z

    2017-06-01

    We investigated whether supplementing the medium used to transport bovine oocytes with different macromolecules [foetal calf serum (FCS) or bovine serum albumin (BSA)] or a mixture of antioxidants (cysteine, cysteamine and catalase) affects their nuclear and cytoplasmic maturation and thereby affects their subsequent embryonic development and cryotolerance. Oocytes were transported for 6 hr in a portable incubator and then subjected to standard in vitro maturation (IVM) for 18 hr. The oocytes in the control groups were cultured (standard IVM) for 24 hr in medium containing 10% FCS (Control FCS) or 10% FCS and the antioxidant mixture (Control FCS+Antiox). The intracellular concentrations of reactive oxygen species (ROS) at the end of IVM period were lower in the oocytes subjected to simulated transport in the presence of a macromolecular supplement or the antioxidant mixture than that of the control group (FCS: 0.62 and BSA: 0.66 vs. Control FCS: 1.00, p  .05) by the treatments. In conclusion, supplementing the medium in which bovine oocytes are transported with antioxidants or different macromolecules did not affect their in vitro production of embryos or their cryotolerance. © 2017 Blackwell Verlag GmbH.

  1. Flow Merging and Hub Route Optimization in Collaborative Transportation

    Directory of Open Access Journals (Sweden)

    Kerui Weng

    2014-01-01

    Full Text Available This paper studies the optimal hub routing problem of merged tasks in collaborative transportation. This problem allows all carriers’ transportation tasks to reach the destinations optionally passing through 0, 1, or 2 hubs within limited distance, while a cost discount on arcs in the hub route could be acquired after paying fixed charges. The problem arises in the application of logistics, postal services, airline transportation, and so forth. We formulate the problem as a mixed-integer programming model, and provide two heuristic approaches, respectively, based on Lagrangian relaxation and Benders decomposition. Computational experiments show that the algorithms work well.

  2. Global Local Structural Optimization of Transportation Aircraft Wings

    NARCIS (Netherlands)

    Ciampa, P.D.; Nagel, B.; Van Tooren, M.J.L.

    2010-01-01

    The study presents a multilevel optimization methodology for the preliminary structural design of transportation aircraft wings. A global level is defined by taking into account the primary wing structural components (i.e., ribs, spars and skin) which are explicitly modeled by shell layered finite e

  3. Optimal configuration of an integrated power and transport system

    DEFF Research Database (Denmark)

    Juul, Nina; Meibom, Peter

    2011-01-01

    optimal investments in both power plants and vehicle technologies is presented in this article. The model includes the interactions between the power system and the transport system including the competition between flexibility measures such as hydrogen storage in combination with electrolysis, heat...

  4. On Matrix-Valued Monge–Kantorovich Optimal Mass Transport

    Science.gov (United States)

    Ning, Lipeng; Georgiou, Tryphon T.; Tannenbaum, Allen

    2016-01-01

    We present a particular formulation of optimal transport for matrix-valued density functions. Our aim is to devise a geometry which is suitable for comparing power spectral densities of multivariable time series. More specifically, the value of a power spectral density at a given frequency, which in the matricial case encodes power as well as directionality, is thought of as a proxy for a “matrix-valued mass density.” Optimal transport aims at establishing a natural metric in the space of such matrix-valued densities which takes into account differences between power across frequencies as well as misalignment of the corresponding principle axes. Thus, our transportation cost includes a cost of transference of power between frequencies together with a cost of rotating the principle directions of matrix densities. The two endpoint matrix-valued densities can be thought of as marginals of a joint matrix-valued density on a tensor product space. This joint density, very much as in the classical Monge–Kantorovich setting, can be thought to specify the transportation plan. Contrary to the classical setting, the optimal transport plan for matrices is no longer supported on a thin zero-measure set. PMID:26997667

  5. Compartmentalization of membrane trafficking, glucose transport, glycolysis, actin, tubulin and the proteasome in the cytoplasmic droplet/Hermes body of epididymal sperm.

    Science.gov (United States)

    Au, Catherine E; Hermo, Louis; Byrne, Elliot; Smirle, Jeffrey; Fazel, Ali; Kearney, Robert E; Smith, Charles E; Vali, Hojatollah; Fernandez-Rodriguez, Julia; Simon, Paul H G; Mandato, Craig; Nilsson, Tommy; Bergeron, John J M

    2015-08-01

    Discovered in 1909 by Retzius and described mainly by morphology, the cytoplasmic droplet of sperm (renamed here the Hermes body) is conserved among all mammalian species but largely undefined at the molecular level. Tandem mass spectrometry of the isolated Hermes body from rat epididymal sperm characterized 1511 proteins, 43 of which were localized to the structure in situ by light microscopy and two by quantitative electron microscopy localization. Glucose transporter 3 (GLUT-3) glycolytic enzymes, selected membrane traffic and cytoskeletal proteins were highly abundant and concentrated in the Hermes body. By electron microscope gold antibody labelling, the Golgi trafficking protein TMED7/p27 localized to unstacked flattened cisternae of the Hermes body, as did GLUT-3, the most abundant protein. Its biogenesis was deduced through the mapping of protein expression for all 43 proteins during male germ cell differentiation in the testis. It is at the terminal step 19 of spermiogenesis that the 43 characteristic proteins accumulated in the nascent Hermes body.

  6. Constructs of highly effective heat transport paths by bionic optimization

    Institute of Scientific and Technical Information of China (English)

    CHENG; Xinguang; (程新广); LI; Zhixin; (李志信); GUO; Zengyuan; (过增元)

    2003-01-01

    The optimization approach based on the biological evolution principle is used to construct the heat transport paths for volume-to-point problem. The transport paths are constructed by inserting high conductivity materials in the heat conduction domain where uniform or nonuniform heat sources exist. In the bionic optimization process, the optimal constructs of the high conductivity material are obtained by numerically simulating the evolution and degeneration process according to the uniformity principle of the temperature gradient. Finally, preserving the features of the optimal constructs, the constructs are regularized for the convenience of engineering manufacture. The results show that the construct obtained by bionic optimization is approximate to that obtained by the tree-network constructal theory when the heat conduction is enhanced for the domain with a uniform heat source and high conductivity ratio of the inserting material to the substrate, the high conductivity materials are mainly concentrated on the heat outlet for the case with a uniform heat source and low thermal conductivity ratio, and for the case with nonuniform heat sources, the high conductivity material is concentrated in the heat source regions and construacts several highly effective heat transport paths to connect the regions to the outlet.

  7. Optimization potential of a standard tractor in road transportation

    Directory of Open Access Journals (Sweden)

    Michael Mederle

    2015-10-01

    Full Text Available In numerous farms road transportation is of high importance in the task range of a standard tractor. During the harvest of grain or biomass as well as during the application of organic substrates a certain number of tractors exclusively runs on the road. The present study shows under practical conditions opportunities to optimize standard tractors for road transportation with acceptable effort to increase machine utilization and process efficiency at the same time. By realizing certain optimizing measures fuel consumption can be reduced by 11.4 % on average. Increasing the maximum speed from 50 to 60 km/h results in time savings of 8.5 % on average, causing a 5.5 % higher fuel consumption on average. The benefits of the examined optimization measures always have to be judged farm- and situation specifically.

  8. Designing nanostructures for interfacial phonon transport via Bayesian optimization

    CERN Document Server

    Ju, Shenghong; Feng, Lei; Hou, Zhufeng; Tsuda, Koji; Shiomi, Junichiro

    2016-01-01

    We demonstrate optimization of thermal conductance across nanostructures by developing a method combining atomistic Green's function and Bayesian optimization. With an aim to minimize and maximize the interfacial thermal conductance (ITC) across Si-Si and Si-Ge interfaces by means of Si/Ge composite interfacial structure, the method identifies the optimal structures from calculations of only a few percent of the entire candidates (over 60,000 structures). The obtained optimal interfacial structures are non-intuitive and impacting: the minimum-ITC structure is an aperiodic superlattice that realizes 50% reduction from the best periodic superlattice. The physical mechanism of the minimum ITC can be understood in terms of crossover of the two effects on phonon transport: as the layer thickness in superlattice increases, the impact of Fabry-P\\'erot interference increases, and the rate of reflection at the layer-interfaces decreases. Aperiodic superlattice with spatial variation in the layer thickness has a degree...

  9. Optimizing the patient transport function at Mayo Clinic.

    Science.gov (United States)

    Kuchera, Dustin; Rohleder, Thomas R

    2011-01-01

    In this article, we report on the implementation of a computerized scheduling tool to optimize staffing for patient transport at the Mayo Clinic. The tool was developed and implemented in Microsoft Excel and Visual Basic for Applications and includes an easy-to-use interface. The tool allows transport management to consider the trade-offs between patient waiting time and staffing levels. While improved staffing efficiency was a desire of the project, it was important that patient service quality was also maintained. The results show that staffing could be reduced while maintaining historical patient service levels.

  10. In vitro placental model optimization for nanoparticle transport studies

    Directory of Open Access Journals (Sweden)

    Cartwright L

    2012-01-01

    Full Text Available Laura Cartwright1, Marie Sønnegaard Poulsen2, Hanne Mørck Nielsen3, Giulio Pojana4, Lisbeth E Knudsen2, Margaret Saunders1, Erik Rytting2,51Bristol Initiative for Research of Child Health (BIRCH, Biophysics Research Unit, St Michael's Hospital, UH Bristol NHS Foundation Trust, Bristol, UK; 2University of Copenhagen, Faculty of Health Sciences, Department of Public Health, 3University of Copenhagen, Faculty of Pharmaceutical Sciences, Department of Pharmaceutics and Analytical Chemistry, Copenhagen, Denmark; 4Department of Environmental Sciences, Informatics and Statistics, University Ca' Foscari Venice, Venice, Italy; 5Department of Obstetrics and Gynecology, University of Texas Medical Branch, Galveston, Texas, USABackground: Advances in biomedical nanotechnology raise hopes in patient populations but may also raise questions regarding biodistribution and biocompatibility, especially during pregnancy. Special consideration must be given to the placenta as a biological barrier because a pregnant woman's exposure to nanoparticles could have significant effects on the fetus developing in the womb. Therefore, the purpose of this study is to optimize an in vitro model for characterizing the transport of nanoparticles across human placental trophoblast cells.Methods: The growth of BeWo (clone b30 human placental choriocarcinoma cells for nanoparticle transport studies was characterized in terms of optimized Transwell® insert type and pore size, the investigation of barrier properties by transmission electron microscopy, tight junction staining, transepithelial electrical resistance, and fluorescein sodium transport. Following the determination of nontoxic concentrations of fluorescent polystyrene nanoparticles, the cellular uptake and transport of 50 nm and 100 nm diameter particles was measured using the in vitro BeWo cell model.Results: Particle size measurements, fluorescence readings, and confocal microscopy indicated both cellular uptake of

  11. Five lectures on optimal transportation: Geometry, regularity and applications

    CERN Document Server

    Guillen, Nestor

    2010-01-01

    In this series of lectures we introduce the Monge-Kantorovich problem of optimally transporting one distribution of mass onto another, where optimality is measured against a cost function c(x,y). Connections to geometry, inequalities, and partial differential equations will be discussed, focusing in particular on recent developments in the regularity theory for Monge-Ampere type equations. An application to microeconomics will also be described, which amounts to finding the equilibrium price distribution for a monopolist marketing a multidimensional line of products to a population of anonymous agents whose preferences are known only statistically.

  12. Structural optimization and its interaction with aerodynamic optimization for a high speed civil transport wing

    OpenAIRE

    Huang, Ximing

    1994-01-01

    A variable-complexity design strategy with combined aerodynamic and structural optimization procedures is presented for the high speed civil transport design (HSCT). Variable-complexity analysis methods are used to reduce the computational expense. A finite element-model based structural optimization procedure with flexible loads is implemented to evaluate the wing bending material weight. Static aeroelastic effects, evaluated through the comparison of rigid and flexible win...

  13. An Optimal Transport Formulation of the Linear Feedback Particle Filter

    OpenAIRE

    Taghvaei, Amirhossein; Mehta, Prashant G.

    2015-01-01

    Feedback particle filter (FPF) is an algorithm to numerically approximate the solution of the nonlinear filtering problem in continuous time. The algorithm implements a feedback control law for a system of particles such that the empirical distribution of particles approximates the posterior distribution. However, it has been noted in the literature that the feedback control law is not unique. To find a unique control law, the filtering task is formulated here as an optimal transportation pro...

  14. Topological Effects and Performance Optimization in Transportation Continuous Network Design

    Directory of Open Access Journals (Sweden)

    Jianjun Wu

    2014-01-01

    Full Text Available Because of the limitation of budget, in the planning of road works, increased efforts should be made on links that are more critical to the whole traffic system. Therefore, it would be helpful to model and evaluate the vulnerability and reliability of the transportation network when the network design is processing. This paper proposes a bilevel transportation network design model, in which the upper level is to minimize the performance of the network under the given budgets, while the lower level is a typical user equilibrium assignment problem. A new solution approach based on particle swarm optimization (PSO method is presented. The topological effects on the performance of transportation networks are studied with the consideration of three typical networks, regular lattice, random graph, and small-world network. Numerical examples and simulations are presented to demonstrate the proposed model.

  15. Transport on Complex Networks: Flow, Jamming and Optimization

    CERN Document Server

    Tadic, B; Thurner, S; Tadic, Bosiljka; Thurner, Stefan

    2006-01-01

    Many transport processes on networks depend crucially on the underlying network geometry, although the exact relationship between the structure of the network and the properties of transport processes remain elusive. In this paper we address this question by using numerical models in which both structure and dynamics are controlled systematically. We consider the traffic of information packets that include driving, searching and queuing. We present the results of extensive simulations on two classes of networks; a correlated cyclic scale-free network and an uncorrelated homogeneous weakly clustered network. By measuring different dynamical variables in the free flow regime we show how the global statistical properties of the transport are related to the temporal fluctuations at individual nodes (the traffic noise) and the links (the traffic flow). We then demonstrate that these two network classes appear as representative topologies for optimal traffic flow in the regimes of low density and high density traff...

  16. Optimal Design of Capsule Transporting Pipeline carrying Spherical Capsules

    Science.gov (United States)

    Asim, Taimoor; Mishra, Rakesh; Ubbi, Kuldip

    2012-05-01

    A capsule pipeline transports material or cargo in capsules propelled by fluid flowing through a pipeline. The cargo may either be contained in capsules (such as wheat enclosed inside sealed cylindrical containers), or may itself be the capsules (such as coal compressed into the shape of a cylinder or sphere). As the concept of capsule transportation is relatively new, the capsule pipelines need to be designed optimally for commercial viability. An optimal design of such a pipeline would have minimum pressure drop due to the presence of the solid medium in the pipeline, which corresponds to minimum head loss and hence minimum pumping power required to drive the capsules and the transporting fluid. The total cost for the manufacturing and maintenance of such pipelines is yet another important variable that needs to be considered for the widespread commercial acceptance of capsule transporting pipelines. To address this, the optimisation technique presented here is based on the least-cost principle. Pressure drop relationships have been incorporated to calculate the pumping requirements for the system. The maintenance and manufacturing costs have been computed separately to analyse their effects on the optimisation process. A design example has been included to show the usage of the model presented. The results indicate that for a specific throughput, there exists an optimum diameter of the pipeline for which the total cost for the piping system is at its minimum.

  17. Cellular Subcompartments through Cytoplasmic Streaming.

    Science.gov (United States)

    Pieuchot, Laurent; Lai, Julian; Loh, Rachel Ann; Leong, Fong Yew; Chiam, Keng-Hwee; Stajich, Jason; Jedd, Gregory

    2015-08-24

    Cytoplasmic streaming occurs in diverse cell types, where it generally serves a transport function. Here, we examine streaming in multicellular fungal hyphae and identify an additional function wherein regimented streaming forms distinct cytoplasmic subcompartments. In the hypha, cytoplasm flows directionally from cell to cell through septal pores. Using live-cell imaging and computer simulations, we identify a flow pattern that produces vortices (eddies) on the upstream side of the septum. Nuclei can be immobilized in these microfluidic eddies, where they form multinucleate aggregates and accumulate foci of the HDA-2 histone deacetylase-associated factor, SPA-19. Pores experiencing flow degenerate in the absence of SPA-19, suggesting that eddy-trapped nuclei function to reinforce the septum. Together, our data show that eddies comprise a subcellular niche favoring nuclear differentiation and that subcompartments can be self-organized as a consequence of regimented cytoplasmic streaming.

  18. Regularity of optimal transport maps on multiple products of spheres

    CERN Document Server

    Figalli, Alessio; McCann, Robert J

    2010-01-01

    This article addresses regularity of optimal transport maps for cost="squared distance" on Riemannian manifolds that are products of arbitrarily many round spheres with arbitrary sizes and dimensions. Such manifolds are known to be non-negatively cross-curved [KM2]. Under boundedness and non-vanishing assumptions on the transfered source and target densities we show that optimal maps stay away from the cut-locus (where the cost exhibits singularity), and obtain injectivity and continuity of optimal maps. This together with the result of Liu, Trudinger and Wang [LTW] also implies higher regularity (C^{1,\\alpha}/C^\\infty) of optimal maps for more smooth (C^\\alpha /C^\\infty)) densities. These are the first global regularity results which we are aware of concerning optimal maps on non-flat Riemannian manifolds which possess some vanishing sectional curvatures. Moreover, such product manifolds have potential relevance in statistics (see [S]) and in statistical mechanics (where the state of a system consisting of m...

  19. Ant Colony Optimization for Route Allocation in Transportation Networks

    Science.gov (United States)

    Zamfirescu, Constantin-Bǎlǎ; Negulescu, Sorin; Oprean, Constantin; Banciu, Dorin

    2009-04-01

    The paper introduces a bio-inspired approach to solve the route allocation problem (RAP) in the transportation networks. The approach extends a well-known meta-heuristics algorithm with the real life constraints that are dealt with in the scheduling process (i.e. the uniform distribution of routes diversity for vehicles, the average distance travelled in a month, the driver's rest between subsequent trips etc.). The paper is focusing on the engineering aspects of employing bio-inspired algorithms (which proved to have near-optimal results for toy-like problems) to a real-life application domain. The approach proved to be capable of preserving the software components (agents) to the complexity and dynamics of the situation when the RAP requires incremental extensions of constraints to reflect the traffic conditions in the transportation network.

  20. A revised model of fluid transport optimization in Physarum polycephalum.

    Science.gov (United States)

    Bonifaci, Vincenzo

    2017-02-01

    Optimization of fluid transport in the slime mold Physarum polycephalum has been the subject of several modeling efforts in recent literature. Existing models assume that the tube adaptation mechanism in P. polycephalum's tubular network is controlled by the sheer amount of fluid flow through the tubes. We put forward the hypothesis that the controlling variable may instead be the flow's pressure gradient along the tube. We carry out the stability analysis of such a revised mathematical model for a parallel-edge network, proving that the revised model supports the global flow-optimizing behavior of the slime mold for a substantially wider class of response functions compared to previous models. Simulations also suggest that the same conclusion may be valid for arbitrary network topologies.

  1. Traffic optimization in transport networks based on local routing

    Science.gov (United States)

    Scellato, S.; Fortuna, L.; Frasca, M.; Gómez-Gardeñes, J.; Latora, V.

    2010-01-01

    Congestion in transport networks is a topic of theoretical interest and practical importance. In this paper we study the flow of vehicles in urban street networks. In particular, we use a cellular automata model on a complex network to simulate the motion of vehicles along streets, coupled with a congestion-aware routing at street crossings. Such routing makes use of the knowledge of agents about traffic in nearby roads and allows the vehicles to dynamically update the routes towards their destinations. By implementing the model in real urban street patterns of various cities, we show that it is possible to achieve a global traffic optimization based on local agent decisions.

  2. Procedures for Dealing with Optimism Bias in Transport Planning

    DEFF Research Database (Denmark)

    Flyvbjerg, Bent; Glenting, Carsten; Rønnest, Arne Kvist

    The UK Treasury (HM Treasury) has noted there is a demonstrated, systematic, tendency for project appraisers to be overly optimistic and that to redress this tendency appraisers should make explicit, empirically based adjustments to the estimates of a project's costs, benefits, and duration. HM...... of the document are to provide empirically based optimism bias up-lifts for selected reference classes of transport infrastructure projects and provide guidance on using the established uplifts to produce more realistic forecasts for the individual project's capital expenditures. Furthermore, the underlying...

  3. Optimization of atmospheric transport models on HPC platforms

    Science.gov (United States)

    de la Cruz, Raúl; Folch, Arnau; Farré, Pau; Cabezas, Javier; Navarro, Nacho; Cela, José María

    2016-12-01

    The performance and scalability of atmospheric transport models on high performance computing environments is often far from optimal for multiple reasons including, for example, sequential input and output, synchronous communications, work unbalance, memory access latency or lack of task overlapping. We investigate how different software optimizations and porting to non general-purpose hardware architectures improve code scalability and execution times considering, as an example, the FALL3D volcanic ash transport model. To this purpose, we implement the FALL3D model equations in the WARIS framework, a software designed from scratch to solve in a parallel and efficient way different geoscience problems on a wide variety of architectures. In addition, we consider further improvements in WARIS such as hybrid MPI-OMP parallelization, spatial blocking, auto-tuning and thread affinity. Considering all these aspects together, the FALL3D execution times for a realistic test case running on general-purpose cluster architectures (Intel Sandy Bridge) decrease by a factor between 7 and 40 depending on the grid resolution. Finally, we port the application to Intel Xeon Phi (MIC) and NVIDIA GPUs (CUDA) accelerator-based architectures and compare performance, cost and power consumption on all the architectures. Implications on time-constrained operational model configurations are discussed.

  4. Analysis regarding the transport network models. Case study on finding the optimal transport route

    Science.gov (United States)

    Stîngă, V.-G.

    2017-08-01

    Transport networks are studied most of the time from a graph theory perspective, mostly studied in a static way, in order to emphasize their characteristics like: topology, morphology, costs, traffic flows etc. There are many methods used to describe these characteristics at local and global level. Usually when analysing the transport network models, the aim is to achieve minimum capacity transit or minimum cost of operating or investment. Throughout this paper we will get an insight into the many models of the transport network that were presented over the years and we will try to make a short analysis regarding the most important ones. We will make a case study on finding the optimal route by using one of the models presented within this paper.

  5. Multidisciplinary design optimization of low-noise transport aircraft

    Science.gov (United States)

    Leifsson, Leifur Thor

    The objective of this research is to examine how to design low-noise transport aircraft using Multidisciplinary Design Optimization (MDO). The subject is approached by designing for low-noise both implicitly and explicitly. The explicit design approach involves optimizing an aircraft while explicitly constraining the noise level. An MDO framework capable of optimizing both a cantilever wing and a Strut-Braced-Wing (SBW) aircraft was developed. The objective is to design aircraft for low-airframe-noise at the approach conditions and quantify the change in weight and performance with respect to a traditionally designed aircraft. The results show that reducing airframe noise by reducing approach speed alone, will not provide significant noise reduction without a large performance and weight penalty. Therefore, more dramatic changes to the aircraft design are needed to achieve a significant airframe noise reduction. Another study showed that the trailing-edge flap can be eliminated, as well as all the noise associated with that device, without incurring a significant weight and performance penalty. Lastly, an airframe noise analysis showed that a SBW aircraft with short fuselage-mounted landing gear could have a similar or potentially a lower airframe noise level than a comparable cantilever wing aircraft. The implicit design approach involves selecting a configuration that supports a low-noise operation, and optimizing for performance. In this study a Blended-Wing-Body (BWB) transport aircraft, with a conventional and a distributed propulsion system, was optimized for minimum take-off gross weight. The effects of distributed propulsion were studied using an MDO framework previously developed at Virginia Tech. The results show that more than two thirds of the theoretical savings of distributed propulsion are required for the BWB designs with a distributed propulsion system to have comparable gross weight as those with a conventional propulsion system. Therefore

  6. Optimization of China Crude Oil Transportation Network with Genetic Ant Colony Algorithm

    Directory of Open Access Journals (Sweden)

    Yao Wang

    2015-08-01

    Full Text Available Taking into consideration both shipping and pipeline transport, this paper first analysed the risk factors for different modes of crude oil import transportation. Then, based on the minimum of both transportation cost and overall risk, a multi-objective programming model was established to optimize the transportation network of crude oil import, and the genetic algorithm and ant colony algorithm were employed to solve the problem. The optimized result shows that VLCC (Very Large Crude Carrier is superior in long distance sea transportation, whereas pipeline transport is more secure than sea transport. Finally, this paper provides related safeguard suggestions on crude oil import transportation.

  7. Energy Performance Optimization of a Bus for Urban Public Transport

    Directory of Open Access Journals (Sweden)

    Paola Gori

    2013-08-01

    Full Text Available Nowadays many people use public transports in urban centres. Consequently, every day a lot of buses move within cities, trying to ensure the best service to citizens. During the year buses becomecrowded places and using an air conditioning system in constant operation, it tries to ensure a certain condition of comfort for the passengers on board. The aim of this study is to analyse and optimize the energy performance of a bus shell, identifying practical solutions that have not yet been adopted in order to reduce the impact of air conditioning on bus consumption and, therefore, on air pollution. For this reason it was decided to conduct a thermal analysis of a bus for public transport, in order to understandthe behaviour of the bus shell and to deduce possible optimization measures that have not yet been made until now. The analysis was carried out considering the hottest day of July and the coldest day ofJanuary, considering the conditions of operation based on the most common graphics TGM able to define the concentration of traffic city during the 24 hours per day. The study was done using the dynamicsimulation software TRNSYS. With this software it was possible to recreate faithfully the structure of the bus and the external environmental conditions, assessing the impact of different technical solutions for an improvement of internal conditions and a reduction of the cooling capacity required. Because the presence of passengers in public transport is considered like a “benefit” during the winter, the analysis started with the identification of a summer solution and the subsequent evaluation of this solution for the wintertime. The aim of this study was to optimize the bus shell and select the most appropriate solutions. Regarding the transparent surfaces it has been given importance to factors such as the thermal transmittance and the solar gain factor (g-value. Aware of the influence given by the solar radiation on the energy loads, we

  8. Sensor Networks Hierarchical Optimization Model for Security Monitoring in High-Speed Railway Transport Hub

    Directory of Open Access Journals (Sweden)

    Zhengyu Xie

    2015-01-01

    Full Text Available We consider the sensor networks hierarchical optimization problem in high-speed railway transport hub (HRTH. The sensor networks are optimized from three hierarchies which are key area sensors optimization, passenger line sensors optimization, and whole area sensors optimization. Case study on a specific HRTH in China showed that the hierarchical optimization method is effective to optimize the sensor networks for security monitoring in HRTH.

  9. Beam-transport optimization for cold-neutron spectrometer

    Directory of Open Access Journals (Sweden)

    Nakajima Kenji

    2015-01-01

    Full Text Available We report the design of the beam-transport system (especially the vertical geometry for a cold-neutron disk-chopper spectrometer AMATERAS at J-PARC. Based on the elliptical shape, which is one of the most effective geometries for a ballistic mirror, the design was optimized to obtain, at the sample position, a neutron beam with high flux without serious degrading in divergence and spacial homogeneity within the boundary conditions required from actual spectrometer construction. The optimum focal point was examined. An ideal elliptical shape was modified to reduce its height without serious loss of transmission. The final result was adapted to the construction requirements of AMATERAS. Although the ideas studied in this paper are considered for the AMATERAS case, they can be useful also to other spectrometers in similar situations.

  10. Regularized Regression and Density Estimation based on Optimal Transport

    KAUST Repository

    Burger, M.

    2012-03-11

    The aim of this paper is to investigate a novel nonparametric approach for estimating and smoothing density functions as well as probability densities from discrete samples based on a variational regularization method with the Wasserstein metric as a data fidelity. The approach allows a unified treatment of discrete and continuous probability measures and is hence attractive for various tasks. In particular, the variational model for special regularization functionals yields a natural method for estimating densities and for preserving edges in the case of total variation regularization. In order to compute solutions of the variational problems, a regularized optimal transport problem needs to be solved, for which we discuss several formulations and provide a detailed analysis. Moreover, we compute special self-similar solutions for standard regularization functionals and we discuss several computational approaches and results. © 2012 The Author(s).

  11. A View on Optimal Transport from Noncommutative Geometry

    Directory of Open Access Journals (Sweden)

    Francesco D'Andrea

    2010-07-01

    Full Text Available We discuss the relation between the Wasserstein distance of order 1 between probability distributions on a metric space, arising in the study of Monge-Kantorovich transport problem, and the spectral distance of noncommutative geometry. Starting from a remark of Rieffel on compact manifolds, we first show that on any - i.e. non-necessary compact - complete Riemannian spin manifolds, the two distances coincide. Then, on convex manifolds in the sense of Nash embedding, we provide some natural upper and lower bounds to the distance between any two probability distributions. Specializing to the Euclidean space R^n, we explicitly compute the distance for a particular class of distributions generalizing Gaussian wave packet. Finally we explore the analogy between the spectral and the Wasserstein distances in the noncommutative case, focusing on the standard model and the Moyal plane. In particular we point out that in the two-sheet space of the standard model, an optimal-transport interpretation of the metric requires a cost function that does not vanish on the diagonal. The latest is similar to the cost function occurring in the relativistic heat equation.

  12. Particle Flow Characteristics and Transportation Optimization of Superfine Unclassified Backfilling

    Directory of Open Access Journals (Sweden)

    Ke-ping Zhou

    2017-01-01

    Full Text Available In order to investigate the high volume fraction problem of the solid phase in superfine unclassified backfilling pipeline transportation, characteristic parameters were obtained by fitting to test data with an R–R particle size distribution function; then, a Euler dense-phase DPM (Discrete phase model model was established by applying solid–liquid two-phase flow theory and the kinetic theory of granular flow (KTGF. The collision and friction of particles were imported by the UDF (User-define function function, and the pipeline fluidization system, dominated by interphase drag forces, was analyzed. The best concentration and flow rate were finally obtained by comparing the results of the stress conditions, flow field characteristics, and the discrete phase distributions. It is revealed that reducing the concentration and flow rate could control pressure loss and pipe damage to a certain degree, while lower parameters show negative effects on the transportation integrity and backfilling strength. Indoor tests and field industrial tests verify the reliability of the results of the numerical simulations. Research shows that the model optimization method is versatile and practical for other, similar, complex flow field working conditions.

  13. Cerebrospinal and Interstitial Fluid Transport via the Glymphatic Pathway Modeled by Optimal Mass Transport

    Science.gov (United States)

    Ratner, Vadim; Gao, Yi; Lee, Hedok; Elkin, Rena; Nedergaard, Maiken; Benveniste, Helene; Tannenbaum, Allen

    2017-01-01

    The glymphatic pathway is a system which facilitates continuous cerebrospinal fluid (CSF) and interstitial fluid (ISF) exchange and plays a key role in removing waste products from the rodent brain. Dysfunction of the glymphatic pathway may be implicated in the pathophysiology of Alzheimer's disease. Intriguingly, the glymphatic system is most active during deep wave sleep general anesthesia. By using paramagnetic tracers administered into CSF of rodents, we previously showed the utility of MRI in characterizing a macroscopic whole brain view of glymphatic transport but we have yet to define and visualize the specific flow patterns. Here we have applied an alternative mathematical analysis approach to a dynamic time series of MRI images acquired every 4 min over ∼3 hrs in anesthetized rats, following administration of a small molecular weight paramagnetic tracer into the CSF reservoir of the cisterna magna. We use Optimal Mass Transport (OMT) to model the glymphatic flow vector field, and then analyze the flow to find the network of CSF-ISF flow channels. We use 3D visualization computational tools to visualize the OMT defined network of CSF-ISF flow channels in relation to anatomical and vascular key landmarks from the live rodent brain. The resulting OMT model of the glymphatic transport network agrees largely with the current understanding of the glymphatic transport patterns defined by dynamic contrast-enhanced MRI revealing key CSF transport pathways along the ventral surface of the brain with a trajectory towards the pineal gland, cerebellum, hypothalamus and olfactory bulb. In addition, the OMT analysis also revealed some interesting previously unnoticed behaviors regarding CSF transport involving parenchymal streamlines moving from ventral reservoirs towards the surface of the brain, olfactory bulb and large central veins. PMID:28323163

  14. Modeling marine surface microplastic transport to assess optimal removal locations

    Science.gov (United States)

    Sherman, Peter; van Sebille, Erik

    2016-01-01

    Marine plastic pollution is an ever-increasing problem that demands immediate mitigation and reduction plans. Here, a model based on satellite-tracked buoy observations and scaled to a large data set of observations on microplastic from surface trawls was used to simulate the transport of plastics floating on the ocean surface from 2015 to 2025, with the goal to assess the optimal marine microplastic removal locations for two scenarios: removing the most surface microplastic and reducing the impact on ecosystems, using plankton growth as a proxy. The simulations show that the optimal removal locations are primarily located off the coast of China and in the Indonesian Archipelago for both scenarios. Our estimates show that 31% of the modeled microplastic mass can be removed by 2025 using 29 plastic collectors operating at a 45% capture efficiency from these locations, compared to only 17% when the 29 plastic collectors are moored in the North Pacific garbage patch, between Hawaii and California. The overlap of ocean surface microplastics and phytoplankton growth can be reduced by 46% at our proposed locations, while sinks in the North Pacific can only reduce the overlap by 14%. These results are an indication that oceanic plastic removal might be more effective in removing a greater microplastic mass and in reducing potential harm to marine life when closer to shore than inside the plastic accumulation zones in the centers of the gyres.

  15. A Cloud Computing Model for Optimization of Transport Logistics Process

    Directory of Open Access Journals (Sweden)

    Benotmane Zineb

    2017-09-01

    Full Text Available In any increasing competitive environment and even in companies; we must adopt a good logistic chain management policy which is the main objective to increase the overall gain by maximizing profits and minimizing costs, including manufacturing costs such as: transaction, transport, storage, etc. In this paper, we propose a cloud platform of this chain logistic for decision support; in fact, this decision must be made to adopt new strategy for cost optimization, besides, the decision-maker must have knowledge on the consequences of this new strategy. Our proposed cloud computing platform has a multilayer structure; this later is contained from a set of web services to provide a link between applications using different technologies; to enable sending; and receiving data through protocols, which should be understandable by everyone. The chain logistic is a process-oriented business; it’s used to evaluate logistics process costs, to propose optimal solutions and to evaluate these solutions before their application. As a scenario, we have formulated the problem for the delivery process, and we have proposed a modified Bin-packing algorithm to improve vehicles loading.

  16. OPTIMIZATION METHOD AND SOFTWARE FOR FUEL COST REDUCTION IN CASE OF ROAD TRANSPORT ACTIVITY

    Directory of Open Access Journals (Sweden)

    György Kovács

    2017-06-01

    Full Text Available The transport activity is one of the most expensive processes in the supply chain and the fuel cost is the highest cost among the cost components of transportation. The goal of the research is to optimize the transport costs in case of a given transport task both by the selecting the optimal petrol station and by determining the optimal amount of the refilled fuel. Recently, in practice, these two decisions have not been made centrally at the forwarding company, but they depend on the individual decision of the driver. The aim of this study is to elaborate a precise and reliable mathematical method for selecting the optimal refuelling stations and determining the optimal amount of the refilled fuel to fulfil the transport demands. Based on the elaborated model, new decision-supporting software is developed for the economical fulfilment of transport trips.

  17. Hydrodynamic property of the cytoplasm is sufficient to mediate cytoplasmic streaming in the Caenorhabiditis elegans embryo

    Science.gov (United States)

    Niwayama, Ritsuya; Shinohara, Kyosuke; Kimura, Akatsuki

    2011-01-01

    Cytoplasmic streaming is a type of intracellular transport widely seen in nature. Cytoplasmic streaming in Caenorhabditis elegans at the one-cell stage is bidirectional; the flow near the cortex (“cortical flow”) is oriented toward the anterior, whereas the flow in the central region (“cytoplasmic flow”) is oriented toward the posterior. Both cortical flow and cytoplasmic flow depend on non-muscle-myosin II (NMY-2), which primarily localizes in the cortex. The manner in which NMY-2 proteins drive cytoplasmic flow in the opposite direction from remote locations has not been fully understood. In this study, we demonstrated that the hydrodynamic properties of the cytoplasm are sufficient to mediate the forces generated by the cortical myosin to drive bidirectional streaming throughout the cytoplasm. We quantified the flow velocities of cytoplasmic streaming using particle image velocimetry (PIV) and conducted a three-dimensional hydrodynamic simulation using the moving particle semiimplicit method. Our simulation quantitatively reconstructed the quantified flow velocity distribution resolved through PIV analysis. Furthermore, our PIV analyses detected microtubule-dependent flows during the pronuclear migration stage. These flows were reproduced via hydrodynamic interactions between moving pronuclei and the cytoplasm. The agreement of flow dynamics in vivo and in simulation indicates that the hydrodynamic properties of the cytoplasm are sufficient to mediate cytoplasmic streaming in C. elegans embryos. PMID:21730185

  18. Hydrodynamic property of the cytoplasm is sufficient to mediate cytoplasmic streaming in the Caenorhabditis elegans embryo.

    Science.gov (United States)

    Niwayama, Ritsuya; Shinohara, Kyosuke; Kimura, Akatsuki

    2011-07-19

    Cytoplasmic streaming is a type of intracellular transport widely seen in nature. Cytoplasmic streaming in Caenorhabditis elegans at the one-cell stage is bidirectional; the flow near the cortex ("cortical flow") is oriented toward the anterior, whereas the flow in the central region ("cytoplasmic flow") is oriented toward the posterior. Both cortical flow and cytoplasmic flow depend on non-muscle-myosin II (NMY-2), which primarily localizes in the cortex. The manner in which NMY-2 proteins drive cytoplasmic flow in the opposite direction from remote locations has not been fully understood. In this study, we demonstrated that the hydrodynamic properties of the cytoplasm are sufficient to mediate the forces generated by the cortical myosin to drive bidirectional streaming throughout the cytoplasm. We quantified the flow velocities of cytoplasmic streaming using particle image velocimetry (PIV) and conducted a three-dimensional hydrodynamic simulation using the moving particle semiimplicit method. Our simulation quantitatively reconstructed the quantified flow velocity distribution resolved through PIV analysis. Furthermore, our PIV analyses detected microtubule-dependent flows during the pronuclear migration stage. These flows were reproduced via hydrodynamic interactions between moving pronuclei and the cytoplasm. The agreement of flow dynamics in vivo and in simulation indicates that the hydrodynamic properties of the cytoplasm are sufficient to mediate cytoplasmic streaming in C. elegans embryos.

  19. Simulation and optimization of biomass harvest and transport system

    Energy Technology Data Exchange (ETDEWEB)

    Busato, Patricia; Berruto, Remigio; Piccarolo, Pietro [University of Turin (Italy). Dipt. di Economia e Ingegneria Agraria, Forestale e Ambientale (DEIAFA)], E-mail: patrizia.busato@unito.it

    2008-07-01

    The implementation of a biomass supply chain needs the delivery of good feasibility studies. Since biomass is characterized by low value and low energy density, the logistic costs is an important component in order to assess this feasibility. To design the logistics and estimate the costs is a complex task because the process consists of multiple work processes intensively interlinked. Bottlenecks within transport or unloading operations can reduce system capacity below the capacity of the harvester. A well-matched system can lower the cost of producing forages. The overall goal of this study was to present the combined use of both the simulation and linear programming models to optimize the flow of biomass from field to a power plant. The simulation predicted the overall system performance. The results from the simulation model were then used as input in the linear programming model, which chosen the best combination of equipment for each field distance and yield, in order to minimize the logistic costs, while satisfying some constraint like the number of hours available for harvest and the area to be harvested. The presented case study refers to corn silage harvest of an area of 4000 ha (72000 tDM). The logistic operation costs ranged from 17.00 Euros.tDM{sup -1} for 10 km to 31.86 Euros.tDM{sup -1} for 40 km biomass collection radius. The average unitary costs were respectively of 306 Euros.ha{sup -1} and 574 Euros.ha{sup -1}. (author)

  20. An optimized transport-of-intensity solution for phase imaging

    Science.gov (United States)

    Banerjee, Partha; Basunia, Mahmudunnabi; Poon, Ting-Chung; Zhang, Hongbo

    2016-05-01

    The transport-of-intensity equation (TIE) is often used to determine the phase and amplitude profile of a complex object by monitoring the intensities at different distances of propagation or around the image plane. TIE results from the imaginary part of the paraxial wave equation and is equivalent to the conservation of energy. The real part of the paraxial wave equation gives the eikonal equation in the presence of diffraction. Since propagation of the optical field between different planes is governed by the (paraxial) wave equation, both real and imaginary parts need to be satisfied at every propagation plane. In this work, the solution of the TIE is optimized by using the real part of the paraxial wave equation as a constraint. This technique is applied to the more exact determination of imaging the induced phase of a liquid heated by a focused laser beam, which has been previously computed using TIE only. Retrieval of imaged phase using the TIE is performed by using the constraint that naturally arises from the real part of the paraxial wave equation.

  1. Cytoplasmic dynein nomenclature

    Science.gov (United States)

    Pfister, K. Kevin; Fisher, Elizabeth M.C.; Gibbons, Ian R.; Hays, Thomas S.; Holzbaur, Erika L.F.; McIntosh, J. Richard; Porter, Mary E.; Schroer, Trina A.; Vaughan, Kevin T.; Witman, George B.; King, Stephen M.; Vallee, Richard B.

    2005-01-01

    A variety of names has been used in the literature for the subunits of cytoplasmic dynein complexes. Thus, there is a strong need for a more definitive consensus statement on nomenclature. This is especially important for mammalian cytoplasmic dyneins, many subunits of which are encoded by multiple genes. We propose names for the mammalian cytoplasmic dynein subunit genes and proteins that reflect the phylogenetic relationships of the genes and the published studies clarifying the functions of the polypeptides. This nomenclature recognizes the two distinct cytoplasmic dynein complexes and has the flexibility to accommodate the discovery of new subunits and isoforms. PMID:16260502

  2. Accessibility of cysteine residues in a cytoplasmic loop of CitS of Klebsiella pneumoniae is controlled by the catalytic state of the transporter

    NARCIS (Netherlands)

    Sobczak, [No Value; Lolkema, JS; Sobczak, Iwona

    2003-01-01

    The citrate transporter CAS of Klebsiella pneumoniae is a secondary transporter that transports citrate in symport with two sodium ions and one proton. Treatment of CAS with the alkylating, agent N-ethylmaleimide resulted in a complete loss of transport activity. Treatment of mutant proteins in whic

  3. Accessibility of cysteine residues in a cytoplasmic loop of CitS of Klebsiella pneumoniae is controlled by the catalytic state of the transporter

    NARCIS (Netherlands)

    Sobczak, [No Value; Lolkema, JS; Sobczak, Iwona

    2003-01-01

    The citrate transporter CAS of Klebsiella pneumoniae is a secondary transporter that transports citrate in symport with two sodium ions and one proton. Treatment of CAS with the alkylating, agent N-ethylmaleimide resulted in a complete loss of transport activity. Treatment of mutant proteins in whic

  4. Transportation optimization with fuzzy trapezoidal numbers based on possibility theory.

    Science.gov (United States)

    He, Dayi; Li, Ran; Huang, Qi; Lei, Ping

    2014-01-01

    In this paper, a parametric method is introduced to solve fuzzy transportation problem. Considering that parameters of transportation problem have uncertainties, this paper develops a generalized fuzzy transportation problem with fuzzy supply, demand and cost. For simplicity, these parameters are assumed to be fuzzy trapezoidal numbers. Based on possibility theory and consistent with decision-makers' subjectiveness and practical requirements, the fuzzy transportation problem is transformed to a crisp linear transportation problem by defuzzifying fuzzy constraints and objectives with application of fractile and modality approach. Finally, a numerical example is provided to exemplify the application of fuzzy transportation programming and to verify the validity of the proposed methods.

  5. Optimal transportation network with concave cost functions: loop analysis and algorithms.

    Science.gov (United States)

    Shao, Zhen; Zhou, Haijun

    2007-06-01

    Transportation networks play a vital role in modern societies. Structural optimization of a transportation system under a given set of constraints is an issue of great practical importance. For a general transportation system whose total cost C is determined by C = Sigma(ioptimal network topology is a tree if C(ij) proportional |I(ij)|(gamma) with 0 optimality of tree-formed networks is given. The simple intuitive picture of this proof then leads to an efficient global algorithm for the searching of optimal structures for a given transportation system with concave cost functions.

  6. Multi-scale characean experimental system: from electrophysiology of membrane transporters to cell-to-cell connectivity, cytoplasmic streaming and auxin metabolism.

    OpenAIRE

    Mary Jane Beilby

    2016-01-01

    The morphology of characean algae could be mistaken for a higher plant: stem-like axes with leaf-like branchlets anchored in the soil by root-like rhizoids. However, all of these structures are made up of giant multinucleate cells separated by multicellular nodal complexes. The excised internodal cells survive long enough for the nodes to give rise to new thallus. The size of the internodes and their thick cytoplasmic layer minimize impalement injury and allow specific micro-electrode placeme...

  7. Multi-Scale Characean Experimental System: From Electrophysiology of Membrane Transporters to Cell-to-Cell Connectivity, Cytoplasmic Streaming and Auxin Metabolism

    OpenAIRE

    Beilby, Mary J.

    2016-01-01

    The morphology of characean algae could be mistaken for a higher plant: stem-like axes with leaf-like branchlets anchored in the soil by root-like rhizoids. However, all of these structures are made up of giant multinucleate cells separated by multicellular nodal complexes. The excised internodal cells survive long enough for the nodes to give rise to new thallus. The size of the internodes and their thick cytoplasmic layer minimize impalement injury and allow specific micro-electrode placeme...

  8. Charge transport optimization in CZT ring-drift detectors

    Science.gov (United States)

    Boothman, V.; Alruhaili, A.; Perumal, V.; Sellin, P.; Lohstroh, A.; Sawhney, K.; Kachanov, S.

    2015-12-01

    Ring-drift design has been applied to large (7.5~\\text{mm}× 7.5~\\text{mm}× 2.3 mm) cadmium zinc telluride (CZT) devices. This low-noise, single-carrier-sensing configuration is the gold standard for spectroscopic silicon x-ray detectors. By combining the advantages of ring-drift with the high quantum efficiency and room-temperature operating capabilities of CZT, a simple and compact device for high-resolution spectroscopy of x-rays in the range 50-500 keV can be created. Quality of CZT crystals has improved greatly in recent years and electron-only sensing overcomes the problem of inherently poor hole transport in II-VI semiconductors. The spatial response of our 3-ring CZT device was studied by microbeam scanning while the voltages applied to all electrodes were systematically varied. Maximum active radius extended to 2.3 mm, beyond the second ring. Resolution was limited by electronic noise. Our results show that the lateral field and its ratio to the bulk field exert a crucial influence on active area, peak position and sensitivity. CZT and the device geometry were modelled in 3D with Sentaurus TCAD. Line scans were simulated and trends in performance with bias conditions matched experimental data, validating the model. We aimed to optimize the resolution, sensitivity and active radius of the device. Fields and charge drift were visualized and the active volume was mapped in 3D to improve understanding of the factors governing performance including number of rings, their widths, positions and bias.

  9. Real-Time Mass Passenger Transport Network Optimization Problems

    OpenAIRE

    2005-01-01

    The aim of Real-Time Mass Transport Vehicle Routing Problem (MTVRP) is to find a solution to route n vehicles in real time to pick up and deliver m passengers. This problem is described in the context of flexible large-scale mass transportation options that use new technologies for communication among passengers and vehicles. The solution of such a problem is relevant to future transportation options involving large scale real-time routing of shared-ride fleet transit vehicles. However, the g...

  10. Molecular classification of Maize cytoplasms in a breeding program

    Directory of Open Access Journals (Sweden)

    Colombo. N * , Presello, D.A. , Kandus M. , G.E. Eyherabide and J.C. Salerno

    2012-06-01

    Full Text Available Cytoplasmic male sterility (CMS is maternally inherited in most of higher plants species. Together with nuclear restorer genes (Rf, CMS cytoplasms contribute significantly to the efficient production of hybrid seed. Three main types of male sterile cytoplasms are known in maize: T, S and C, which can be distinguished by crossing with specific restorer lines. Recently, PCR markers have been developed allowing the identification of different cytoplasms quickly and accurately. Our objective was to classify the cytoplasm type of maize inbred lines used in our breeding program and F1s obtained from crosses between CMS lines and elite maize lines using PCR multiplex. A multiplex PCR protocol was optimized for our conditions. We obtained the molecular classification of the analyzed cytoplasms. The optimized protocol is a valuable tool to trace male sterile cytoplasms and determine hybrid seed purity in our maize breeding program.

  11. ENERGETICS OF ALANINE, LYSINE, AND PROLINE TRANSPORT IN CYTOPLASMIC MEMBRANES OF THE POLYPHOSPHATE-ACCUMULATING ACINETOBACTER-JOHNSONII STRAIN 210A

    NARCIS (Netherlands)

    VANVEEN, HW; ABEE, T; KLEEFSMAN, AWF; MELGERS, B; KORTSTEE, GJJ; KONINGS, WN; ZEHNDER, AJB

    1994-01-01

    Amino acid transport in right-side-out membrane vesicles of Acinetobacter johnsonii 210A was studied. L-Alanine, L-lysine, and L-proline were actively transported when a proton motive force of -76 mV tvas generated by the oxidation of glucose via the membrane-bound glucose dehydrogenase. Kinetic ana

  12. Computer-based modelling and optimization in transportation

    CERN Document Server

    Rossi, Riccardo

    2014-01-01

    This volume brings together works resulting from research carried out by members of the EURO Working Group on Transportation (EWGT) and presented during meetings and workshops organized by the Group under the patronage of the Association of European Operational Research Societies in 2012 and 2013. The main targets of the EWGT include providing a forum to share research information and experience, encouraging joint research and the development of both theoretical methods and applications, and promoting cooperation among the many institutions and organizations which are leaders at national level in the field of transportation and logistics. The primary fields of interest concern operational research methods, mathematical models and computation algorithms, to solve and sustain solutions to problems mainly faced by public administrations, city authorities, public transport companies, service providers and logistic operators. Related areas of interest are: land use and transportation planning, traffic control and ...

  13. Model Of Determining Amount Of City Transport Optimal City In Bandung

    Directory of Open Access Journals (Sweden)

    Aviasti Aviasti

    2016-09-01

    Full Text Available The research conducted is to make the model of determining the optimal transportation fleet in Bandung City, to overcome the imbalance between the number of available fleet and the number of passengers in need. This research type is quantitative with case study of two city transportation trajectory in the route of Sadang Serang Caringin and Riung Bandung Dago trajectory which at the time of preliminary research is categorized not optimal. To determine the optimal number of urban transport fleets, there are several variables associated with this include: number of passengers (P, fleet volume / frequency (F, vehicle capacity (C, cycle time (CTABA, load factor ( LF, and headway (H. The results showed that the number of public transport fleet for the route Dago - Riung Bandung and Sadang Serang - Caringin currently too much does not match the needs of the meaning is not optimal

  14. Cost optimization of biofuel production – The impact of scale, integration, transport and supply chain configurations

    NARCIS (Netherlands)

    de Jong, S.A.|info:eu-repo/dai/nl/41200836X; Hoefnagels, E.T.A.|info:eu-repo/dai/nl/313935998; Wetterlund, Elisabeth; Pettersson, Karin; Faaij, André; Junginger, H.M.|info:eu-repo/dai/nl/202130703

    2017-01-01

    This study uses a geographically-explicit cost optimization model to analyze the impact of and interrelation between four cost reduction strategies for biofuel production: economies of scale, intermodal transport, integration with existing industries, and distributed supply chain configurations

  15. Pareto optimal calibration of highly nonlinear reactive transport groundwater models using particle swarm optimization

    Science.gov (United States)

    Siade, A. J.; Prommer, H.; Welter, D.

    2014-12-01

    Groundwater management and remediation requires the implementation of numerical models in order to evaluate the potential anthropogenic impacts on aquifer systems. In many situations, the numerical model must, not only be able to simulate groundwater flow and transport, but also geochemical and biological processes. Each process being simulated carries with it a set of parameters that must be identified, along with differing potential sources of model-structure error. Various data types are often collected in the field and then used to calibrate the numerical model; however, these data types can represent very different processes and can subsequently be sensitive to the model parameters in extremely complex ways. Therefore, developing an appropriate weighting strategy to address the contributions of each data type to the overall least-squares objective function is not straightforward. This is further compounded by the presence of potential sources of model-structure errors that manifest themselves differently for each observation data type. Finally, reactive transport models are highly nonlinear, which can lead to convergence failure for algorithms operating on the assumption of local linearity. In this study, we propose a variation of the popular, particle swarm optimization algorithm to address trade-offs associated with the calibration of one data type over another. This method removes the need to specify weights between observation groups and instead, produces a multi-dimensional Pareto front that illustrates the trade-offs between data types. We use the PEST++ run manager, along with the standard PEST input/output structure, to implement parallel programming across multiple desktop computers using TCP/IP communications. This allows for very large swarms of particles without the need of a supercomputing facility. The method was applied to a case study in which modeling was used to gain insight into the mobilization of arsenic at a deepwell injection site

  16. Optimal efficiency of quantum transport in a disordered trimer.

    Science.gov (United States)

    Giusteri, Giulio G; Celardo, G Luca; Borgonovi, Fausto

    2016-03-01

    Disordered quantum networks, such as those describing light-harvesting complexes, are often characterized by the presence of peripheral ringlike structures, where the excitation is initialized, and inner structures and reaction centers (RCs), where the excitation is trapped and transferred. The peripheral rings often display distinguished coherent features: Their eigenstates can be separated, with respect to the transfer of excitation, into two classes of superradiant and subradiant states. Both are important to optimize transfer efficiency. In the absence of disorder, superradiant states have an enhanced coupling strength to the RC, while the subradiant ones are basically decoupled from it. Static on-site disorder induces a coupling between subradiant and superradiant states, thus creating an indirect coupling to the RC. The problem of finding the optimal transfer conditions, as a function of both the RC energy and the disorder strength, is very complex even in the simplest network, namely, a three-level system. In this paper we analyze such trimeric structure, choosing as the initial condition an excitation on a subradiant state, rather than the more common choice of an excitation localized on a single site. We show that, while the optimal disorder is of the order of the superradiant coupling, the optimal detuning between the initial state and the RC energy strongly depends on system parameters: When the superradiant coupling is much larger than the energy gap between the superradiant and the subradiant levels, optimal transfer occurs if the RC energy is at resonance with the subradiant initial state, whereas we find an optimal RC energy at resonance with a virtual dressed state when the superradiant coupling is smaller than or comparable to the gap. The presence of dynamical noise, which induces dephasing and decoherence, affects the resonance structure of energy transfer producing an additional incoherent resonance peak, which corresponds to the RC energy being

  17. OPTIMAL LOCALIZATION OF SPECIAL TRANSPORT AND LOGISTIC FOODSTUFF CENTRE

    Directory of Open Access Journals (Sweden)

    A. M. Pasichnyk

    2010-06-01

    Full Text Available On the basis of research of statistic indices of custom-house, the population and geographic location of cities of Donetsk region, the method of calculation of optimum placing of the specialized transport-logistical centre of foodstuff is offered.

  18. Modeling marine surface microplastic transport to assess optimal removal locations

    NARCIS (Netherlands)

    Sherman, Peter; Van Sebille, Erik

    2016-01-01

    Marine plastic pollution is an ever-increasing problem that demands immediate mitigation and reduction plans. Here, a model based on satellite-tracked buoy observations and scaled to a large data set of observations on microplastic from surface trawls was used to simulate the transport of plastics f

  19. In vitro placental model optimization for nanoparticle transport studies

    DEFF Research Database (Denmark)

    Cartwright, Laura; Poulsen, Marie Sønnegaard; Nielsen, Hanne Mørck

    2012-01-01

    , and confocal microscopy indicated both cellular uptake of the fluorescent polystyrene nanoparticles and the transcellular transport of these particles from the apical (maternal) to the basolateral (fetal) compartment. Over the course of 24 hours, the apparent permeability across BeWo cells grown...

  20. Modeling marine surface microplastic transport to assess optimal removal locations

    NARCIS (Netherlands)

    Sherman, Peter; Van Sebille, Erik|info:eu-repo/dai/nl/304831921

    2016-01-01

    Marine plastic pollution is an ever-increasing problem that demands immediate mitigation and reduction plans. Here, a model based on satellite-tracked buoy observations and scaled to a large data set of observations on microplastic from surface trawls was used to simulate the transport of plastics

  1. Optimal policy for mitigating emissions in the European transport sector

    Science.gov (United States)

    Leduc, Sylvain; Piera, Patrizio; Sennai, Mesfun; Igor, Staritsky; Berien, Elbersen; Tijs, Lammens; Florian, Kraxner

    2017-04-01

    A geographic explicit techno-economic model, BeWhere (www.iiasa.ac.at/bewhere), has been developed at the European scale (Europe 28, the Balkans countries, Turkey, Moldavia and Ukraine) at a 40km grid size, to assess the potential of bioenergy from non-food feedstock. Based on the minimization of the supply chain from feedstock collection to the final energy product distribution, the model identifies the optimal bioenergy production plants in terms of spatial location, technology and capacity. The feedstock of interests are woody biomass (divided into eight types from conifers and non-conifers) and five different crop residuals. For each type of feedstock, one or multiple technologies can be applied for either heat, electricity or biofuel production. The model is run for different policy tools such as carbon cost, biofuel support, or subsidies, and the optimal mix of technologies and biomass needed is optimized to reach a production cost competitive against the actual reference system which is fossil fuel based. From this approach, the optimal mix of policy tools that can be applied country wide in Europe will be identified. The preliminary results show that high carbon tax and biofuel support contribute to the development of large scale biofuel production based on woody biomass plants mainly located in the northern part of Europe. Finally the highest emission reduction is reached with low biofuel support and high carbon tax evenly distributed in Europe.

  2. Least dissipation principle of heat transport potential capacity and its application in heat conduction optimization

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    In the viewpoint of heat transfer, heat transport potential capacity and its dissipation are defined based on the essence of heat transport phenomenon. Respectively, their physical meanings are the overall heat transfer capabilityand the dissipation rate of the heat transfer capacity. Then the least dissipation principle of heat transport potential capacity is presented to enhance the heat conduction efficiency in the heat conduction optimization. The principle is,for a conduction process with the constant integral of the thermal conductivityover the region, the optimal distribution of thermal conductivity, which corresponds to the highest heat conduction efficiency, is characterized by the least dissipation of heat transport potential capacity. Finally the principle is applied to some cases in heat conduction optimization.

  3. Optimal transport for applied mathematicians calculus of variations, PDEs, and modeling

    CERN Document Server

    Santambrogio, Filippo

    2015-01-01

    This monograph presents a rigorous mathematical introduction to optimal transport as a variational problem, its use in modeling various phenomena, and its connections with partial differential equations. Its main goal is to provide the reader with the techniques necessary to understand the current research in optimal transport and the tools which are most useful for its applications. Full proofs are used to illustrate mathematical concepts and each chapter includes a section that discusses applications of optimal transport to various areas, such as economics, finance, potential games, image processing and fluid dynamics. Several topics are covered that have never been previously in books on this subject, such as the Knothe transport, the properties of functionals on measures, the Dacorogna-Moser flow, the formulation through minimal flows with prescribed divergence formulation, the case of the supremal cost, and the most classical numerical methods. Graduate students and researchers in both pure and appl...

  4. Optimization and Simulation of Collaborative Networks for Sustainable Production and Transportation

    DEFF Research Database (Denmark)

    Liotta, Giacomo; Kaihara, Toshiya; Stecca, Giuseppe

    2016-01-01

    Complex and delocalized manufacturing industries require high levels of integration between production and transportation in order to effectively implement lean and agile operations. There are, however, limitations in research and applications simultaneously embodying further sustainability...... dimensions. This paper presents a methodological framework based on optimization and simulation to integrate aggregate optimized plans for production and multimodal transportation with detailed dynamic distribution plans affected by demand uncertainty. The objective function of the optimization model...... considers supply, production, transportation, and CO2 emission costs, as well as collaboration over the multimodal network. Bill-of-materials and capacity constraints are included. A feedback between simulation and optimization is used to plan requirements for materials and components. Computational...

  5. Transcription factor NF-kappaB is transported to the nucleus via cytoplasmic dynein/dynactin motor complex in hippocampal neurons.

    Directory of Open Access Journals (Sweden)

    Ilja Mikenberg

    Full Text Available BACKGROUND: Long-term changes in synaptic plasticity require gene transcription, indicating that signals generated at the synapse must be transported to the nucleus. Synaptic activation of hippocampal neurons is known to trigger retrograde transport of transcription factor NF-kappaB. Transcription factors of the NF-kappaB family are widely expressed in the nervous system and regulate expression of several genes involved in neuroplasticity, cell survival, learning and memory. PRINCIPAL FINDINGS: In this study, we examine the role of the dynein/dynactin motor complex in the cellular mechanism targeting and transporting activated NF-kappaB to the nucleus in response to synaptic stimulation. We demonstrate that overexpression of dynamitin, which is known to dissociate dynein from microtubules, and treatment with microtubule-disrupting drugs inhibits nuclear accumulation of NF-kappaB p65 and reduces NF-kappaB-dependent transcription activity. In this line, we show that p65 is associated with components of the dynein/dynactin complex in vivo and in vitro and that the nuclear localization sequence (NLS within NF-kappaB p65 is essential for this binding. CONCLUSION: This study shows the molecular mechanism for the retrograde transport of activated NF-kappaB from distant synaptic sites towards the nucleus.

  6. Integrated modeling for optimized regional transportation with compressed natural gas fuel

    Directory of Open Access Journals (Sweden)

    Hossam A. Gabbar

    2016-03-01

    Full Text Available Transportation represents major energy consumption where fuel is considered as a primary energy source. Recent development in the vehicle technology revealed possible economical improvements when using natural gas as a fuel source instead of traditional gasoline. There are several fuel alternatives such as electricity, which showed potential for future long-term transportation. However, the move from current situation where gasoline vehicle is dominating shows high cost compared to compressed natural gas vehicle. This paper presents modeling and simulation methodology to optimize performance of transportation based on quantitative study of the risk-based performance of regional transportation. Emission estimation method is demonstrated and used to optimize transportation strategies based on life cycle costing. Different fuel supply scenarios are synthesized and evaluated, which showed strategic use of natural gas as a fuel supply.

  7. Simulation Optimization for Transportation System: A Real Case Application

    Directory of Open Access Journals (Sweden)

    Muhammet Enes Akpınar

    2017-02-01

    Full Text Available Simulation applications help decision makers to give right decisions to eliminate some problems such as: create a new firm, need some changes inside a factory; improve the process of a hospital etc. In this engineering simulation study, there are two points which are used by students to arrive at the University. Initial point is the train station and the final point is the arrival point. Students’ transportation is provided with buses. The main problem is to decide the number of buses by taking number of student into consideration. To be able to solve this real-life application PROMODEL pack software is used.

  8. Optimal resource allocation in random networks with transportation bandwidths

    Science.gov (United States)

    Yeung, C. H.; Wong, K. Y. Michael

    2009-03-01

    We apply statistical physics to study the task of resource allocation in random sparse networks with limited bandwidths for the transportation of resources along the links. Recursive relations from the Bethe approximation are converted into useful algorithms. Bottlenecks emerge when the bandwidths are small, causing an increase in the fraction of idle links. For a given total bandwidth per node, the efficiency of allocation increases with the network connectivity. In the high connectivity limit, we find a phase transition at a critical bandwidth, above which clusters of balanced nodes appear, characterized by a profile of homogenized resource allocation similar to the Maxwell construction.

  9. Optimized Superconducting Quadrupole Arrays for Multiple Beam Transport

    Energy Technology Data Exchange (ETDEWEB)

    Meinke, Rainer, B.; Goodzeit, Carl, L.; Ball, Millicent, J.

    2005-09-20

    This research project advanced the development of reliable, cost-effective arrays of superconducting quadrupole magnets for use in multi-beam inertial fusion accelerators. The field in each array cell must be identical and meet stringent requirements for field quality and strength. An optimized compact array design using flat double-layer pancake coils was developed. Analytical studies of edge termination methods showed that it is feasible to meet the requirements for field uniformity in all cells and elimination of stray external field in several ways: active methods that involve placement of field compensating coils on the periphery of the array or a passive method that involves use of iron shielding.

  10. Price of anarchy in transportation networks: efficiency and optimality control.

    Science.gov (United States)

    Youn, Hyejin; Gastner, Michael T; Jeong, Hawoong

    2008-09-19

    Uncoordinated individuals in human society pursuing their personally optimal strategies do not always achieve the social optimum, the most beneficial state to the society as a whole. Instead, strategies form Nash equilibria which are often socially suboptimal. Society, therefore, has to pay a price of anarchy for the lack of coordination among its members. Here we assess this price of anarchy by analyzing the travel times in road networks of several major cities. Our simulation shows that uncoordinated drivers possibly waste a considerable amount of their travel time. Counterintuitively, simply blocking certain streets can partially improve the traffic conditions. We analyze various complex networks and discuss the possibility of similar paradoxes in physics.

  11. Optimization for vehicle scheduling in iron and steel works based on semi-trailer swap transport

    Institute of Scientific and Technical Information of China (English)

    CHENG Yao-rong; LIANG Bo; ZHOU Mei-hua

    2010-01-01

    In order to solve internal logistics problems of iron and steel works,such as low transportation efficiency of cehicles and high transportation cost,the production process and traditional transportation style of iron and steel work were introduced.The internal transport tasks of iron and steel works were grouped based on cluster analysis according to demand time of the transportation. An improved vehicle scheduling model of semi-trailer swap transport among loading nodes and unloading nodes in one task group was set up.The algorithm was designed to silve the vehicle routing problem with simultaneous pick-up and delivery (CRPSPD)problem based on semi-trailer swap transport.A solving program was written by MATLAB software and the method to figure out the optimal path of each grouping was obtainde.The dropping and pulling transportation plan of the tractor wan designed.And an decerase the numbers of semi-trailer swap transport in iron and steel works was given.The results indicate that semi-trailer swap transport can steel works,and the total distance traveled reduces by 43.5%.The semi-trailer swap transport can help the iron and steel works develop the productiong in intension.

  12. Optimal wall spacing for heat transport in thermal convection

    Energy Technology Data Exchange (ETDEWEB)

    Shishkina, Olga [Max Planck Institute for Dynamics and Self-Organization, Goettingen (Germany)

    2016-11-01

    The simulation of RB flow for Ra up to 1 x 10{sup 10} is computationally expensive in terms of computing power and hard disk storage. Thus, we gratefully acknowledge the computational resources supported by Leibniz-Rechenzentrum Munich. Compared to Γ=1 situation, a new physical picture of heat transport is identified here at Γ{sub opt} for any explored Ra. Therefore, a detailed comparison between Γ=1 and Γ=Γ{sub opt} is valuable for our further research, for example, their vertical temperature and velocity profiles. Additionally, we plan to compare the fluid with different Pr under geometrical confinement, which are computationally expensive for the situations of Pr<<1 and Pr>>1.

  13. Vectorising the detector geometry to optimize particle transport

    CERN Document Server

    Apostolakis, John; Carminati, Federico; Gheata, Andrei; Wenzel, Sandro

    2014-01-01

    Among the components contributing to particle transport, geometry navigation is an important consumer of CPU cycles. The tasks performed to get answers to "basic" queries such as locating a point within a geometry hierarchy or computing accurately the distance to the next boundary can become very computing intensive for complex detector setups. So far, the existing geometry algorithms employ mainly scalar optimisation strategies (voxelization, caching) to reduce their CPU consumption. In this paper, we would like to take a different approach and investigate how geometry navigation can benefit from the vector instruction set extensions that are one of the primary source of performance enhancements on current and future hardware. While on paper, this form of microparallelism promises increasing performance opportunities, applying this technology to the highly hierarchical and multiply branched geometry code is a difficult challenge. We refer to the current work done to vectorise an important part of the critica...

  14. Optimized e-Transportation System customized to user need

    Directory of Open Access Journals (Sweden)

    Ankita Bihani

    2013-06-01

    Full Text Available This paper presents a web portal that plans the entire trip for the user comfortably in a single web portal. It provides all possible connections between a specified source and destination. The user can prioritize between the cheapest, the fastest and the shortest route available and make online reservations. The system also gives the option of a multi-city round trip. Concepts of graph theory anddata structures have been used for optimizing the algorithms. This has reduced the average response time of the system for a user query by 0.2 seconds as compared to the existing system. Besides, the systemoffers additional functionalities like travel counseling, users’ experience sharing forum and hotel booking which makes the system more acceptable to the users.

  15. Optimal Bayesian experimental design for contaminant transport parameter estimation

    CERN Document Server

    Tsilifis, Panagiotis; Hajali, Paris

    2015-01-01

    Experimental design is crucial for inference where limitations in the data collection procedure are present due to cost or other restrictions. Optimal experimental designs determine parameters that in some appropriate sense make the data the most informative possible. In a Bayesian setting this is translated to updating to the best possible posterior. Information theoretic arguments have led to the formation of the expected information gain as a design criterion. This can be evaluated mainly by Monte Carlo sampling and maximized by using stochastic approximation methods, both known for being computationally expensive tasks. We propose an alternative framework where a lower bound of the expected information gain is used as the design criterion. In addition to alleviating the computational burden, this also addresses issues concerning estimation bias. The problem of permeability inference in a large contaminated area is used to demonstrate the validity of our approach where we employ the massively parallel vers...

  16. Cost Optimization for Series-Parallel Petroleum Transportation Pape-Lines under Reliability Constraints

    Directory of Open Access Journals (Sweden)

    M. Amara,

    2014-01-01

    Full Text Available This paper uses an ant colony meta-heuristic optimization method to solve the cost-optimization problem in petrolum industry. This problem is known as total investment-cost minimization of series-parallel transportation pape lines. Redundant Electro-Pumpe coupled to the papes lines are included to achieve a desired level of availability. System availability is represented by a multi-state availability function. The Electro-pumpe (pape-lines are characterized by their capacity, availability and cost. These electro-pumpes are chosen among a list of products available on the market. The proposed meta-heuristic seeks to find the best minimal cost of petrol transportation system configuration with desired availability. To estimate the series-parallel pape lines availability, a fast method based on universal moment generating function (UMGF is suggested. The ant colony approach is used as an optimization technique. An example of petrol transportation system is presented.

  17. One of the methods for optimizing a part of supply chain by using transportation problem model

    Directory of Open Access Journals (Sweden)

    Ostojić-Dabić Svetlana A.

    2016-01-01

    Full Text Available Supply chain is coordinated system of people, resources, information, etc., involved in the movement of materials from a state of raw materials to final customer, and to ensure the integration of all participants and the exchange of information along the entire supply chain.. One of potential problem of SC that is the subject of optimization and with whose improvement is achieved a series of effects - economic, environmental, etc. is transportation problem. The choice of method for optimization of this problem has a significant impact on the quality of the solutions, which are shown in this paper on the example of the supply chain of fruit producing company. The paper applied two algorithms to optimize part of the supply chain: exact and heuristic. The result of their use is the reduction of the transport operation, as well as insight into the overall way that the transport part of the supply chain function, and the possibilities for its improvement.

  18. The Optimization of Transportation Costs in Logistics Enterprises with Time-Window Constraints

    Directory of Open Access Journals (Sweden)

    Qingyou Yan

    2015-01-01

    Full Text Available This paper presents a model for solving a multiobjective vehicle routing problem with soft time-window constraints that specify the earliest and latest arrival times of customers. If a customer is serviced before the earliest specified arrival time, extra inventory costs are incurred. If the customer is serviced after the latest arrival time, penalty costs must be paid. Both the total transportation cost and the required fleet size are minimized in this model, which also accounts for the given capacity limitations of each vehicle. The total transportation cost consists of direct transportation costs, extra inventory costs, and penalty costs. This multiobjective optimization is solved by using a modified genetic algorithm approach. The output of the algorithm is a set of optimal solutions that represent the trade-off between total transportation cost and the fleet size required to service customers. The influential impact of these two factors is analyzed through the use of a case study.

  19. Optimization of transport network in the Basin of Yangtze River with minimization of environmental emission and transport/investment costs

    Directory of Open Access Journals (Sweden)

    Haiping Shi

    2016-08-01

    Full Text Available The capacity of the ship-lock at the Three Gorges Dam has become bottleneck of waterway transport and caused serious congestion. In this article, a continual network design model is established to solve the problem with minimizing the transport cost and environmental emission as well as infrastructure construction cost. In this bi-level model, the upper model gives the schemes of ship-lock expansion or construction of pass-dam highway. The lower model assigns the containers in the multi-mode network and calculates the transport cost, environmental emission, and construction investment. The solution algorithm to the model is proposed. In the numerical study, scenario analyses are done to evaluate the schemes and determine the optimal one in the context of different traffic demands. The result shows that expanding the ship-lock is better than constructing pass-dam highway.

  20. An optimal transport approach for seismic tomography: application to 3D full waveform inversion

    Science.gov (United States)

    Métivier, L.; Brossier, R.; Mérigot, Q.; Oudet, E.; Virieux, J.

    2016-11-01

    The use of optimal transport distance has recently yielded significant progress in image processing for pattern recognition, shape identification, and histograms matching. In this study, the use of this distance is investigated for a seismic tomography problem exploiting the complete waveform; the full waveform inversion. In its conventional formulation, this high resolution seismic imaging method is based on the minimization of the L 2 distance between predicted and observed data. Application of this method is generally hampered by the local minima of the associated L 2 misfit function, which correspond to velocity models matching the data up to one or several phase shifts. Conversely, the optimal transport distance appears as a more suitable tool to compare the misfit between oscillatory signals, for its ability to detect shifted patterns. However, its application to the full waveform inversion is not straightforward, as the mass conservation between the compared data cannot be guaranteed, a crucial assumption for optimal transport. In this study, the use of a distance based on the Kantorovich-Rubinstein norm is introduced to overcome this difficulty. Its mathematical link with the optimal transport distance is made clear. An efficient numerical strategy for its computation, based on a proximal splitting technique, is introduced. We demonstrate that each iteration of the corresponding algorithm requires solving the Poisson equation, for which fast solvers can be used, relying either on the fast Fourier transform or on multigrid techniques. The development of this numerical method make possible applications to industrial scale data, involving tenths of millions of discrete unknowns. The results we obtain on such large scale synthetic data illustrate the potentialities of the optimal transport for seismic imaging. Starting from crude initial velocity models, optimal transport based inversion yields significantly better velocity reconstructions than those based on

  1. Cytoplasm Affects Embryonic Development

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    @@ Recent studies by CAS researchers furnish strong evidence that a fertilized egg's nucleus isn't the sole site of control for an embryo's development. A research team headed by Prof. Zhu Zuoyan from the CAS Institute of Hydrobiology in Wuhan discovered that cytoplasm affects the number of vertebrae in cloned offspring created when nuclei from one fish genus were transplanted to enucleated eggs of another.

  2. Enhancing the accelerated beam current in the booster synchrotron by optimizing the transport line beam propagation

    Indian Academy of Sciences (India)

    Saini R S; Tyagi Y; Ghodke A D; Puntambekar T A

    2016-04-01

    In this paper, we present the results of transverse beam emittance and twiss parameter measurement of an electron beam, delivered by a 20 MeV microtron which is used as a pre-injector system for a booster synchrotron in the Indus Accelerator Facility at RRCAT Indore. Based on these measured beam parameters, beam optics of a transport line was optimized and its results are alsodiscussed in this paper. This beam transport line is used to transport the electron beam from the 20MeV microtron to the booster synchrotron. The booster synchrotron works as a main injector for Indus-1 and Indus-2 synchrotron radiation facilities. To optimize the beam optics of a transport linefor proper beam transmission through the line as well as to match the beam twiss parameters at the beam injection point of another accelerator, it is necessary to know the transverse beam emittance and twiss parameters of the beam coming from the first one. A MATLAB-based GUI program has been developed to calculate the beam emittance and twiss parameters, using quadrupole scanmethod. The measured parameters have been used for beam transport line optimization and twiss parameters matching at booster injection point. After this optimization, an enhancement of ∼50% beam current has been observed in the booster synchrotron.

  3. Cytoplasmic Z-RNA

    Energy Technology Data Exchange (ETDEWEB)

    Zarling, D.A.; Calhoun, C.J.; Hardin, C.C.; Zarling, A.H.

    1987-09-01

    Specific immunochemical probes for Z-RNA were generated and characterized to search for possible Z-RNA-like double helices in cells. Z-RNA was detected in the cytoplasm of fixed protozoan cells by immunofluorescence microscopy using these anti-Z-RNA IgCs. In contrast, autoimmune or experimentally elicited anti-DNA antibodies, specifically reactive with B-DNA or Z-DNA, stained the nuclei. Pre-or nonimmune IgGs did not bind to the cells. RNase A or T1 digestion eliminated anti-Z-RNA IgG binding to cytoplasmic determinants; however, DNase I or mung bean nuclease had no effect. Doxorubicin and ethidium bromide prevented anti-Z-RNA antibody binding; however, actinomycin D, which does not bind double-stranded RNA, did not. Anti-Z-RNA immunofluorescence was specifically blocked in competition assays by synthetic Z-RNA but not Z-DNA, A-RNA, or single-stranded RNAs. Thus, some cytoplasmic sequences in fixed cells exist in the left-handed Z-RNA conformation.

  4. Phase transitions and optimal transport in stochastic roundabout traffic

    Science.gov (United States)

    Foulaadvand, M. Ebrahim; Maass, Philipp

    2016-07-01

    We study traffic in a roundabout model, where the dynamics along the interior lane of the roundabout are described by the totally asymmetric simple exclusion process (TASEP). Vehicles can enter the interior lane or exit from it via S intersecting streets with given rates, and locally modified dynamics at the junctions take into account that collisions of entering vehicles with vehicles approaching the entrance point from the interior lane should be avoided. A route matrix specifies the probabilities for vehicles to arrive from and to exit to certain intersecting streets. By subdividing the interior lane into segments between consecutive intersecting streets with effective entrance and exit rates, a classification of the stationary roundabout traffic in terms of TASEP multiphases is given, where each segment can be in either the low-density, high-density, or maximum current TASEP phase. A general methodology is developed, which allows one to calculate the multiphases and optimal throughput conditions based on a mean-field treatment. Explicit analytical results from this treatment are derived for equivalent interesting streets. The results are shown to be in good agreement with kinetic Monte Carlo simulations.

  5. Optimization of transport passage with dragline system in thick overburden open pit mine

    Institute of Scientific and Technical Information of China (English)

    Zhang Weishi; Cai Qingxiang; Chen Shuzhao

    2013-01-01

    According to the characteristics of opencast coal resources and dragline technology system application in China, the structure and shifting step of transport passage are optimized in this paper. Typical coal trans-port passage is analyzed in aspects such as the internal dump occupation, dragline operation efficiency, coal transport distance, upper stripping distance and shifting quantities. The middle passage should be given priority in thick overburden open pit mine because the dragline system is only responsible for part stripping task. According to characteristics of middle passage, the transport passage is divided into par-allel climbing, vertical climbing and horizontal transport. In addition, the transport passage structure optimization model and shifting distance optimization model are established in this paper. The case study in Heidaigou open pit mine shows that, the parallel climbing height is accounted for about 60%of the total height, and reasonable shifting distances of the first mining area and the second mining area are 240 and 320 m. Sensitivity analysis shows that, the total passage height has important influence on the shifting step, so it is with the stripping height and passage construction cost to the passage structure.

  6. A multiobjective optimization approach to the operation and investment of the national energy and transportation systems

    Science.gov (United States)

    Ibanez, Eduardo

    Most U.S. energy usage is for electricity production and vehicle transportation, two interdependent infrastructures. The strength and number of the interdependencies will increase rapidly as hybrid electric transportation systems, including plug-in hybrid electric vehicles and hybrid electric trains, become more prominent. There are several new energy supply technologies reaching maturity, accelerated by public concern over global warming. The National Energy and Transportation Planning Tool (NETPLAN) is the implementation of the long-term investment and operation model for the transportation and energy networks. An evolutionary approach with underlying fast linear optimization are in place to determine the solutions with the best investment portfolios in terms of cost, resiliency and sustainability, i.e., the solutions that form the Pareto front. The popular NSGA-II algorithm is used as the base for the multiobjective optimization and metrics are developed for to evaluate the energy and transportation portfolios. An integrating approach to resiliency is presented, allowing the evaluation of high-consequence events, like hurricanes or widespread blackouts. A scheme to parallelize the multiobjective solver is presented, along with a decomposition method for the cost minimization program. The modular and data-driven design of the software is presented. The modeling tool is applied in a numerical example to optimize the national investment in energy and transportation in the next 40 years.

  7. Cytoplasmic Streaming in the Drosophila Oocyte.

    Science.gov (United States)

    Quinlan, Margot E

    2016-10-06

    Objects are commonly moved within the cell by either passive diffusion or active directed transport. A third possibility is advection, in which objects within the cytoplasm are moved with the flow of the cytoplasm. Bulk movement of the cytoplasm, or streaming, as required for advection, is more common in large cells than in small cells. For example, streaming is observed in elongated plant cells and the oocytes of several species. In the Drosophila oocyte, two stages of streaming are observed: relatively slow streaming during mid-oogenesis and streaming that is approximately ten times faster during late oogenesis. These flows are implicated in two processes: polarity establishment and mixing. In this review, I discuss the underlying mechanism of streaming, how slow and fast streaming are differentiated, and what we know about the physiological roles of the two types of streaming.

  8. Xenopus egg cytoplasm with intact actin.

    Science.gov (United States)

    Field, Christine M; Nguyen, Phuong A; Ishihara, Keisuke; Groen, Aaron C; Mitchison, Timothy J

    2014-01-01

    We report optimized methods for preparing Xenopus egg extracts without cytochalasin D, that we term "actin-intact egg extract." These are undiluted egg cytoplasm that contains abundant organelles, and glycogen which supplies energy, and represents the least perturbed cell-free cytoplasm preparation we know of. We used this system to probe cell cycle regulation of actin and myosin-II dynamics (Field et al., 2011), and to reconstitute the large, interphase asters that organize early Xenopus embryos (Mitchison et al., 2012; Wühr, Tan, Parker, Detrich, & Mitchison, 2010). Actin-intact Xenopus egg extracts are useful for analysis of actin dynamics, and interaction of actin with other cytoplasmic systems, in a cell-free system that closely mimics egg physiology, and more generally for probing the biochemistry and biophysics of the egg, zygote, and early embryo. Detailed protocols are provided along with assays used to check cell cycle state and tips for handling and storing undiluted egg extracts.

  9. Understanding the sub-cellular dynamics of silicon transportation and synthesis in diatoms using population-level data and computational optimization.

    Science.gov (United States)

    Javaheri, Narjes; Dries, Roland; Kaandorp, Jaap

    2014-06-01

    Controlled synthesis of silicon is a major challenge in nanotechnology and material science. Diatoms, the unicellular algae, are an inspiring example of silica biosynthesis, producing complex and delicate nano-structures. This happens in several cell compartments, including cytoplasm and silica deposition vesicle (SDV). Considering the low concentration of silicic acid in oceans, cells have developed silicon transporter proteins (SIT). Moreover, cells change the level of active SITs during one cell cycle, likely as a response to the level of external nutrients and internal deposition rates. Despite this topic being of fundamental interest, the intracellular dynamics of nutrients and cell regulation strategies remain poorly understood. One reason is the difficulties in measurements and manipulation of these mechanisms at such small scales, and even when possible, data often contain large errors. Therefore, using computational techniques seems inevitable. We have constructed a mathematical model for silicon dynamics in the diatom Thalassiosira pseudonana in four compartments: external environment, cytoplasm, SDV and deposited silica. The model builds on mass conservation and Michaelis-Menten kinetics as mass transport equations. In order to find the free parameters of the model from sparse, noisy experimental data, an optimization technique (global and local search), together with enzyme related penalty terms, has been applied. We have connected population-level data to individual-cell-level quantities including the effect of early division of non-synchronized cells. Our model is robust, proven by sensitivity and perturbation analysis, and predicts dynamics of intracellular nutrients and enzymes in different compartments. The model produces different uptake regimes, previously recognized as surge, externally-controlled and internally-controlled uptakes. Finally, we imposed a flux of SITs to the model and compared it with previous classical kinetics. The model

  10. Understanding the sub-cellular dynamics of silicon transportation and synthesis in diatoms using population-level data and computational optimization.

    Directory of Open Access Journals (Sweden)

    Narjes Javaheri

    2014-06-01

    Full Text Available Controlled synthesis of silicon is a major challenge in nanotechnology and material science. Diatoms, the unicellular algae, are an inspiring example of silica biosynthesis, producing complex and delicate nano-structures. This happens in several cell compartments, including cytoplasm and silica deposition vesicle (SDV. Considering the low concentration of silicic acid in oceans, cells have developed silicon transporter proteins (SIT. Moreover, cells change the level of active SITs during one cell cycle, likely as a response to the level of external nutrients and internal deposition rates. Despite this topic being of fundamental interest, the intracellular dynamics of nutrients and cell regulation strategies remain poorly understood. One reason is the difficulties in measurements and manipulation of these mechanisms at such small scales, and even when possible, data often contain large errors. Therefore, using computational techniques seems inevitable. We have constructed a mathematical model for silicon dynamics in the diatom Thalassiosira pseudonana in four compartments: external environment, cytoplasm, SDV and deposited silica. The model builds on mass conservation and Michaelis-Menten kinetics as mass transport equations. In order to find the free parameters of the model from sparse, noisy experimental data, an optimization technique (global and local search, together with enzyme related penalty terms, has been applied. We have connected population-level data to individual-cell-level quantities including the effect of early division of non-synchronized cells. Our model is robust, proven by sensitivity and perturbation analysis, and predicts dynamics of intracellular nutrients and enzymes in different compartments. The model produces different uptake regimes, previously recognized as surge, externally-controlled and internally-controlled uptakes. Finally, we imposed a flux of SITs to the model and compared it with previous classical kinetics

  11. An Agent-Based Model for Optimization of Road Width and Public Transport Frequency

    Directory of Open Access Journals (Sweden)

    Mark E. Koryagin

    2015-04-01

    Full Text Available An urban passenger transportation problem is studied. Municipal authorities and passengers are regarded as participants in the passenger transportation system. The municipal authorities have to optimise road width and public transport frequency. The road consists of a dedicated bus lane and lanes for passenger cars. The car travel time depends on the number of road lanes and passengers’ choice of travel mode. The passengers’ goal is to minimize total travel costs, including time value. The passengers try to find the optimal ratio between public transport and cars. The conflict between municipal authorities and the passengers is described as a game theoretic model. The existence of Nash equilibrium in the model is proved. The numerical example shows the influence of the value of time and intensity of passenger flow on the equilibrium road width and public transport frequency.

  12. Designing an optimal transportation method of short sea shipping in Yemen

    Institute of Scientific and Technical Information of China (English)

    海山; Zhigeng; Fang

    2015-01-01

    Today,it’s hard to imagine a transport world without short sea shipping.Not only does this modern version of coastal shipping experience no delays due to road congestion,low road assessment,also has the lowest transportation cost and co2 emission of all commercial transport modes.For these reasons,short sea shipping is in many cases a perfect alternative to road transport.In this research paper we designed an optimal transportation method of short sea shipping in Yemen to lower the country transportation cost of commercial goods,since Yemen is unfavorable in terms of transportation infrastructure,hard level of mountainous areas and roads are generally poor,short sea shipping is a great alternative to road transport.We collected data and computed the cost of short sea shipping in a multi stage method(warehouse and distribution centers) saving an average of 40% to 50% of transportation cost than if delivered by direct road to road.This research paper and its methodologies have favorable results in all studied aspects.

  13. Designing an optimal transportation method of short sea shipping in Yemen

    Institute of Scientific and Technical Information of China (English)

    2015-01-01

    Today,it’s hard to imagine a transport world without short sea shipping.Not only does this modern version of coastal shipping experience no delays due to road congestion,low road assessment,also has the lowest transportation cost and co2 emission of all commercial transport modes.For these reasons,short sea shipping is in many cases a perfect alternative to road transport.In this research paper we designed an optimal transportation method of short sea shipping in Yemen to lower the country transportation cost of commercial goods,since Yemen is unfavorable in terms of transportation infrastructure,hard level of mountainous areas and roads are generally poor,short sea shipping is a great alternative to road transport.We collected data and computed the cost of short sea shipping in a multi stage method (warehouse and distribution centers) saving an average of 40%to 50%of transportation cost than if delivered by direct road to road. This research paper and its methodologies have favorable results in all studied aspects.

  14. ANK, a host cytoplasmic receptor for the Tobacco mosaic virus cell-to-cell movement protein, facilitates intercellular transport through plasmodesmata.

    Directory of Open Access Journals (Sweden)

    Shoko Ueki

    Full Text Available Plasmodesma (PD is a channel structure that spans the cell wall and provides symplastic connection between adjacent cells. Various macromolecules are known to be transported through PD in a highly regulated manner, and plant viruses utilize their movement proteins (MPs to gate the PD to spread cell-to-cell. The mechanism by which MP modifies PD to enable intercelluar traffic remains obscure, due to the lack of knowledge about the host factors that mediate the process. Here, we describe the functional interaction between Tobacco mosaic virus (TMV MP and a plant factor, an ankyrin repeat containing protein (ANK, during the viral cell-to-cell movement. We utilized a reverse genetics approach to gain insight into the possible involvement of ANK in viral movement. To this end, ANK overexpressor and suppressor lines were generated, and the movement of MP was tested. MP movement was facilitated in the ANK-overexpressing plants, and reduced in the ANK-suppressing plants, demonstrating that ANK is a host factor that facilitates MP cell-to-cell movement. Also, the TMV local infection was largely delayed in the ANK-suppressing lines, while enhanced in the ANK-overexpressing lines, showing that ANK is crucially involved in the infection process. Importantly, MP interacted with ANK at PD. Finally, simultaneous expression of MP and ANK markedly decreased the PD levels of callose, β-1,3-glucan, which is known to act as a molecular sphincter for PD. Thus, the MP-ANK interaction results in the downregulation of callose and increased cell-to-cell movement of the viral protein. These findings suggest that ANK represents a host cellular receptor exploited by MP to aid viral movement by gating PD through relaxation of their callose sphincters.

  15. An Optimized Version of a New Absolute Linear Encoder Dedicated to Intelligent Transportation Systems

    DEFF Research Database (Denmark)

    Argeseanu, Alin; Ritchie, Ewen; Leban, Krisztina Monika

    2009-01-01

    made in the coding algorithm, in the ruler topology and in the dedicated software. The optimized ALE is a robust device able to work in industrial environment, with a high level of vibrations. By this reason it is ideal for the transport system control in automating manufacturing processes, intelligent...

  16. A freight transport optimization model for integrated network, service, and policy design

    NARCIS (Netherlands)

    Zhang, M.; Janic, M.; Tavasszy, L.A.

    2015-01-01

    This paper presents a freight transport optimization model that simultaneously incorporates multimodal infrastructure, hub-based service network structures, and the various design objectives of multiple actors. The model has been calibrated and validated using real-life data from the case study of

  17. Progress Towards Optimally Efficient Schemes for Monte Carlo Thermal Radiation Transport

    Energy Technology Data Exchange (ETDEWEB)

    Smedley-Stevenson, R P; Brooks III, E D

    2007-09-26

    In this summary we review the complementary research being undertaken at AWE and LLNL aimed at developing optimally efficient algorithms for Monte Carlo thermal radiation transport based on the difference formulation. We conclude by presenting preliminary results on the application of Newton-Krylov methods for solving the Symbolic Implicit Monte Carlo (SIMC) energy equation.

  18. Optimal paths planning in dynamic transportation networks with random link travel times

    Institute of Scientific and Technical Information of China (English)

    孙世超; 段征宇; 杨东援

    2014-01-01

    A theoretical study was conducted on finding optimal paths in transportation networks where link travel times were stochastic and time-dependent (STD). The methodology of relative robust optimization was applied as measures for comparing time-varying, random path travel times for a priori optimization. In accordance with the situation in real world, a stochastic consistent condition was provided for the STD networks and under this condition, a mathematical proof was given that the STD robust optimal path problem can be simplified into a minimum problem in specific time-dependent networks. A label setting algorithm was designed and tested to find travelers’ robust optimal path in a sampled STD network with computation complexity of O(n2+n·m). The validity of the robust approach and the designed algorithm were confirmed in the computational tests. Compared with conventional probability approach, the proposed approach is simple and efficient, and also has a good application prospect in navigation system.

  19. Cytoplasmic streaming velocity as a plant size determinant.

    Science.gov (United States)

    Tominaga, Motoki; Kimura, Atsushi; Yokota, Etsuo; Haraguchi, Takeshi; Shimmen, Teruo; Yamamoto, Keiichi; Nakano, Akihiko; Ito, Kohji

    2013-11-11

    Cytoplasmic streaming is active transport widely occurring in plant cells ranging from algae to angiosperms. Although it has been revealed that cytoplasmic streaming is generated by organelle-associated myosin XI moving along actin bundles, the fundamental function in plants remains unclear. We generated high- and low-speed chimeric myosin XI by replacing the motor domains of Arabidopsis thaliana myosin XI-2 with those of Chara corallina myosin XI and Homo sapiens myosin Vb, respectively. Surprisingly, the plant sizes of the transgenic Arabidopsis expressing high- and low-speed chimeric myosin XI-2 were larger and smaller, respectively, than that of the wild-type plant. This size change correlated with acceleration and deceleration, respectively, of cytoplasmic streaming. Our results strongly suggest that cytoplasmic streaming is a key determinant of plant size. Furthermore, because cytoplasmic streaming is a common system for intracellular transport in plants, our system could have applications in artificial size control in plants.

  20. Measuring the misfit between seismograms using an optimal transport distance: application to full waveform inversion

    Science.gov (United States)

    Métivier, L.; Brossier, R.; Mérigot, Q.; Oudet, E.; Virieux, J.

    2016-04-01

    Full waveform inversion using the conventional L2 distance to measure the misfit between seismograms is known to suffer from cycle skipping. An alternative strategy is proposed in this study, based on a measure of the misfit computed with an optimal transport distance. This measure allows to account for the lateral coherency of events within the seismograms, instead of considering each seismic trace independently, as is done generally in full waveform inversion. The computation of this optimal transport distance relies on a particular mathematical formulation allowing for the non-conservation of the total energy between seismograms. The numerical solution of the optimal transport problem is performed using proximal splitting techniques. Three synthetic case studies are investigated using this strategy: the Marmousi 2 model, the BP 2004 salt model, and the Chevron 2014 benchmark data. The results emphasize interesting properties of the optimal transport distance. The associated misfit function is less prone to cycle skipping. A workflow is designed to reconstruct accurately the salt structures in the BP 2004 model, starting from an initial model containing no information about these structures. A high-resolution P-wave velocity estimation is built from the Chevron 2014 benchmark data, following a frequency continuation strategy. This estimation explains accurately the data. Using the same workflow, full waveform inversion based on the L2 distance converges towards a local minimum. These results yield encouraging perspectives regarding the use of the optimal transport distance for full waveform inversion: the sensitivity to the accuracy of the initial model is reduced, the reconstruction of complex salt structure is made possible, the method is robust to noise, and the interpretation of seismic data dominated by reflections is enhanced.

  1. Effects of optimal initial errors on predicting the seasonal reduction of the upstream Kuroshio transport

    Science.gov (United States)

    Zhang, Kun; Wang, Qiang; Mu, Mu; Liang, Peng

    2016-10-01

    With the Regional Ocean Modeling System (ROMS), we realistically simulated the transport variations of the upstream Kuroshio (referring to the Kuroshio from its origin to the south of Taiwan), particularly for the seasonal transport reduction. Then, we investigated the effects of the optimal initial errors estimated by the conditional nonlinear optimal perturbation (CNOP) approach on predicting the seasonal transport reduction. Two transport reduction events (denoted as Event 1 and Event 2) were chosen, and CNOP1 and CNOP2 were obtained for each event. By examining the spatial structures of the two types of CNOPs, we found that the dominant amplitudes are located around (128°E, 17°N) horizontally and in the upper 1000 m vertically. For each event, the two CNOPs caused large prediction errors. Specifically, at the prediction time, CNOP1 (CNOP2) develops into an anticyclonic (cyclonic) eddy-like structure centered around 124°E, leading to the increase (decrease) of the upstream Kuroshio transport. By investigating the time evolution of the CNOPs in Event 1, we found that the eddy-like structures originating from east of Luzon gradually grow and simultaneously propagate westward. The eddy-energetic analysis indicated that the errors obtain energy from the background state through barotropic and baroclinic instabilities and that the latter plays a more important role. These results suggest that improving the initial conditions in east of Luzon could lead to better prediction of the upstream Kuroshio transport variation.

  2. Particle Swarm Optimization for inverse modeling of solute transport in fractured gneiss aquifer

    Science.gov (United States)

    Abdelaziz, Ramadan; Zambrano-Bigiarini, Mauricio

    2014-08-01

    Particle Swarm Optimization (PSO) has received considerable attention as a global optimization technique from scientists of different disciplines around the world. In this article, we illustrate how to use PSO for inverse modeling of a coupled flow and transport groundwater model (MODFLOW2005-MT3DMS) in a fractured gneiss aquifer. In particular, the hydroPSO R package is used as optimization engine, because it has been specifically designed to calibrate environmental, hydrological and hydrogeological models. In addition, hydroPSO implements the latest Standard Particle Swarm Optimization algorithm (SPSO-2011), with an adaptive random topology and rotational invariance constituting the main advancements over previous PSO versions. A tracer test conducted in the experimental field at TU Bergakademie Freiberg (Germany) is used as case study. A double-porosity approach is used to simulate the solute transport in the fractured Gneiss aquifer. Tracer concentrations obtained with hydroPSO were in good agreement with its corresponding observations, as measured by a high value of the coefficient of determination and a low sum of squared residuals. Several graphical outputs automatically generated by hydroPSO provided useful insights to assess the quality of the calibration results. It was found that hydroPSO required a small number of model runs to reach the region of the global optimum, and it proved to be both an effective and efficient optimization technique to calibrate the movement of solute transport over time in a fractured aquifer. In addition, the parallel feature of hydroPSO allowed to reduce the total computation time used in the inverse modeling process up to an eighth of the total time required without using that feature. This work provides a first attempt to demonstrate the capability and versatility of hydroPSO to work as an optimizer of a coupled flow and transport model for contaminant migration.

  3. Optimizing Air Transportation Service to Metroplex Airports. Par 2; Analysis Using the Airline Schedule Optimization Model (ASOM)

    Science.gov (United States)

    Donoue, George; Hoffman, Karla; Sherry, Lance; Ferguson, John; Kara, Abdul Qadar

    2010-01-01

    The air transportation system is a significant driver of the U.S. economy, providing safe, affordable, and rapid transportation. During the past three decades airspace and airport capacity has not grown in step with demand for air transportation; the failure to increase capacity at the same rate as the growth in demand results in unreliable service and systemic delay. This report describes the results of an analysis of airline strategic decision-making that affects geographic access, economic access, and airline finances, extending the analysis of these factors using historic data (from Part 1 of the report). The Airline Schedule Optimization Model (ASOM) was used to evaluate how exogenous factors (passenger demand, airline operating costs, and airport capacity limits) affect geographic access (markets-served, scheduled flights, aircraft size), economic access (airfares), airline finances (profit), and air transportation efficiency (aircraft size). This analysis captures the impact of the implementation of airport capacity limits, as well as the effect of increased hedged fuel prices, which serve as a proxy for increased costs per flight that might occur if auctions or congestion pricing are imposed; also incorporated are demand elasticity curves based on historical data that provide information about how passenger demand is affected by airfare changes.

  4. Optimal transport of cold atoms by modulating the velocity of traps

    Institute of Scientific and Technical Information of China (English)

    Han Jing-Shan; Xu Xin-Ping; Zhang Hai-Chao; Wang Yu-Zhu

    2013-01-01

    This work experimentally demonstrates a new method of optimizing the transport of cold atoms via modulating the velocity profile imposed on a magnetic quadrupole trap.The trap velocity and corresponding modulation are controlled by varying the currents of two pairs of anti-Helmholtz coils.Cold 87Rb atoms are transported in a non-adiabatic regime over 22 mm in 200 ms.For the transported atoms their final-vibration amplitude dependences of modulation period number,depth,and initial phase are investigated.With modulation period n =5,modulation depth K =0.55,and initial phase φ =0,cold atom clouds with more atom numbers,smaller final-vibration amplitude,and lower temperature are efficiently transported.Theoretical analysis and numerical simulation are also provided,which are in good agreement with experimental results.

  5. The choice of directions for optimization of Ukrainian marine transport potential

    Directory of Open Access Journals (Sweden)

    Igor Kolegaev

    2013-06-01

    Full Text Available A proper marine transport development should provide independence of foreign trade and increase efficiency of national economy due to expansion of transport services export. However, to achieve these goals, optimization of investments and proper development and management of functional activity of fleet and ports are required. Normalized development and marine transport potential of a country, as shown by the experience of world’s leading maritime states, predetermine high functional efficiency of capital assets and freight independence of a country with respect to international division of labour. Thus development and production activity of fleet and ports influence a country’s investment complex activity as maritime transport is a large consumer of other branches resources.

  6. Railway optimal network simulation for the development of regional transport-logistics system

    Directory of Open Access Journals (Sweden)

    Mikhail Borisovich Petrov

    2013-12-01

    Full Text Available The dependence of logistics on mineral fuel is a stable tendency of regions development, though when making strategic plans of logistics in the regions, it is necessary to provide the alternative possibilities of power-supply sources change together with population density, transport infrastructure peculiarities, and demographic changes forecast. On the example of timber processing complex of the Sverdlovsk region, the authors suggest the algorithm of decision of the optimal logistics infrastructure allocation. The problem of regional railway network organization at the stage of slow transition from the prolonged stagnation to the new development is carried out. The transport networks’ configurations of countries on the Pacific Rim, which successfully developed nowadays, are analyzed. The authors offer some results of regional transport network simulation on the basis of artificial intelligence method. These methods let to solve the task with incomplete data. The ways of the transport network improvement in the Sverdlovsk region are offered.

  7. CFD-optimization algorithm to optimize the energy transport in pultruded polymer composites

    Directory of Open Access Journals (Sweden)

    L. S. Santos

    2012-09-01

    Full Text Available Pultrusion is a composite manufacturing process in which fibers are pulled continuously through a resin bath for resin impregnation before entering into a heated die, where an exothermic cure reaction occurs. The energy needed to provide the cure reaction depends on many aspects such as cure kinetics and pulling speed. Generally, the pultrusion forming is divided in heat zones that can be heated at different temperature levels. The temperature distribution on the die surface can greatly affect material quality and energy cost. In the present work, through a CFD (Computational Fluid Dynamics algorithm, it was possible to verify that the energy requirements can be reduced by changing the heating configuration of the pultrusion die. For this, an alternative configuration with internal heaters inside the die body was simulated. The heating rate was considered as the objective function. For the optimization study, we used a stochastic algorithm, the so-called particle swarm optimization (PSO algorithm. The results showed that the energy spent to cure the resin-fiber system can be reduced considerably.

  8. Optimizing transport logistics taking into account the state of roads and road traffic

    Directory of Open Access Journals (Sweden)

    Shikul’skaya Ol’ga Mikhaylovna

    2015-12-01

    Full Text Available The choice and use of rational routes at strict observance of deliveries terms help to achieve not only minimization of operational expenses, but also to reduce commodity and production stocks in warehouses by 1,5...2 times. Therefore special relevance is gained by the works allowing precisely calculating the volumes of a cargo transportation, to count the quantity of transport units necessary for providing cargo flow, to define the rational routes of transportation, and also to reduce total costs of transportation. On the basis of the analysis of the known mathematical methods applied in transport logistics, the authors drew a conclusion that the route of freight delivery is estimated according to the distance passed by the vehicle. However the time of freight delivery depends not only on distance, but also on a set of other factors, such as vehicle type, road capacity, intensity of transport stream, weather conditions, season and others. For taking note of additional factors when optimizing a freight delivery route the method of analogy and similarity is used by the authors. The transportation parameters were estimated by analogy with an electric chain. For this purpose the authors entered the new concepts “fictitious distance” and “conductivity of the road”. The mathematical model allowing optimizing the organization of freight delivery taking into account not only distances, but also the probable speed of the vehicle movement depending on the road quality, intensity of transport stream and weather conditions is developed. Further development of the system of decision-making support while choosing the optimum route of cargo delivery is planned.

  9. Hierarchical transport networks optimizing dynamic response of permeable energy-storage materials.

    Science.gov (United States)

    Nilson, Robert H; Griffiths, Stewart K

    2009-07-01

    Channel widths and spacing in latticelike hierarchical transport networks are optimized to achieve maximum extraction of gas or electrical charge from nanoporous energy-storage materials during charge and discharge cycles of specified duration. To address a range of physics, the effective transport diffusivity is taken to vary as a power, m , of channel width. Optimal channel widths and spacing in all levels of the hierarchy are found to increase in a power-law manner with normalized system size, facilitating the derivation of closed-form approximations for the optimal dimensions. Characteristic response times and ratios of channel width to spacing are both shown to vary by the factor 2/m between successive levels of any optimal hierarchy. This leads to fractal-like self-similar geometry, but only for m=2 . For this case of quadratic dependence of diffusivity on channel width, the introduction of transport channels permits increases in system size on the order of 10;{4} , 10;{8} , and 10;{10} , without any reduction in extraction efficiency, for hierarchies having 1, 2 and, 8 levels, respectively. However, we also find that for a given system size there is an optimum number of hierarchical levels that maximizes extraction efficiency.

  10. Multi-objective dynamic optimization model for China's road transport energy technology switching

    Institute of Scientific and Technical Information of China (English)

    Dan GAO; Zheng LI; Feng FU; Linwei MA

    2009-01-01

    Deducting the future switching of the road transport energy technology is one of the key preconditions for relative technology development planning. However,one of the difficulties is to address the issue of multi-objective and conflicting constrains, e.g., minimizing the climate mitigation or minimizing economic cost. In this paper, a dynamic optimization model was established, which can be used to analyze the road transport energy technology switching under multi-objective constrains.Through one case study, a series of solutions could be derived to provide decision-makers with the flexibility to choose the appropriate solution with respect to the given situation.

  11. Computing the time-continuous Optimal Mass Transport Problem without Lagrangian techniques

    CERN Document Server

    Besson, Olivier; Pousin, Jérôme

    2010-01-01

    This work originates from a heart's images tracking which is to generate an apparent continuous motion, observable through intensity variation from one starting image to an ending one both supposed segmented. Given two images p0 and p1, we calculate an evolution process p(t, \\cdot) which transports p0 to p1 by using the optimal extended optical flow. In this paper we propose an algorithm based on a fixed point formulation and a time-space least squares formulation of the mass conservation equation for computing the optimal mass transport problem. The strategy is implemented in a 2D case and numerical results are presented with a first order Lagrange finite element, showing the efficiency of the proposed strategy.

  12. New efficient optimal mass transport approach for single freeform surface design

    CERN Document Server

    Bösel, Christoph

    2015-01-01

    We present a new optimal mass transport approach for the design of a continuous single freeform surface for collimated beams. By applying the law of reflection/refraction and the well-known integrability condition, it is shown that the design process in a small angle approximation can be decoupled into the calculation of a raymapping by optimal mass transport methods and the subsequent construction of the freeform surface by a steady linear advection equation. It is shown that the solution of this linear advection equation can be obtained by a decomposition into two dimensional subproblems and solving these by standard integrals. The efficiency of the method is demonstrated by applying it to two challenging design examples.

  13. Optimization on Emergency Resources Transportation Network Based on Bayes Risk Function: A Case Study

    Directory of Open Access Journals (Sweden)

    Changfeng Zhu

    2016-01-01

    Full Text Available In order to coordinate the complex relationship between supplies distribution and path selection, some influential factors must be taken into account such as the insufficient remaining capacity of the road and uncertainty of travel time during supplies distribution and transportation. After the structure of emergency logistics network is analyzed, the travel time Bayes risk function of path and the total loss Bayes risk function of the disaster area are proposed. With the emergency supplies total transportation unit loss as the goal, an emergency logistics network optimization model under crowded conditions is established by the Bayes decision theory and solved by the improved ant colony algorithm. Then, a case of the model is validated to prove that the emergency logistics network optimization model is effective in congested conditions.

  14. Cytoplasmic Male Sterility in Maize

    Institute of Scientific and Technical Information of China (English)

    RONG Ting-zhao; LI Wan-chen; CAO Mo-ju; HU Chang-yuan

    2002-01-01

    14 isoplasmic and allonuclear cytoplasmic male sterile lines were used as female parents, 8 tester lines as male parents, 101 F1 progenies were obtained. Fertility restoration response of 101 F1 progenies were investigated through field observation and pollen stainability examination under microscope. 14 isoplasmic and allonuclear cytoplasmic male sterile lines were developed by repeated backcross with recurrent male parent lines for more than 8 generations. The result shows: tester line Zifeng1 not only restored the isoplasmic and allonuclear sterile lines of group C backcrossed with Mo17, Yu30 and Heer, but also completely restored the isoplasmic and allonuclear cytoplasm male sterile lines of group T backcrossed with Mo17, HZS , 1792 ,292 and Yu30. Therefore, nuclear background limits the use of Zifeng1 as a tester for identification of cytoplasmic male sterility. Furthermore RFLPs of mitochondrial DNA of 6 isonuclear and alloplasmic cytoplasmic male sterile lines were analyzed with Bam H Ⅰ and Hind Ⅲ restriction endonuclease and mitochondrial DNA probes pBcmH3 and Cox Ⅱ. The same RFLPs were found within sterile cytoplasm of group C, including C,Chuan G, Lei 2 and Lei 3, but a different RFLP pattern was observed among sterile cytoplasm of group S, C,T and the normal cytoplasm. This result suggested that the RFLP markers tightly linked to sterile mitochondrial genes of different groups could be applied in the identifcation of cytoplasmic male sterility.

  15. Adjoint gradient-based approach for aerodynamic optimization of transport aircraft

    OpenAIRE

    Ilic, Caslav

    2013-01-01

    Aerodynamic design of transport aircraft has been steadily improved over past several decades, to the point where today highly-detailed shape control is needed to achieve further improvements. Aircraft manufacturers are therefore increasingly looking into formal optimization methods, driving high-fidelity CFD analysis of finely-parametrized candidate designs. We present an adjoint gradient-based approach for maximizing the aerodynamic performance index relevant to cruise-climb mission segment...

  16. Optimal estimation of zonal velocity and transport through Luzon Strait using variational data assimilation technique

    Institute of Scientific and Technical Information of China (English)

    LAN Jian; BAO Xianwen; GAO Guoping

    2004-01-01

    A P-vector method was optimized using variational data assimilation technique, with which the vertical structures and seasonal variations of zonal velocities and transports were investigated. The results showed that westward and eastward flowes occur in the Luzon Strait in the same period in a year. However the net volume transport is westward. In the upper level (0m - -500m),the westward flow exits in the middle and south of the Luzon Strait, and the eastward flow exits in the north. There are two centers of westward flow and one center of eastward flow. In the middle of the Luzon Strait, westward and eastward flowes appear alternately in vertical direction. The westward flow strengthens in winter and weakens in summer. The net volume transport is strong in winter (5.53 Sv) but weak in summer (0.29 Sv). Except in summer, the volume transport in the upper level accounts for more than half of the total volume transport (0m - bottom). In summer, the net volume transport in the upper level is eastward (1.01 Sv), but westward underneath.

  17. Galloping Trajectory Generation of a Legged Transport Robot Based on Energy Consumption Optimization

    Directory of Open Access Journals (Sweden)

    Yaguang Zhu

    2016-01-01

    Full Text Available Legged walking robots have very strong operation ability in the complex surface and they are very suitable for transportation of tools, materials, and equipment in unstructured environment. Aiming at the problems of energy consumption of legged transport robot during the fast moving, a method of galloping trajectory planning based on energy consumption optimization is proposed. By establishing transition angle polynomials of flight phase, lift-off phase, and stance phase and constraint condition between each state phase, the locomotion equations of the ellipse trajectory are derived. The transition angle of each state phase is introduced into the system energy consumption equations, and the energy optimization index based on transition angles is established. Inverse kinematics solution and trajectory planning in one gait cycle are applied to genetic algorithm process to solve the nonlinear programming problem. The results show that the optimized distribution of transition angles of state phases is more reasonable, and joint torques and system energy consumption are reduced effectively. Thus, the method mentioned above has a great significance to realize fast operation outdoors of transport robot.

  18. Optimization of solenoid based low energy beam transport line for high current H+ beams

    Science.gov (United States)

    Pande, R.; Singh, P.; Rao, S. V. L. S.; Roy, S.; Krishnagopal, S.

    2015-02-01

    A 20 MeV, 30 mA CW proton linac is being developed at BARC, Mumbai. This linac will consist of an ECR ion source followed by a Radio Frequency Quadrupole (RFQ) and Drift tube Linac (DTL). The low energy beam transport (LEBT) line is used to match the beam from the ion source to the RFQ with minimum beam loss and increase in emittance. The LEBT is also used to eliminate the unwanted ions like H2+ and H3+ from entering the RFQ. In addition, space charge compensation is required for transportation of such high beam currents. All this requires careful design and optimization. Detailed beam dynamics simulations have been done to optimize the design of the LEBT using the Particle-in-cell code TRACEWIN. We find that with careful optimization it is possible to transport a 30 mA CW proton beam through the LEBT with 100% transmission and minimal emittance blow up, while at the same time suppressing unwanted species H2+ and H3+ to less than 3.3% of the total beam current.

  19. Problems of optimal transportation on the circle and their mechanical applications

    Science.gov (United States)

    Plakhov, Alexander; Tchemisova, Tatiana

    2017-02-01

    We consider a mechanical problem concerning a 2D axisymmetric body moving forward on the plane and making slow turns of fixed magnitude about its axis of symmetry. The body moves through a medium of non-interacting particles at rest, and collisions of particles with the body's boundary are perfectly elastic (billiard-like). The body has a blunt nose: a line segment orthogonal to the symmetry axis. It is required to make small cavities with special shape on the nose so as to minimize its aerodynamic resistance. This problem of optimizing the shape of the cavities amounts to a special case of the optimal mass transportation problem on the circle with the transportation cost being the squared Euclidean distance. We find the explicit solution for this problem when the amplitude of rotation is smaller than a fixed critical value, and give a numerical solution otherwise. As a by-product, we get explicit description of the solution for a class of optimal transportation problems on the circle.

  20. Optimal discontinuous finite element methods for the Boltzmann transport equation with arbitrary discretisation in angle

    Energy Technology Data Exchange (ETDEWEB)

    Merton, S.R. [Computational Physics Group, AWE, Aldermaston, Reading, Berkshire RG7 4PR (United Kingdom)], E-mail: simon.merton@awe.co.uk; Pain, C.C. [Computational Physics and Geophysics Group, Department of Earth Science and Engineering, Imperial College London, London SW7 2A7 (United Kingdom); Smedley-Stevenson, R.P. [Computational Physics Group, AWE, Aldermaston, Reading, Berkshire RG7 4PR (United Kingdom); Buchan, A.G.; Eaton, M.D. [Computational Physics and Geophysics Group, Department of Earth Science and Engineering, Imperial College London, London SW7 2A7 (United Kingdom)

    2008-09-15

    This paper describes the development of two optimal discontinuous finite element (FE) Riemann methods and their application to the one-speed Boltzmann transport equation in the steady-state. The proposed methods optimise the amount of dissipation applied in the streamline direction. This dissipation is applied within an element using a novel Riemann FE method, which is based on an analogy between control volume discretisation methods and finite element methods when integration by parts is applied to the transport terms. In one-dimension the optimal finite element solutions match the analytical solution exactly at each outlet node. Both schemes couple elements in space via a Riemann approach. The first of the two schemes is a Petrov-Galerkin (PG) method which introduces dissipation via the equation residual. The second scheme uses a streamline diffusion stabilisation term in the discretisation. These two methods provide a discontinuous Petrov-Galerkin (DPG) scheme that can stabilise an element across the full range of radiation regimes, obtaining robust solutions with suppressed oscillation. Three basis functions in angle of particle travel have been implemented in an optimal DPG Riemann solver, which include the P{sub N} (spherical harmonic), S{sub N} (discrete ordinate) and LW{sub N} (linear octahedral wavelet) angular expansions. These methods are applied to a series of demanding two-dimensional radiation transport problems.

  1. MULTICRITERIА PROBLEM OF FINDING THE OPTIMAL PATHS FOR LARGE-SCALE TRANSPORT SYSTEM

    Directory of Open Access Journals (Sweden)

    Pavlov D. A.

    2015-11-01

    Full Text Available This article explores the multicriteria problems arise in the organization of routes in large-scale transport management system. As a mathematical tool for constructing a model, we were using the prefractal graphs. Prefractal graphs naturally reflect structure of the device of communications of transport system, reflecting its important features – locality and differentiation. Locality is provided with creation of internal routes (city, raionwide, etc.. Differentiation is understood as division of routes on intra regional, interregional and international. The objective is reduced to a covering of prefractal graphs by the simple paths which are crossed on edges and nodes. On the set of feasible solutions, vector criterion function with certain criteria is based. In concepts of transport system, the given criteria have concrete substantial interpretation, the transport routes allowing to design considering features of system. In this article, we construct polynomial algorithms for finding optimal according to certain criteria decision. By the criteria which aren't optimizing the allocated routes their estimates of the lower and upper bounds are given. On all given algorithms the estimates of computing complexity confirming advantage of use of methods of prefractal and fractal graphs before classical methods of the theory of graphs are constructed and proved

  2. A generalized model for optimal transport of images including dissipation and density modulation

    KAUST Repository

    Maas, Jan

    2015-11-01

    © EDP Sciences, SMAI 2015. In this paper the optimal transport and the metamorphosis perspectives are combined. For a pair of given input images geodesic paths in the space of images are defined as minimizers of a resulting path energy. To this end, the underlying Riemannian metric measures the rate of transport cost and the rate of viscous dissipation. Furthermore, the model is capable to deal with strongly varying image contrast and explicitly allows for sources and sinks in the transport equations which are incorporated in the metric related to the metamorphosis approach by Trouvé and Younes. In the non-viscous case with source term existence of geodesic paths is proven in the space of measures. The proposed model is explored on the range from merely optimal transport to strongly dissipative dynamics. For this model a robust and effective variational time discretization of geodesic paths is proposed. This requires to minimize a discrete path energy consisting of a sum of consecutive image matching functionals. These functionals are defined on corresponding pairs of intensity functions and on associated pairwise matching deformations. Existence of time discrete geodesics is demonstrated. Furthermore, a finite element implementation is proposed and applied to instructive test cases and to real images. In the non-viscous case this is compared to the algorithm proposed by Benamou and Brenier including a discretization of the source term. Finally, the model is generalized to define discrete weighted barycentres with applications to textures and objects.

  3. Optimal Control of Scalar Conservation Laws Using Linear/Quadratic Programming: Application to Transportation Networks

    KAUST Repository

    Li, Yanning

    2014-03-01

    This article presents a new optimal control framework for transportation networks in which the state is modeled by a first order scalar conservation law. Using an equivalent formulation based on a Hamilton-Jacobi (H-J) equation and the commonly used triangular fundamental diagram, we pose the problem of controlling the state of the system on a network link, in a finite horizon, as a Linear Program (LP). We then show that this framework can be extended to an arbitrary transportation network, resulting in an LP or a Quadratic Program. Unlike many previously investigated transportation network control schemes, this method yields a globally optimal solution and is capable of handling shocks (i.e., discontinuities in the state of the system). As it leverages the intrinsic properties of the H-J equation used to model the state of the system, it does not require any approximation, unlike classical methods that are based on discretizations of the model. The computational efficiency of the method is illustrated on a transportation network. © 2014 IEEE.

  4. An Optimal Allocation Model of Public Transit Mode Proportion for the Low-Carbon Transportation

    Directory of Open Access Journals (Sweden)

    Linjun Lu

    2015-01-01

    Full Text Available Public transit has been widely recognized as a potential way to develop low-carbon transportation. In this paper, an optimal allocation model of public transit mode proportion (MPMP has been built to achieve the low-carbon public transit. Optimal ratios of passenger traffic for rail, bus, and taxi are derived by running the model using typical data. With different values of traffic demand, construction cost, travel time, and accessibilities, MPMP can generate corresponding optimal ratios, benefiting decision impacts analysis and decision makers. Instead of considering public transit as a united system, it is separated into units in this paper. And Shanghai is used to test model validity and practicality.

  5. Using optimal transport theory to estimate transition probabilities in metapopulation dynamics

    Science.gov (United States)

    Nichols, Jonathan M.; Spendelow, Jeffrey A.; Nichols, James

    2017-01-01

    This work considers the estimation of transition probabilities associated with populations moving among multiple spatial locations based on numbers of individuals at each location at two points in time. The problem is generally underdetermined as there exists an extremely large number of ways in which individuals can move from one set of locations to another. A unique solution therefore requires a constraint. The theory of optimal transport provides such a constraint in the form of a cost function, to be minimized in expectation over the space of possible transition matrices. We demonstrate the optimal transport approach on marked bird data and compare to the probabilities obtained via maximum likelihood estimation based on marked individuals. It is shown that by choosing the squared Euclidean distance as the cost, the estimated transition probabilities compare favorably to those obtained via maximum likelihood with marked individuals. Other implications of this cost are discussed, including the ability to accurately interpolate the population's spatial distribution at unobserved points in time and the more general relationship between the cost and minimum transport energy.

  6. Toward Optimized Bioclogging and Biocementation Through Combining Advanced Geophysical Monitoring and Reactive Transport Modeling Approaches

    Science.gov (United States)

    Hubbard, C. G.; Hubbard, S. S.; Wu, Y.; Surasani, V.; Ajo Franklin, J. B.; Commer, M.; Dou, S.; Kwon, T.; Li, L.; Fouke, B. W.; Coates, J. D.

    2012-12-01

    Bioclogging and biocementation offer exciting opportunities for solutions to diverse problems ranging from soil stabilization to microbially enhanced hydrocarbon recovery. The effectiveness of bioclogging and biocementation strategies is governed by processes and properties ranging from microbial metabolism at the submicron scale, to changes in pore geometry at the pore scale, to geological heterogeneities at the field scale. Optimization of these strategies requires advances in mechanistic reactive transport modeling and geophysical monitoring methodologies. Our research focuses on (i) performing laboratory experiments to refine understanding of reaction networks and to quantify changes in hydrological properties (e.g. permeability), the evolution of biominerals and geophysical responses (focusing on seismic and electrical techniques); (ii) developing and using a reactive transport simulator capable of predicting the induced metabolic processes to numerically explore how to optimize the desired effect; and (iii) using loosely coupled reactive transport and geophysical simulators to explore detectability and resolvability of induced bioclogging and biocementation processes at the field scale using time-lapse geophysical methods. Here we present examples of our research focused on three different microbially-mediated methods to enhance hydrocarbon recovery through selective clogging of reservior thief zones, including: (a) biopolymer clogging through dextran production; (b) biomineral clogging through iron oxide precipitation; and (c) biomineral clogging through carbonate precipitation. We will compare the utility of these approaches for enhancing hydrocarbon recovery and will describe the utility of geophysical methods to remotely monitor associated field treatments.

  7. Combinatorial optimization of CO2 transport and fixation to improve succinate production by promoter engineering.

    Science.gov (United States)

    Yu, Jun-Han; Zhu, Li-Wen; Xia, Shi-Tao; Li, Hong-Mei; Tang, Ya-Ling; Liang, Xin-Hua; Chen, Tao; Tang, Ya-Jie

    2016-07-01

    To balance the flux of an engineered metabolic pathway to achieve high yield of target product is a major challenge in metabolic engineering. In previous work, the collaborative regulation of CO2 transport and fixation was investigated with co-overexpressing exogenous genes regulating both CO2 transport (sbtA and bicA) and PEP carboxylation (phosphoenolpyruvate (PEP) carboxylase (ppc) and carboxykinase (pck)) under trc promoter in Escherichia coli for succinate biosynthesis. For balancing metabolic flux to maximize succinate titer, a combinatorial optimization strategy to fine-tuning CO2 transport and fixation process was implemented by promoter engineering in this study. Firstly, based on the energy matrix a synthetic promoter library containing 20 rationally designed promoters with strengths ranging from 0.8% to 100% compared with the widely used trc promoter was generated. Evaluations of rfp and cat reporter genes provided evidence that the synthetic promoters were stably and had certain applicability. Secondly, four designed promoters with different strengths were used for combinatorial assembly of single CO2 transport gene (sbtA or bicA) and single CO2 fixation gene (ppc or pck) expression. Three combinations, such as Tang1519 (P4 -bicA + pP19 -pck), Tang1522 (P4 -sbtA + P4 -ppc), Tang1523 (P4 -sbtA + P17 -ppc) with a more than 10% increase in succinate production were screened in bioreactor. Finally, based on the above results, co-expression of the four transport and fixation genes were further investigated. Co-expression of sbtA, bicA, and ppc with weak promoter P4 and pck with strong promoter P19 (AFP111/pT-P4 -bicA-P4 -sbtA + pACYC-P19 -pck-P4 -ppc) provided the best succinate production among all the combinations. The highest succinate production of 89.4 g/L was 37.5% higher than that obtained with empty vector control. This work significantly enhanced succinate production through combinatorial optimization of CO2 transport and fixation

  8. A Comparison of Metallic, Composite and Nanocomposite Optimal Transonic Transport Wings

    Science.gov (United States)

    Kennedy, Graeme J.; Kenway, Gaetan K. W.; Martins, Joaquim R. R.

    2014-01-01

    Current and future composite material technologies have the potential to greatly improve the performance of large transport aircraft. However, the coupling between aerodynamics and structures makes it challenging to design optimal flexible wings, and the transonic flight regime requires high fidelity computational models. We address these challenges by solving a series of high-fidelity aerostructural optimization problems that explore the design space for the wing of a large transport aircraft. We consider three different materials: aluminum, carbon-fiber reinforced composites and an hypothetical composite based on carbon nanotubes. The design variables consist of both aerodynamic shape (including span), structural sizing, and ply angle fractions in the case of composites. Pareto fronts with respect to structural weight and fuel burn are generated. The wing performance in each case is optimized subject to stress and buckling constraints. We found that composite wings consistently resulted in lower fuel burn and lower structural weight, and that the carbon nanotube composite did not yield the increase in performance one would expect from a material with such outstanding properties. This indicates that there might be diminishing returns when it comes to the application of advanced materials to wing design, requiring further investigation.

  9. Harmony search optimization algorithm for a novel transportation problem in a consolidation network

    Science.gov (United States)

    Davod Hosseini, Seyed; Akbarpour Shirazi, Mohsen; Taghi Fatemi Ghomi, Seyed Mohammad

    2014-11-01

    This article presents a new harmony search optimization algorithm to solve a novel integer programming model developed for a consolidation network. In this network, a set of vehicles is used to transport goods from suppliers to their corresponding customers via two transportation systems: direct shipment and milk run logistics. The objective of this problem is to minimize the total shipping cost in the network, so it tries to reduce the number of required vehicles using an efficient vehicle routing strategy in the solution approach. Solving several numerical examples confirms that the proposed solution approach based on the harmony search algorithm performs much better than CPLEX in reducing both the shipping cost in the network and computational time requirement, especially for realistic size problem instances.

  10. Designing an Optimal Subsidy Scheme to Reduce Emissions for a Competitive Urban Transport Market

    Directory of Open Access Journals (Sweden)

    Feifei Qin

    2015-08-01

    Full Text Available With the purpose of establishing an effective subsidy scheme to reduce Greenhouse Gas (GHG emissions, this paper proposes a two-stage game for a competitive urban transport market. In the first stage, the authority determines operating subsidies based on social welfare maximization. Observing the predetermined subsidies, two transit operators set fares and frequencies to maximize their own profits at the second stage. The detailed analytical and numerical analyses demonstrate that of the three proposed subsidy schemes, the joint implementation of trip-based and frequency-related subsidies not only generates the largest welfare gains and makes competitive operators provide equilibrium fares and frequencies, which largely resemble first-best optimal levels but also greatly contributes to reducing Greenhouse Gas (GHG emissions on major urban transport corridors.

  11. Multi-objective Optimization of a Transportation Network of a HMSC

    Directory of Open Access Journals (Sweden)

    Mohammed Ahmed

    2016-01-01

    Full Text Available In this paper, we investigated a transportation network of a tri-layer Halal meat supply chain (HMSC in which Halal meat transportation process was monitored by a Radio Frequency Identification (RFID communication system to ensure safety and integrity of Halal meats. This monitoring system is subject to an extra cost in investment that needs to be taken into account. Thus, a multi-objective linear programming model (MOLPM was developed aiming to minimize the total cost in transportation and number of transportation vehicles and maximize the service level in product quantity as requested by abattoirs and retailers. The facility location-allocation problem in farms, abattoirs and retailers needs also to be addressed in relevance to the quantity flow of products from farms to abattoirs and from abattoirs to retailers. The utility function method was employed to obtain Pareto-optimal solutions and the global criterion method was used for searching the most suitable Pareto solution by minimizing the distance to its ideal objective value. The research work shows that the developed model can be useful for supply chains design through a case study based on numerical results.

  12. Trans-membrane transport of fluoranthene by Rhodococcus sp. BAP-1 and optimization of uptake process.

    Science.gov (United States)

    Li, Yi; Wang, Hongqi; Hua, Fei; Su, Mengyuan; Zhao, Yicun

    2014-03-01

    The mechanism of transport of (14)C-fluoranthene by Rhodococcus sp. BAP-1, a Gram-positive bacterium isolated from crude oil-polluted soil, was examined. Our finding demonstrated that the mechanism for fluoranthene travel across the cell membrane in Rhodococcus sp. BAP-1 requires energy. Meanwhile, the transport of fluoranthene involves concurrent catabolism of (14)C, that leading to the generation of significant amount of (14)CO2. Combined with trans-membrane transport dynamic and response surface methodology, a significant influence of temperature, pH and salinity on cellular uptake rate was screened by Plackett-Burman design. Then, Box-Behnken design was employed to optimize and enhanced the trans-membrane transport process. The results predicted by Box-Behnken design indicated that the maximum cellular uptake rate of fluoranthene could be achieve to 0.308μmolmin(-1)mg(-1)·protein (observed) and 0.304μmolmin(-1)mg(-1)·protein (predicted) when the initial temperature, pH and salinity were set at 20°C, 9% and 1%, respectively.

  13. Model of Optimal Cargo Transport Structure by Full Container Ship on Predefined Sailing Route

    Directory of Open Access Journals (Sweden)

    Serđo Kos

    2004-01-01

    Full Text Available This paper presents the mathematical model for solving theproblem of defining optimal cargo transport structure, occurringwhen, on a predefined sailing route, adequate number ofcontainers of various types, masses and sizes, possibly includingRO!RO cargo, is to be selected, i.e., a "container lot" is to beestablished in loading ports with the aim of gaining maximumship profit and, at the same time, of exploiting useful load andtransport capacity of container ship as much as possible. Theimplementation of the proposed model enables considerableincrease in the efficiency of container ship operations. Themodel was tested using a numerical example with real data.The applied post-optimal analysis examines the influence ofchange in some values of the mathematical model on the resultingoptimal program.

  14. Optimal Placement Method of RFID Readers in Industrial Rail Transport for Uneven Rail Traflc Volume Management

    Science.gov (United States)

    Rakhmangulov, Aleksandr; Muravev, Dmitri; Mishkurov, Pavel

    2016-11-01

    The issue of operative data reception on location and movement of railcars is significant the constantly growing requirements of the provision of timely and safe transportation. The technical solution for efficiency improvement of data collection on rail rolling stock is the implementation of an identification system. Nowadays, there are several such systems, distinguished in working principle. In the authors' opinion, the most promising for rail transportation is the RFID technology, proposing the equipping of the railway tracks by the stationary points of data reading (RFID readers) from the onboard sensors on the railcars. However, regardless of a specific type and manufacturer of these systems, their implementation is affiliated with the significant financing costs for large, industrial, rail transport systems, owning the extensive network of special railway tracks with a large number of stations and loading areas. To reduce the investment costs for creation, the identification system of rolling stock on the special railway tracks of industrial enterprises has developed the method based on the idea of priority installation of the RFID readers on railway hauls, where rail traffic volumes are uneven in structure and power, parameters of which is difficult or impossible to predict on the basis of existing data in an information system. To select the optimal locations of RFID readers, the mathematical model of the staged installation of such readers has developed depending on the non-uniformity value of rail traffic volumes, passing through the specific railway hauls. As a result of that approach, installation of the numerous RFID readers at all station tracks and loading areas of industrial railway stations might be not necessary,which reduces the total cost of the rolling stock identification and the implementation of the method for optimal management of transportation process.

  15. Numerical Methods for a Kohn-Sham Density Functional Model Based on Optimal Transport.

    Science.gov (United States)

    Chen, Huajie; Friesecke, Gero; Mendl, Christian B

    2014-10-14

    In this paper, we study numerical discretizations to solve density functional models in the "strictly correlated electrons" (SCE) framework. Unlike previous studies, our work is not restricted to radially symmetric densities. In the SCE framework, the exchange-correlation functional encodes the effects of the strong correlation regime by minimizing the pairwise Coulomb repulsion, resulting in an optimal transport problem. We give a mathematical derivation of the self-consistent Kohn-Sham-SCE equations, construct an efficient numerical discretization for this type of problem for N = 2 electrons, and apply it to the H2 molecule in its dissociating limit.

  16. Temporary road transport route optimization based on ArcGIS platform conditions

    Science.gov (United States)

    Baoliang, Zhang; Dahua, Li; Xianfeng, Shao

    2017-04-01

    Based on the ArcGIS software platform, the method of digital elevation model (DEM) is established by using the irregular triangulation (TIN) of the “three links and one leveling” project of the Guquan converter station. The calculation principle and the realization steps are discussed. In the clear fill area, site formation and earth temporary transport route design applications. Research shows that the simulation of ground simulation through ArcGIS can be more rapid and efficient land leveling, design optimization route.

  17. Trim and Structural Optimization of Subsonic Transport Wings Using Nonconventional Aeroelastic Tailoring

    Science.gov (United States)

    Stanford, Bret K.; Jutte, Christine V.

    2014-01-01

    Several minimum-mass aeroelastic optimization problems are solved to evaluate the effectiveness of a variety of novel tailoring schemes for subsonic transport wings. Aeroelastic strength and panel buckling constraints are imposed across a variety of trimmed maneuver loads. Tailoring with metallic thickness variations, functionally graded materials, composite laminates, tow steering, and distributed trailing edge control effectors are all found to provide reductions in structural wing mass with varying degrees of success. The question as to whether this wing mass reduction will offset the increased manufacturing cost is left unresolved for each case.

  18. Optimization of the Transport Shield for Neutrinoless Double Beta-decay Enriched Germanium

    Energy Technology Data Exchange (ETDEWEB)

    Aguayo Navarrete, Estanislao; Kouzes, Richard T.; Orrell, John L.; Reid, Douglas J.; Fast, James E.

    2012-04-15

    This document presents results of an investigation of the material and geometry choice for the transport shield of germanium, the active detector material used in 76Ge neutrinoless double beta decay searches. The objective of this work is to select the optimal material and geometry to minimize cosmogenic production of radioactive isotopes in the germanium material. The design of such a shield is based on the calculation of the cosmogenic production rate of isotopes that are known to cause interfering backgrounds in 76Ge neutrinoless double beta decay searches.

  19. Inventory-transportation integrated optimization for maintenance spare parts of high-speed trains.

    Science.gov (United States)

    Lin, Boliang; Wang, Jiaxi; Wang, Huasheng; Wang, Zhongkai; Li, Jian; Lin, Ruixi; Xiao, Jie; Wu, Jianping

    2017-01-01

    This paper presents a 0-1 programming model aimed at obtaining the optimal inventory policy and transportation mode for maintenance spare parts of high-speed trains. To obtain the model parameters for occasionally-replaced spare parts, a demand estimation method based on the maintenance strategies of China's high-speed railway system is proposed. In addition, we analyse the shortage time using PERT, and then calculate the unit time shortage cost from the viewpoint of train operation revenue. Finally, a real-world case study from Shanghai Depot is conducted to demonstrate our method. Computational results offer an effective and efficient decision support for inventory managers.

  20. Development of GIS-Based Decision Support System for Optimizing Transportation Cost in Underground Limestone Mining

    Science.gov (United States)

    Oh, Sungchan; Park, Jihwan; Suh, Jangwon; Lee, Sangho; Choi, Youngmin

    2014-05-01

    In mining industry, large amount of cost has been invested in early stages of mine development such as prospecting, exploration, and discovery. Recent changes in mining, however, also raised the cost in operation, production, and environmental protection because ore depletion at shallow depth caused large-scale, deep mining. Therefore, many mining facilities are installed or relocated underground to reduce transportation cost as well as environmental pollution. This study presents GIS-based decision support system that optimizes transportation cost from various mining faces to mine facility in underground mines. The development of this system consists of five steps. As a first step, mining maps were collected which contains underground geo-spatial informations. In mine maps, then, mine network and contour data were converted to GIS format in second step for 3D visualization and spatial analysis. In doing so, original tunnel outline data were digitized with ground level, and converted to simplified network format, and surface morphology, contours were converted to digital elevation model (DEM). The next step is to define calculation algorithm of transportation cost. Among the many component of transportation cost, this study focused on the fuel cost because it can be easily estimated if mining maps are available by itself. The cost were calculated by multiplication of the number of blasting, haulage per blasting, distance between mining faces to facility, fuel cost per liter, and two for downhill and uphill, divided by fuel efficiency of mining trucks. Finally, decision support system, SNUTunnel was implemented. For the application of SNUTunnel in actual underground mine, Nammyeong Development Corporation, Korea, was selected as study site. This mine produces limestone with high content of calcite for paper, steel manufacture, or desulfurization, and its development is continuously ongoing to reach down to deeper calcite ore body, so the mine network is expanding

  1. Photoreactivation of a Cytoplasmic Virus

    Science.gov (United States)

    Pfefferkorn, E. R.; Boyle, Mary K.

    1972-01-01

    Ultraviolet light-inactivated frog virus 3 is efficiently photoreactivated by chick embryo cells. A cellular enzyme is presumably responsible for this repair of viral deoxyribonucleic acid, for the phenomenon is insensitive to an inhibitor of protein synthesis and is not seen in mammalian cells that are known to lack photoreactivating enzyme. Since frog virus 3 is a cytoplasmic virus, functionally significant amounts of photoreactivating enzyme are probably present in the cytoplasm of chick embryo cells. PMID:5062749

  2. Interpolating between random walks and optimal transportation routes: Flow with multiple sources and targets

    Science.gov (United States)

    Guex, Guillaume

    2016-05-01

    In recent articles about graphs, different models proposed a formalism to find a type of path between two nodes, the source and the target, at crossroads between the shortest-path and the random-walk path. These models include a freely adjustable parameter, allowing to tune the behavior of the path toward randomized movements or direct routes. This article presents a natural generalization of these models, namely a model with multiple sources and targets. In this context, source nodes can be viewed as locations with a supply of a certain good (e.g. people, money, information) and target nodes as locations with a demand of the same good. An algorithm is constructed to display the flow of goods in the network between sources and targets. With again a freely adjustable parameter, this flow can be tuned to follow routes of minimum cost, thus displaying the flow in the context of the optimal transportation problem or, by contrast, a random flow, known to be similar to the electrical current flow if the random-walk is reversible. Moreover, a source-targetcoupling can be retrieved from this flow, offering an optimal assignment to the transportation problem. This algorithm is described in the first part of this article and then illustrated with case studies.

  3. Optimization of transportation channels in supply chain design Using Genetic Algorithm

    Directory of Open Access Journals (Sweden)

    Fatemeh Parsamehr

    2016-12-01

    Full Text Available A supply chain is a set of facilities, supplies, customers, products and methods of controlling inventory, purchasing, and distribution. Each manufacturer or distributor has some subset of the supply chain that it must manage and run profitably and efficiently to survive and grow. So it is important that goods produced and delivered at the right quantities and at the right time while minimizing costs as well as satisfying customer requirements. According to reasons, optimization of supply chain network involves decisions over several aspects. This paper addresses a problem of designing a multi-echelon supply chain with the single sourcing type and the related inventory systems. In the first echelon the manufacturers transport the product to distribution centers. In the second echelon the distribution centers transport the product to the customers. In this work, the optimal solution of a supply chain networking is obtained by using the non-traditional technique such as genetic algorithm which was performed to solve the problem. Designing the entire supply chain network becomes a key factor for the successful business.

  4. Cytoplasmic Dynein Promotes HIV-1 Uncoating

    Directory of Open Access Journals (Sweden)

    Paulina Pawlica

    2014-11-01

    Full Text Available Retroviral capsid (CA cores undergo uncoating during their retrograde transport (toward the nucleus, and/or after reaching the nuclear membrane. However, whether HIV-1 CA core uncoating is dependent upon its transport is not understood. There is some evidence that HIV-1 cores retrograde transport involves cytoplasmic dynein complexes translocating on microtubules. Here we investigate the role of dynein-dependent transport in HIV-1 uncoating. To interfere with dynein function, we depleted dynein heavy chain (DHC using RNA interference, and we over-expressed p50/dynamitin. In immunofluorescence microscopy experiments, DHC depletion caused an accumulation of CA foci in HIV-1 infected cells. Using a biochemical assay to monitor HIV-1 CA core disassembly in infected cells, we observed an increase in amounts of intact (pelletable CA cores upon DHC depletion or p50 over-expression. Results from these two complementary assays suggest that inhibiting dynein-mediated transport interferes with HIV-1 uncoating in infected cells, indicating the existence of a functional link between HIV-1 transport and uncoating.

  5. Energy-scales convergence for optimal and robust quantum transport in photosynthetic complexes.

    Science.gov (United States)

    Mohseni, M; Shabani, A; Lloyd, S; Rabitz, H

    2014-01-21

    Underlying physical principles for the high efficiency of excitation energy transfer in light-harvesting complexes are not fully understood. Notably, the degree of robustness of these systems for transporting energy is not known considering their realistic interactions with vibrational and radiative environments within the surrounding solvent and scaffold proteins. In this work, we employ an efficient technique to estimate energy transfer efficiency of such complex excitonic systems. We observe that the dynamics of the Fenna-Matthews-Olson (FMO) complex leads to optimal and robust energy transport due to a convergence of energy scales among all important internal and external parameters. In particular, we show that the FMO energy transfer efficiency is optimum and stable with respect to important parameters of environmental interactions including reorganization energy λ, bath frequency cutoff γ, temperature T, and bath spatial correlations. We identify the ratio of kBλT/ℏγ⁢g as a single key parameter governing quantum transport efficiency, where g is the average excitonic energy gap.

  6. Optimal transport for secure spread-spectrum watermarking of still images.

    Science.gov (United States)

    Mathon, Benjamin; Cayre, Francois; Bas, Patrick; Macq, Benoit

    2014-04-01

    This paper studies the impact of secure watermark embedding in digital images by proposing a practical implementation of secure spread-spectrum watermarking using distortion optimization. Because strong security properties (key-security and subspace-security) can be achieved using natural watermarking (NW) since this particular embedding lets the distribution of the host and watermarked signals unchanged, we use elements of transportation theory to minimize the global distortion. Next, we apply this new modulation, called transportation NW (TNW), to design a secure watermarking scheme for grayscale images. The TNW uses a multiresolution image decomposition combined with a multiplicative embedding which is taken into account at the distribution level. We show that the distortion solely relies on the variance of the wavelet subbands used during the embedding. In order to maximize a target robustness after JPEG compression, we select different combinations of subbands offering the lowest Bit Error Rates for a target PSNR ranging from 35 to 55 dB and we propose an algorithm to select them. The use of transportation theory also provides an average PSNR gain of 3.6 dB on PSNR with respect to the previous embedding for a set of 2000 images.

  7. Extraction design and low energy beam transport optimization of space charge dominated multispecies ion beam sources

    Science.gov (United States)

    Delferrière, O.; De Menezes, D.

    2004-05-01

    In all accelerator projects, the low energy part of the accelerator has to be carefully optimized to match the beam characteristic requirements of the higher energy parts. Since 1994 with the beginning of the Injector of Protons for High Intensity (IPHI) project and Source of Light Ions with High Intensities (SILHI) electron cyclotron resonance (ECR) ion source development at CEA/Saclay, we are using a set of two-dimensional (2D) codes for extraction system optimization (AXCEL, OPERA-2D) and beam transport (MULTIPART). The 95 keV SILHI extraction system optimization has largely increased the extracted current, and improved the beam line transmission. From these good results, a 130 mA D+ extraction system for the International Fusion Material Irradiation Facility project has been designed in the same way as SILHI one. We are also now involved in the SPIRAL 2 project for the building of a 40 keV D+ ECR ion source, continuously tunable from 0.1 to 5 mA, for which a special four-electrode extraction system has been studied. In this article we will describe the 2D design process and present the different extraction geometries and beam characteristics. Simulation results of SILHI H+ beam emittance will be compared with experimental measurements.

  8. Microbial electron transport and energy conservation – the foundation for optimizing bioelectrochemical systems

    Directory of Open Access Journals (Sweden)

    Frauke eKracke

    2015-06-01

    Full Text Available Microbial electrochemical techniques describe a variety of emerging technologies that use electrode-bacteria-interactions for biotechnology applications including the production of electricity, waste and wastewater treatment, bioremediation and production of valuable products. Central in each application is the ability of the microbial catalyst to interact with external electron acceptors and/or donors and its metabolic properties that enable the combination of electron transport and carbon metabolism. And here also lies the key challenge. A wide range of microbes has been discovered to be able to exchange electrons with solid surfaces or mediators but only a few have been studied in depth. Especially electron transfer mechanisms from cathodes towards the microbial organism are poorly understood but are essential for many applications such as microbial electrosynthesis. We analyse the different electron transport chains that nature offers for organisms such as metal respiring bacteria and acetogens, but also standard biotechnological organisms currently used in bio-production. Special focus lies on the essential connection of redox and energy metabolism, which is often ignored when studying bio-electrochemical systems. The possibility of extracellular electron exchange at different points in each organism is discussed regarding required redox potentials and effect on cellular redox and energy levels. Key compounds such as electron carriers (e.g. cytochromes, ferredoxin, quinones, flavins are identified and analysed regarding their possible role in electrode-microbe-interactions. This work summarizes our current knowledge on electron transport processes and uses a theoretical approach to predict the impact of different modes of transfer on the energy metabolism. As such it adds an important piece of fundamental understanding of microbial electron transport possibilities to the research community and will help to optimize and advance bio

  9. Microbial electron transport and energy conservation - the foundation for optimizing bioelectrochemical systems.

    Science.gov (United States)

    Kracke, Frauke; Vassilev, Igor; Krömer, Jens O

    2015-01-01

    Microbial electrochemical techniques describe a variety of emerging technologies that use electrode-bacteria interactions for biotechnology applications including the production of electricity, waste and wastewater treatment, bioremediation and the production of valuable products. Central in each application is the ability of the microbial catalyst to interact with external electron acceptors and/or donors and its metabolic properties that enable the combination of electron transport and carbon metabolism. And here also lies the key challenge. A wide range of microbes has been discovered to be able to exchange electrons with solid surfaces or mediators but only a few have been studied in depth. Especially electron transfer mechanisms from cathodes towards the microbial organism are poorly understood but are essential for many applications such as microbial electrosynthesis. We analyze the different electron transport chains that nature offers for organisms such as metal respiring bacteria and acetogens, but also standard biotechnological organisms currently used in bio-production. Special focus lies on the essential connection of redox and energy metabolism, which is often ignored when studying bioelectrochemical systems. The possibility of extracellular electron exchange at different points in each organism is discussed regarding required redox potentials and effect on cellular redox and energy levels. Key compounds such as electron carriers (e.g., cytochromes, ferredoxin, quinones, flavins) are identified and analyzed regarding their possible role in electrode-microbe interactions. This work summarizes our current knowledge on electron transport processes and uses a theoretical approach to predict the impact of different modes of transfer on the energy metabolism. As such it adds an important piece of fundamental understanding of microbial electron transport possibilities to the research community and will help to optimize and advance bioelectrochemical

  10. Statistical optimization for passive scalar transport: maximum entropy production vs. maximum Kolmogorov–Sinay entropy

    Directory of Open Access Journals (Sweden)

    M. Mihelich

    2014-11-01

    Full Text Available We derive rigorous results on the link between the principle of maximum entropy production and the principle of maximum Kolmogorov–Sinai entropy using a Markov model of the passive scalar diffusion called the Zero Range Process. We show analytically that both the entropy production and the Kolmogorov–Sinai entropy seen as functions of f admit a unique maximum denoted fmaxEP and fmaxKS. The behavior of these two maxima is explored as a function of the system disequilibrium and the system resolution N. The main result of this article is that fmaxEP and fmaxKS have the same Taylor expansion at first order in the deviation of equilibrium. We find that fmaxEP hardly depends on N whereas fmaxKS depends strongly on N. In particular, for a fixed difference of potential between the reservoirs, fmaxEP(N tends towards a non-zero value, while fmaxKS(N tends to 0 when N goes to infinity. For values of N typical of that adopted by Paltridge and climatologists (N ≈ 10 ~ 100, we show that fmaxEP and fmaxKS coincide even far from equilibrium. Finally, we show that one can find an optimal resolution N* such that fmaxEP and fmaxKS coincide, at least up to a second order parameter proportional to the non-equilibrium fluxes imposed to the boundaries. We find that the optimal resolution N* depends on the non equilibrium fluxes, so that deeper convection should be represented on finer grids. This result points to the inadequacy of using a single grid for representing convection in climate and weather models. Moreover, the application of this principle to passive scalar transport parametrization is therefore expected to provide both the value of the optimal flux, and of the optimal number of degrees of freedom (resolution to describe the system.

  11. Optimization of Intracellular Transportation of Gene Therapeutic DNA in Small Cell Lung Cancer (Ph.d.)

    DEFF Research Database (Denmark)

    Cramer, Frederik

    2013-01-01

    -viral delivery system, to the nuclei of the SCLC cells. As a result, the gene therapy expression obtained is too low to have any clinical relevance. We have at the Department of Radiation Biology developed a transcriptionally targeting suicide gene therapy system which is built on a double stranded DNA plasmid...... framework. One of the most significant barriers for efficient plasmid transport however, is the nuclear envelope that compartmentalizes the transcriptional machinery from the translational in a human cell. As only a small fraction of plasmids is able to breach the nuclear envelope and gain access...... to the transcriptional machinery many attempts have been made to improve nuclear translocation of therapeutic plasmids in order to gain a better gene therapy outcome. The aim of this PhD project was to investigate if the intracellular translocation of our gene therapeutic system could be optimized in SCLC cells...

  12. DATA MINING WORKSPACE AS AN OPTIMIZATION PREDICTION TECHNIQUE FOR SOLVING TRANSPORT PROBLEMS

    Directory of Open Access Journals (Sweden)

    Anastasiia KUPTCOVA

    2016-09-01

    Full Text Available This article addresses the study related to forecasting with an actual high-speed decision making under careful modelling of time series data. The study uses data-mining modelling for algorithmic optimization of transport goals. Our finding brings to the future adequate techniques for the fitting of a prediction model. This model is going to be used for analyses of the future transaction costs in the frontiers of the Czech Republic. Time series prediction methods for the performance of prediction models in the package of Statistics are Exponential, ARIMA and Neural Network approaches. The primary target for a predictive scenario in the data mining workspace is to provide modelling data faster and with more versatility than the other management techniques.

  13. Optimization of mercuric iodide platelets growth by the polymer controlled vapor transport method

    Directory of Open Access Journals (Sweden)

    Fornaro L.

    1999-01-01

    Full Text Available Mercuric iodide crystals in their platelet habit were grown by the polymer controlled vapor transport method. Mercuric iodide 99% in purity was sublimated at temperatures about 122 - 126 °C and vacuum conditions (10-5 mmHg, after selecting an appropriate polymer. Temperature profiles and experimental heat transfer models were determined for two growth furnaces using different insulator configurations for the cold extreme (air, ceramic wool, grilon, copper and ceramic wool. Growth conditions for few and separate nucleation points and large crystals were determined. Representative samples were characterized by optical microscopy and by measuring the current density and apparent resistivity of the material. Future optimization and comparisons with others mercuric iodide crystal growth methods are included.

  14. Optimal-mass-transfer-based estimation of glymphatic transport in living brain

    Science.gov (United States)

    Ratner, Vadim; Zhu, Liangjia; Kolesov, Ivan; Nedergaard, Maiken; Benveniste, Helene; Tannenbaum, Allen

    2015-03-01

    It was recently shown that the brain-wide cerebrospinal fluid (CSF) and interstitial fluid exchange system designated the `glymphatic pathway' plays a key role in removing waste products from the brain, similarly to the lymphatic system in other body organs . It is therefore important to study the flow patterns of glymphatic transport through the live brain in order to better understand its functionality in normal and pathological states. Unlike blood, the CSF does not flow rapidly through a network of dedicated vessels, but rather through para-vascular channels and brain parenchyma in a slower time-domain, and thus conventional fMRI or other blood-flow sensitive MRI sequences do not provide much useful information about the desired flow patterns. We have accordingly analyzed a series of MRI images, taken at different times, of the brain of a live rat, which was injected with a paramagnetic tracer into the CSF via the lumbar intrathecal space of the spine. Our goal is twofold: (a) find glymphatic (tracer) flow directions in the live rodent brain; and (b) provide a model of a (healthy) brain that will allow the prediction of tracer concentrations given initial conditions. We model the liquid flow through the brain by the diffusion equation. We then use the Optimal Mass Transfer (OMT) approach to derive the glymphatic flow vector field, and estimate the diffusion tensors by analyzing the (changes in the) flow. Simulations show that the resulting model successfully reproduces the dominant features of the experimental data. Keywords: inverse problem, optimal mass transport, diffusion equation, cerebrospinal fluid flow in brain, optical flow, liquid flow modeling, Monge Kantorovich problem, diffusion tensor estimation

  15. Optimization of existing transport services – case study of the Niko Transport d.o.o. Company

    Directory of Open Access Journals (Sweden)

    Igor TRUPAC

    2011-01-01

    Full Text Available The operational efficiency of the transport-logistics chains is affected by all actors involved: linear companies, port authorities, stevedores, forwarders, agents as well as of the level of integration of terminals and hinterland transportation modes. At the moment, only the company Niko Transport d.o.o. offers the intermodal way of transport in Slovenia. As for any other transportation problem, time window constraints and the availability of alternative routings of intermodal transport poses additional challenges.The new strategy of the company was named »We select green«. Its main goal is the same effect with lower pollution. They understand they are part of whole logistic chains for which it is typical to become more and more sensible to the demands that concerns the protection of the environment. That is also one of the priority strategies of the EU. Launched in the Freight Transport Logistics Action Plan, Green Corridors support today the EU's agenda towards decarbonising transport while emphasising the need for efficient logistics. The goal of the article is to present the business of the Niko Transport d.o.o. company on the UK market, the introduction of the multimodal transport, the approval of the Marco Polo project, the selection of courses and partners. A research of the students of the Caledonian University of Glasgow as a part of the project is also presented in the article.

  16. Analysis of GHG Emission Reduction in South Korea Using a CO2 Transportation Network Optimization Model

    Directory of Open Access Journals (Sweden)

    Suk Ho Jin

    2017-07-01

    Full Text Available Korea’s national carbon capture and storage (CCS master plan aims to commercialize CCS projects by 2030. Furthermore, the Korean government is forced to reduce emissions from various sectors, including industries and power generation, by 219 million tons by 2030. This study analyzes a few scenarios of Korean CCS projects with a CO2 pipeline transportation network optimization model for minimizing the total facility cost and pipeline cost. Our scenarios are based on the “2030 asic roadmap for reducing greenhouse gases” established by the government. The results for each scenario demonstrate that the effective design and implementation of CO2 pipeline network enables the lowering of CO2 units cost. These suggest that CO2 transportation networks, which connect the capture and sequestration parts, will be more important in the future and can be used to substitute and supplement the emission reduction target in case the execution of other reduction options faces uncertainty. Our mathematical model and scenario designs will be helpful for various countries which plan to introduce CCS technology.

  17. Designing optimal transportation networks: a knowledge-based computer-aided multicriteria approach

    Energy Technology Data Exchange (ETDEWEB)

    Tung, S.I.

    1986-01-01

    The dissertation investigates the applicability of using knowledge-based expert systems (KBES) approach to solve the single-mode (automobile), fixed-demand, discrete, multicriteria, equilibrium transportation-network-design problem. Previous works on this problem has found that mathematical programming method perform well on small networks with only one objective. Needed is a solution technique that can be used on large networks having multiple, conflicting criteria with different relative importance weights. The KBES approach developed in this dissertation represents a new way to solve network design problems. The development of an expert system involves three major tasks: knowledge acquisition, knowledge representation, and testing. For knowledge acquisition, a computer aided network design/evaluation model (UFOS) was developed to explore the design space. This study is limited to the problem of designing an optimal transportation network by adding and deleting capacity increments to/from any link in the network. Three weighted criteria were adopted for use in evaluating each design alternative: cost, average V/C ratio, and average travel time.

  18. 部队铁路输送路线优选模型%Military Railway Transportation Route Optimization Model

    Institute of Scientific and Technical Information of China (English)

    王涛; 郑垣模; 王月琴

    2012-01-01

    紧贴部队实际,结合现代铁路运输条件,分析部队铁路输送的有关要求,在此基础上建立部队铁路输送路线优选模型,从而实现部队铁路输送路线的优选,为拟制铁路输送计划提供决策依据。%Actual to troops, combined with modern conditions of railway transportation of military railway transport,analysis of the rel- evant requirements,set up on the basis of military railway transportation route optimization model,in order to achieve military railway trans portation route optimization for railway transport plan, to provide basis for decision making.

  19. Optimizing the Project Development in Transportation Systems: Economical and Mathematical Models

    Directory of Open Access Journals (Sweden)

    Simeon Schreiber

    2003-07-01

    Full Text Available Construction of high-speed transportation systems often requirescalendar planning of the job complex. This paper describesan optimized model of construction project, which includestime parameters as well as cost factors. Project optimizationcan be achieved by solving the following two problems:1 minimizing expenditures within the predetermined durationof construction;2 determining the minimum duration of project constructionunder the set spending level.Both tasks are based on the idea of reducing the duration ofcertain sequence of operations down to the set level, ensuringthe highest effect of accelerating the construction. Under theknown time-cost relationship, the optimal solution can be reducedto search for such types of activities within the networkmodel, acceleration of which is the most efficacious in terms ofboth spending and finishing the overall project. The algorithmfor solving the above problems using the network model of jobcomplex is offered in the current paper. This method can beused for planning and managing the work logistics/calendar inconstruction and related types of industry, for research and developmentprojects in other areas.

  20. Optimal selection of space transportation fleet to meet multi-mission space program needs

    Science.gov (United States)

    Morgenthaler, George W.; Montoya, Alex J.

    1989-01-01

    A space program that spans several decades will be comprised of a collection of missions such as low earth orbital space station, a polar platform, geosynchronous space station, lunar base, Mars astronaut mission, and Mars base. The optimal selection of a fleet of several recoverable and expendable launch vehicles, upper stages, and interplanetary spacecraft necessary to logistically establish and support these space missions can be examined by means of a linear integer programming optimization model. Such a selection must be made because the economies of scale which comes from producing large quantities of a few standard vehicle types, rather than many, will be needed to provide learning curve effects to reduce the overall cost of space transportation if these future missions are to be affordable. Optimization model inputs come from data and from vehicle designs. Each launch vehicle currently in existence has a launch history, giving rise to statistical estimates of launch reliability. For future, not-yet-developed launch vehicles, theoretical reliabilities corresponding to the maturity of the launch vehicles' technology and the degree of design redundancy must be estimated. Also, each such launch vehicle has a certain historical or estimated development cost, tooling cost, and a variable cost. The cost of a launch used in this paper includes the variable cost plus an amortized portion of the fixed and development costs. The integer linear programming model will have several constraint equations based on assumptions of mission mass requirements, volume requirements, and number of astronauts needed. The model will minimize launch vehicle logistic support cost and will select the most desirable launch vehicle fleet.

  1. Development of a Groundwater Transport Simulation Tool for Remedial Process Optimization

    Energy Technology Data Exchange (ETDEWEB)

    Ivarson, Kristine A.; Hanson, James P.; Tonkin, M.; Miller, Charles W.; Baker, S.

    2015-01-14

    The groundwater remedy for hexavalent chromium at the Hanford Site includes operation of five large pump-and-treat systems along the Columbia River. The systems at the 100-HR-3 and 100-KR-4 groundwater operable units treat a total of about 9,840 liters per minute (2,600 gallons per minute) of groundwater to remove hexavalent chromium, and cover an area of nearly 26 square kilometers (10 square miles). The pump-and-treat systems result in large scale manipulation of groundwater flow direction, velocities, and most importantly, the contaminant plumes. Tracking of the plumes and predicting needed system modifications is part of the remedial process optimization, and is a continual process with the goal of reducing costs and shortening the timeframe to achieve the cleanup goals. While most of the initial system evaluations are conducted by assessing performance (e.g., reduction in contaminant concentration in groundwater and changes in inferred plume size), changes to the well field are often recommended. To determine the placement for new wells, well realignments, and modifications to pumping rates, it is important to be able to predict resultant plume changes. In smaller systems, it may be effective to make small scale changes periodically and adjust modifications based on groundwater monitoring results. Due to the expansive nature of the remediation systems at Hanford, however, additional tools were needed to predict the plume reactions to system changes. A computer simulation tool was developed to support pumping rate recommendations for optimization of large pump-and-treat groundwater remedy systems. This tool, called the Pumping Optimization Model, or POM, is based on a 1-layer derivation of a multi-layer contaminant transport model using MODFLOW and MT3D.

  2. Optimal routing for efficient municipal solid waste transportation by using ArcGIS application in Chennai, India.

    Science.gov (United States)

    Sanjeevi, V; Shahabudeen, P

    2016-01-01

    Worldwide, about US$410 billion is spent every year to manage four billion tonnes of municipal solid wastes (MSW). Transport cost alone constitutes more than 50% of the total expenditure on solid waste management (SWM) in major cities of the developed world and the collection and transport cost is about 85% in the developing world. There is a need to improve the ability of the city administrators to manage the municipal solid wastes with least cost. Since 2000, new technologies such as geographical information system (GIS) and related optimization software have been used to optimize the haul route distances. The city limits of Chennai were extended from 175 to 426 km(2) in 2011, leading to sub-optimum levels in solid waste transportation of 4840 tonnes per day. After developing a spatial database for the whole of Chennai with 200 wards, the route optimization procedures have been run for the transport of solid wastes from 13 wards (generating nodes) to one transfer station (intermediary before landfill), using ArcGIS. The optimization process reduced the distances travelled by 9.93%. The annual total cost incurred for this segment alone is Indian Rupees (INR) 226.1 million. Savings in terms of time taken for both the current and shortest paths have also been computed, considering traffic conditions. The overall savings are thus very meaningful and call for optimization of the haul routes for the entire Chennai.

  3. Study on an urban transportation optimal path algorithm%城市交通最优路径算法

    Institute of Scientific and Technical Information of China (English)

    陈亮; 何为; 韩力群

    2012-01-01

    城市智能交通系统中,最优路径算法及其优化是研究热点之一,是整个交通系统较为核心的部分.结合图论中最短路径算法,研究了城市交通可达路径算法,并对其进行了有效优化,通过图论中的路径代价函数,提出了城市最优路径算法,在此基础上,通过优化搜索区域、可达路径的搜索方向以及路网分层搜索等优化策略,达到了优化城市最优路径算法的目的,提出的城市最优路径及其优化算法能够给出行者提供多条参考的时间最优路线,方便出行者选择.通过算法的应用实例,验证了城市最优路径及其优化算法的有效性与实时性.%In urban intelligent transportation systems, the optimal path algorithm and its optimization are hot topic and the core of the whole transportation system. By introducing the shortest path algorithm in graph theory, this paper first researched the accessible paths for the urban transportation along with an optimization algorithm. Next, by using the path cost function, an optimal path algorithm for urban transportation was proposed. On this basis, by optimizing the search area, the search direction for accessible paths, and the road network hierarchical search optimization strategy, the goal of optimizing urban paths was attained. The proposed optimal urban path and its optimization algorithm were able to provide several time-optimal pedestrian paths for references. Through practical applications, the validity and real-time characteristics of the proposed urban optimal path and its optimization algorithm were verified.

  4. Heat, electricity, or transportation? The optimal use of residual and waste biomass in Europe from an environmental perspective.

    Science.gov (United States)

    Steubing, Bernhard; Zah, Rainer; Ludwig, Christian

    2012-01-03

    The optimal use of forest energy wood, industrial wood residues, waste wood, agricultural residues, animal manure, biowaste, and sewage sludge in 2010 and 2030 was assessed for Europe. An energy system model was developed comprising 13 principal fossil technologies for the production of heat, electricity, and transport and 173 bioenergy conversion routes. The net environmental benefits of substituting fossil energy with bioenergy were calculated for all approximately 1500 combinations based on life cycle assessment (LCA) results. An optimization model determines the best use of biomass for different environmental indicators within the quantified EU-27 context of biomass availability and fossil energy utilization. Key factors determining the optimal use of biomass are the conversion efficiencies of bioenergy technologies and the kind and quantity of fossil energy technologies that can be substituted. Provided that heat can be used efficiently, optimizations for different environmental indicators almost always indicate that woody biomass is best used for combined heat and power generation, if coal, oil, or fuel oil based technologies can be substituted. The benefits of its conversion to SNG or ethanol are significantly lower. For non-woody biomass electricity generation, transportation, and heating yield almost comparable benefits as long as high conversion efficiencies and optimal substitutions are assured. The shares of fossil heat, electricity, and transportation that could be replaced with bioenergy are also provided.

  5. Optimization of municipal solid waste transportation by integrating GIS analysis, equation-based, and agent-based model.

    Science.gov (United States)

    Nguyen-Trong, Khanh; Nguyen-Thi-Ngoc, Anh; Nguyen-Ngoc, Doanh; Dinh-Thi-Hai, Van

    2017-01-01

    The amount of municipal solid waste (MSW) has been increasing steadily over the last decade by reason of population rising and waste generation rate. In most of the urban areas, disposal sites are usually located outside of the urban areas due to the scarcity of land. There is no fixed route map for transportation. The current waste collection and transportation are already overloaded arising from the lack of facilities and insufficient resources. In this paper, a model for optimizing municipal solid waste collection will be proposed. Firstly, the optimized plan is developed in a static context, and then it is integrated into a dynamic context using multi-agent based modelling and simulation. A case study related to Hagiang City, Vietnam, is presented to show the efficiency of the proposed model. From the optimized results, it has been found that the cost of the MSW collection is reduced by 11.3%. Copyright © 2016 Elsevier Ltd. All rights reserved.

  6. An efficient numerical algorithm for the L2 optimal transport problem with applications to image processing

    CERN Document Server

    Saumier, Louis-Philippe; Khouider, Boualem

    2010-01-01

    We present a numerical method to solve the optimal transport problem with a quadratic cost when the source and target measures are periodic probability densities. This method relies on a numerical resolution of the corresponding Monge-Amp\\`ere equation. We use an existing Newton-like algorithm that we generalize to the case of a non uniform final density. The main idea consists of designing an iterative scheme where the fully nonlinear equation is approximated by a non-constant coefficient linear elliptic PDE that we discretize and solve at each iteration, in two different ways: a second order finite difference scheme and a fast Fourier transform (FFT) method. The FFT method, made possible thanks to a preconditioning step based on the coefficient-averaged equation, results in an overall O(P log P)-operations algorithm, where P is the number of discretization points. In particular, we use fourth order finite differences to approximate the action of the densities on the solution iterates, which result in more a...

  7. Inorganic/organic hybrid solar cells: optimal carrier transport in vertically aligned silicon nanowire arrays.

    Science.gov (United States)

    Sato, Keisuke; Dutta, Mrinal; Fukata, Naoki

    2014-06-07

    Inorganic/organic hybrid radial heterojunction solar cells that combine vertically-aligned n-type silicon nanowires (SiNWs) with poly(3,4-ethylenedioxythiophene):poly(styrene-sulfonate) (PEDOT:PSS) have great potential for replacing commercial Si solar cells. The chief advantage of such solar cells is that they exhibit higher absorbance for a given thickness than commercial Si solar cells, due to incident light-trapping within the NW arrays, thus enabling lower-cost solar cell production. We report herein on the effects of NW length, annealing and surface electrode on the device performance of SiNW/PEDOT:PSS hybrid radial heterojunction solar cells. The power conversion efficiency (PCE) of the obtained SiNW/PEDOT:PSS hybrid solar cells can be optimized by tuning the thickness of the surface electrode, and the etching conditions during NW formation and post-annealing. The PCE of 9.3% is obtained by forming efficient transport pathways for photogenerated charge carriers to electrodes. Our approach is a significant contribution to design of high-performance and low-cost inorganic/organic hybrid heterojunction solar cells.

  8. Optimization of TCR and heat transport in group-IV multiple-quantum-well microbolometers

    Science.gov (United States)

    Morea, Matthew; Gu, Kevin; Savikhin, Victoria; Fenrich, Colleen S.; Pop, Eric; Harris, James S.

    2016-09-01

    Group-IV semiconductors have the opportunity to have an equivalent or better temperature coefficient of resistance (TCR) than other microbolometer thermistor materials. By using multiple-quantum-well (MQW) structures, their TCR values can be optimized due to a confinement of carriers. Through two approaches - an activation energy approximation and a custom Monte Carlo transfer matrix method - we simulated this effect for a combination of Group-IV semiconductors and their alloys (e.g., SiGe and GeSn) to find the highest possible TCR, while keeping in mind the critical thicknesses of such layers in a MQW epitaxial stack. We calculated the TCR for a critical-thickness-limited Ge0.8Sn0.2/Ge MQW device to be about -1.9 %/K. Although this TCR is lower than similar SiGe/Si MQW thermistors, GeSn offers possible advantages in terms of fabricating suspended devices with its interesting etch-stop properties shown in previous literature. Furthermore, using finite element modeling of heat transport, we looked at another key bolometer parameter: the thermal time constant. The dimensions of a suspended Ge microbolometer's supporting legs were fine-tuned for a target response time of 5 ms, incorporating estimations for the size effects of the nanowire-like legs on thermal conductivity.

  9. Optimized aerodynamic design process for subsonic transport wing fitted with winglets. [wind tunnel model

    Science.gov (United States)

    Kuhlman, J. M.

    1979-01-01

    The aerodynamic design of a wind-tunnel model of a wing representative of that of a subsonic jet transport aircraft, fitted with winglets, was performed using two recently developed optimal wing-design computer programs. Both potential flow codes use a vortex lattice representation of the near-field of the aerodynamic surfaces for determination of the required mean camber surfaces for minimum induced drag, and both codes use far-field induced drag minimization procedures to obtain the required spanloads. One code uses a discrete vortex wake model for this far-field drag computation, while the second uses a 2-D advanced panel wake model. Wing camber shapes for the two codes are very similar, but the resulting winglet camber shapes differ widely. Design techniques and considerations for these two wind-tunnel models are detailed, including a description of the necessary modifications of the design geometry to format it for use by a numerically controlled machine for the actual model construction.

  10. Optimization of the transporting beam for the CMS Barrel under a displacement constraint

    CERN Document Server

    AUTHOR|(CDS)2139604; Spadinger, Markus

    The aim of this research was to find the optimal solution for the design of the new transporting beam for the Compact Muon Solenoid (CMS) Barrel. Once the new crane in the experimental cavern is installed, the previous design of the beam will become obsolete due to its weight. The current beam is made from steel and has four air-pads to support it. The new design of the beam, which will be presented in this thesis, will be made of aluminium alloy and will have only two air-pads supporting it. Two main issues that guided the direction of this research were the concentrations of stresses and the displacements due to bending. At the beginning of the research, all of the focus will be on the beam. This approach will prove to be limited, which will lead to the gradual inclusion of other interfacing components in the analysis. In order to correctly mimic the behaviour of the beam under such loads, representative models of the air-pads will be introduced into the Finite Element Analysis (FEA). Part of the original B...

  11. Interpolation of longitudinal shape and image data via optimal mass transport

    Science.gov (United States)

    Gao, Yi; Zhu, Liang-Jia; Bouix, Sylvain; Tannenbaum, Allen

    2014-03-01

    Longitudinal analysis of medical imaging data has become central to the study of many disorders. Unfortunately, various constraints (study design, patient availability, technological limitations) restrict the acquisition of data to only a few time points, limiting the study of continuous disease/treatment progression. Having the ability to produce a sensible time interpolation of the data can lead to improved analysis, such as intuitive visualizations of anatomical changes, or the creation of more samples to improve statistical analysis. In this work, we model interpolation of medical image data, in particular shape data, using the theory of optimal mass transport (OMT), which can construct a continuous transition from two time points while preserving "mass" (e.g., image intensity, shape volume) during the transition. The theory even allows a short extrapolation in time and may help predict short-term treatment impact or disease progression on anatomical structure. We apply the proposed method to the hippocampus-amygdala complex in schizophrenia, the heart in atrial fibrillation, and full head MR images in traumatic brain injury.

  12. Future car transport, Evaluating optimal solutions for future transport in the Netherlands focussing on the electric and hydrogen car

    NARCIS (Netherlands)

    Pierie, Frank

    2010-01-01

    The modern world we are living in today, consumes fasts amounts of fossil fuels in many sectors. One of these sectors is transport which is almost completely dependent on oil derivatives. This heavy dependency on oil and other types of fossil fuel makes i

  13. Future car transport, Evaluating optimal solutions for future transport in the Netherlands focussing on the electric and hydrogen car

    NARCIS (Netherlands)

    Pierie, Frank

    2010-01-01

    The modern world we are living in today, consumes fasts amounts of fossil fuels in many sectors. One of these sectors is transport which is almost completely dependent on oil derivatives. This heavy dependency on oil and other types of fossil fuel makes i

  14. Optimization of Hybrid Hub-and-Spoke Network Operation for Less-Than-Truckload Freight Transportation considering Incremental Quantity Discount

    Directory of Open Access Journals (Sweden)

    Weiya Chen

    2014-01-01

    Full Text Available This paper presents a mixed integer linear programming model (MILP for optimizing the hybrid hub-and-spoke network operation for a less-than-truckload transportation service. The model aims to minimize the total operation costs (transportation cost and transfer cost, given the determined demand matrix, truck load capacity, and uncapacitated road transportation. The model also incorporates an incremental quantity discount function to solve the reversal of the total cost and the total demand. The model is applied to a real case of a Chinese transportation company engaged in nationwide freight transportation. The numerical example shows that, with uncapacitated road transportation, the total costs and the total vehicle trips of the hybrid hub-and-spoke network operation are, respectively, 8.0% and 15.3% less than those of the pure hub-and-spoke network operation, and the assumed capacity constraints in an extension model result in more target costs on the hybrid hub-and-spoke network. The two models can be used to support the decision making in network operations by transportation and logistics companies.

  15. Determination of transport properties and optimization of lithium-ion batteries

    Science.gov (United States)

    Stewart, Sarah Grace

    We have adapted the method of restricted diffusion to measure diffusion coefficients in lithium-battery electrolytes using Ultra-Violent-Visible (UV-Vis) absorption. The use of UV-Vis absorption reduces the likelihood of side reactions. Here we describe the measurement of the diffusion coefficient in lithium-battery electrolytic solutions. The diffusion coefficient is seen to decrease with increasing concentration according to the following: D = 3.018·10-5 exp(-0.357c), for LiPF 6 in acetonitrile and D = 2.582·10-5 exp(-2.856c) for LiPF6 in EC:DEC (with D in cm2/s and c in moles per liter). This technique may be useful for any liquid solution with a UV-active species of D greater than 10-6 cm2/s. Activity coefficients were measured in concentration cell and melting-point-depression experiments. Results from concentration-cell experiments are presented for solutions of lithium hexafluorophosphate (LiPF6) in propylene carbonate (PC) as well as in a 1:1 by weight solution of ethylene carbonate (EC) and ethyl methyl carbonate (EMC). Heat capacity results are also presented. The thermodynamic factor of LiPF6 solutions in EC varies between ca. 1.33 and ca. 6.10 in the concentration range ca. 0.06 to 1.25 M (which appears to be a eutectic point). We show that the solutions of LiPF6 investigated are not ideal but that an assumption of ideality for these solutions may overestimate the specific energy of a lithium-ion cell by only 0.6%. The thermodynamic and transport properties that we have measured are used in a system model. We have used this model to optimize the design of an asymmetric-hybrid system. This technology attempts to bridge the gap in energy density between a battery and supercapacitor. In this system, the positive electrode stores charge through a reversible, nonfaradaic adsorption of anions on the surface. The negative electrode is nanostructured Li4Ti 5O12, which reversibly intercalates lithium. We use the properties that we have measured in a system

  16. A physical perspective on cytoplasmic streaming (invited)

    CERN Document Server

    Goldstein, Raymond E

    2015-01-01

    Organisms show a remarkable range of sizes, yet the dimensions of a single cell rarely exceed $100$ $\\mu$m. While the physical and biological origins of this constraint remain poorly understood, exceptions to this rule give valuable insights. A well-known counterexample is the aquatic plant $Chara$, whose cells can exceed $10$ cm in length and $1$ mm in diameter. Two spiraling bands of molecular motors at the cell periphery drive the cellular fluid up and down at speeds up to $100$ $\\mu$m/s, motion that has been hypothesized to mitigate the slowness of metabolite transport on these scales and to aid in homeostasis. This is the most organized instance of a broad class of continuous motions known as "cytoplasmic streaming", found in a wide range of eukaryotic organisms - algae, plants, amoebae, nematodes, and flies - often in unusually large cells. In this overview of the physics of this phenomenon, we examine the interplay between streaming, transport and cell size, and discuss the possible role of self-organi...

  17. A physical perspective on cytoplasmic streaming.

    Science.gov (United States)

    Goldstein, Raymond E; van de Meent, Jan-Willem

    2015-08-06

    Organisms show a remarkable range of sizes, yet the dimensions of a single cell rarely exceed 100 µm. While the physical and biological origins of this constraint remain poorly understood, exceptions to this rule give valuable insights. A well-known counterexample is the aquatic plant Chara, whose cells can exceed 10 cm in length and 1 mm in diameter. Two spiralling bands of molecular motors at the cell periphery drive the cellular fluid up and down at speeds up to 100 µm s(-1), motion that has been hypothesized to mitigate the slowness of metabolite transport on these scales and to aid in homeostasis. This is the most organized instance of a broad class of continuous motions known as 'cytoplasmic streaming', found in a wide range of eukaryotic organisms-algae, plants, amoebae, nematodes and flies-often in unusually large cells. In this overview of the physics of this phenomenon, we examine the interplay between streaming, transport and cell size and discuss the possible role of self-organization phenomena in establishing the observed patterns of streaming.

  18. Structural Basis of GLUT1 Inhibition by Cytoplasmic ATP

    Science.gov (United States)

    Blodgett, David M.; De Zutter, Julie K.; Levine, Kara B.; Karim, Pusha; Carruthers, Anthony

    2007-01-01

    Cytoplasmic ATP inhibits human erythrocyte glucose transport protein (GLUT1)–mediated glucose transport in human red blood cells by reducing net glucose transport but not exchange glucose transport (Cloherty, E.K., D.L. Diamond, K.S. Heard, and A. Carruthers. 1996. Biochemistry. 35:13231–13239). We investigated the mechanism of ATP regulation of GLUT1 by identifying GLUT1 domains that undergo significant conformational change upon GLUT1–ATP interaction. ATP (but not GTP) protects GLUT1 against tryptic digestion. Immunoblot analysis indicates that ATP protection extends across multiple GLUT1 domains. Peptide-directed antibody binding to full-length GLUT1 is reduced by ATP at two specific locations: exofacial loop 7–8 and the cytoplasmic C terminus. C-terminal antibody binding to wild-type GLUT1 expressed in HEK cells is inhibited by ATP but binding of the same antibody to a GLUT1–GLUT4 chimera in which loop 6–7 of GLUT1 is substituted with loop 6–7 of GLUT4 is unaffected. ATP reduces GLUT1 lysine covalent modification by sulfo-NHS-LC-biotin by 40%. AMP is without effect on lysine accessibility but antagonizes ATP inhibition of lysine modification. Tandem electrospray ionization mass spectrometry analysis indicates that ATP reduces covalent modification of lysine residues 245, 255, 256, and 477, whereas labeling at lysine residues 225, 229, and 230 is unchanged. Exogenous, intracellular GLUT1 C-terminal peptide mimics ATP modulation of transport whereas C-terminal peptide-directed IgGs inhibit ATP modulation of glucose transport. These findings suggest that transport regulation involves ATP-dependent conformational changes in (or interactions between) the GLUT1 C terminus and the C-terminal half of GLUT1 cytoplasmic loop 6–7. PMID:17635959

  19. Study on dynamic optimization of the double railway suspended vehicle for automatic transportation in the welding shop

    Institute of Scientific and Technical Information of China (English)

    Huang Dawei; Gao Xiuhua; Xing Hao; Liu Hongxue; Han Yanhe

    2007-01-01

    The 2DOF dynamic equations of the double railway suspended vehicle for automatic transportation in the welding shop are established. The sensitivities are analyzed. The parameter design is researched in ADAMS in terms of the inner railway radius, wheelbase, gauge, girder length of the double railway suspended vehicle for automatic transportation in the welding product line. The mutual-restriction among the design variables is discussed and the selective ranges of the variables are confirmed. The result shows that the stability of the double railway suspended vehicle for automatic transportation in the welding product line depends on parameters of the inner railway radius, wheelbase, gauge, girder length. The optimal results of the optimal objective and design variables have research significance for the virtual prototype of the double suspension railway automation vehicle. The optimal results are input into the simulation model iteratively and the simulation results are fed back to the physical prototype. The veracity and reliability of performance forecast are improved so that the manufacture cost of the double suspension railway automation vehicle is reduced significantly.

  20. Nucleoporin Nup98 mediates galectin-3 nuclear-cytoplasmic trafficking

    Energy Technology Data Exchange (ETDEWEB)

    Funasaka, Tatsuyoshi, E-mail: funasaka@staff.kanazawa-u.ac.jp [Laboratory of Molecular and Cellular Biology, Department of Biology, Faculty of Natural Systems, Institute of Science and Engineering, Kanazawa University, Ishikawa (Japan); Balan, Vitaly; Raz, Avraham [Department of Oncology and Pathology, Karmanos Cancer Institute, Wayne State University, School of Medicine, Detroit, MI (United States); Wong, Richard W., E-mail: rwong@staff.kanazawa-u.ac.jp [Laboratory of Molecular and Cellular Biology, Department of Biology, Faculty of Natural Systems, Institute of Science and Engineering, Kanazawa University, Ishikawa (Japan); Bio-AFM Frontier Research Center, Kanazawa Kanazawa University, Ishikawa (Japan)

    2013-04-26

    Highlights: •Nuclear pore protein Nup98 is a novel binding partner of galectin-3. •Nup98 transports galectin-3 into cytoplasm. •Nup98 depletion leads to galectin-3 nuclear transport and induces growth retardation. •Nup98 may involve in ß-catenin pathway through interaction with galectin-3. -- Abstract: Nucleoporin Nup98 is a component of the nuclear pore complex, and is important in transport across the nuclear pore. Many studies implicate nucleoporin in cancer progression, but no direct mechanistic studies of its effect in cancer have been reported. We show here that Nup98 specifically regulates nucleus–cytoplasm transport of galectin-3, which is a ß-galactoside-binding protein that affects adhesion, migration, and cancer progression, and controls cell growth through the ß-catenin signaling pathway in cancer cells. Nup98 interacted with galectin-3 on the nuclear membrane, and promoted galectin-3 cytoplasmic translocation whereas other nucleoporins did not show these functions. Inversely, silencing of Nup98 expression by siRNA technique localized galectin-3 to the nucleus and retarded cell growth, which was rescued by Nup98 transfection. In addition, Nup98 RNA interference significantly suppressed downstream mRNA expression in the ß-catenin pathway, such as cyclin D1 and FRA-1, while nuclear galectin-3 binds to ß-catenin to inhibit transcriptional activity. Reduced expression of ß-catenin target genes is consistent with the Nup98 reduction and the galectin-3–nucleus translocation rate. Overall, the results show Nup98’s involvement in nuclear–cytoplasm translocation of galectin-3 and ß-catenin signaling pathway in regulating cell proliferation, and the results depicted here suggest a novel therapeutic target/modality for cancers.

  1. Modified Approach for Optimization of Real Life Transportation Problem in Neutrosophic Environment

    Directory of Open Access Journals (Sweden)

    Akanksha Singh

    2017-01-01

    Full Text Available To the best of our knowledge, there is only one approach for solving neutrosophic cost minimization transportation problems. Since neutrosophic transportation problems are a new area of research, other researchers may be attracted to extend this approach for solving other types of neutrosophic transportation problems like neutrosophic solid transportation problems, neutrosophic time minimization transportation problems, neutrosophic transshipment problems, and so on. However, after a deep study of the existing approach, it is noticed that a mathematical incorrect assumption has been used in these existing approaches; therefore there is a need to modify these existing approaches. Keeping the same in mind, in this paper, the existing approach is modified. Furthermore, the exact results of some existing transportation problems are obtained by the modified approach.

  2. Formulation of a Combined Transportation and Inventory Optimization Model with Multiple Time Periods

    Directory of Open Access Journals (Sweden)

    G.Krishnakumari,

    2016-03-01

    Full Text Available Most distribution network design models existing in the literature have focused on minimizing the costs of inventory and transportation. During the analysis of supply chain of currency management problem it is observed that the transportation of currency from various sources to various destinations and the required inventory to be maintained to meet the emerging demands requires formulation of a combined problem. This framework aims to support the coordination of inventory and transportation activities to properly manage the inventory profiles and currency flows between source locations and distribution centers. This paper considers a multi-period inventory and transportation model for a single commodity. The key contribution of this paper is, a mathematical programming formulation of transportation cum inventory problem is proposed and an algorithm for this new formulation as a multi period decision process is intended. A numerical example of currency transportation cum inventory is presented to illustrate the proposed algorithm

  3. Optimizing stability, transport, and divertor operation through plasma shaping for steady-state scenario development in DIII-Da)

    Science.gov (United States)

    Holcomb, C. T.; Ferron, J. R.; Luce, T. C.; Petrie, T. W.; Politzer, P. A.; Challis, C.; DeBoo, J. C.; Doyle, E. J.; Greenfield, C. M.; Groebner, R. J.; Groth, M.; Hyatt, A. W.; Jackson, G. L.; Kessel, C.; La Haye, R. J.; Makowski, M. A.; McKee, G. R.; Murakami, M.; Osborne, T. H.; Park, J.-M.; Prater, R.; Porter, G. D.; Reimerdes, H.; Rhodes, T. L.; Shafer, M. W.; Snyder, P. B.; Turnbull, A. D.; West, W. P.

    2009-05-01

    Recent studies on the DIII-D tokamak [J. L. Luxon, Nucl. Fusion 42, 614 (2002)] have elucidated key aspects of the dependence of stability, confinement, and density control on the plasma magnetic configuration, leading to the demonstration of nearly noninductive operation for >1 s with pressure 30% above the ideal no-wall stability limit. Achieving fully noninductive tokamak operation requires high pressure, good confinement, and density control through divertor pumping. Plasma geometry affects all of these. Ideal magnetohydrodynamics modeling of external kink stability suggests that it may be optimized by adjusting the shape parameter known as squareness (ζ). Optimizing kink stability leads to an increase in the maximum stable pressure. Experiments confirm that stability varies strongly with ζ, in agreement with the modeling. Optimization of kink stability via ζ is concurrent with an increase in the H-mode edge pressure pedestal stability. Global energy confinement is optimized at the lowest ζ tested, with increased pedestal pressure and lower core transport. Adjusting the magnetic divertor balance about a double-null configuration optimizes density control for improved noninductive auxiliary current drive. The best density control is obtained with a slight imbalance toward the divertor opposite the ion grad(B) drift direction, consistent with modeling of these effects. These optimizations have been combined to achieve noninductive current fractions near unity for over 1 s with normalized pressure of 3.565%, and a normalized confinement factor of H98(y ,2)≈1.5.

  4. Optimizing public transport planning and operations using automatic vehicle location data: The Dutch example

    NARCIS (Netherlands)

    Van Oort, N.; Sparing, D.; Brands, T.; Goverde, R.M.P.

    2012-01-01

    There is a growing pressure on urban public transport companies and authorities to improve efficiency, stemming from reduced budgets, political expectations and competition between operators. In order to find inefficiencies, bottlenecks and potentials in the public transport service, it is useful to

  5. Optimization of city transportation of cargoes with use of system researches in the field of logistics

    Directory of Open Access Journals (Sweden)

    Олександр Павлович Кіркін

    2015-03-01

    Full Text Available In market working conditions, the enterprises need to maintain the competitiveness constantly. It is reached due to increase of standards of customer service and application of the latest technologies of management and production, including logistics. Over time there were following kinds of logistics: transport, warehouse, supply, production, etc. Thus, there is some parallel methodological development in the field of logistics and creation of logistic chains and systems at various stages of life cycle of goods. Thus, for city transportations, except high requirements to ecology and the impacts on the person inherent quick search of administrative decisions on effective customer service for the minimum time is. The warehouse logistics is an intermediate link between economic models by definition of stocks and parties of purchase, and transport operations which these indicators influence. Thus, system researches in the field of warehouse and transport logistic allow to coordinate transport and warehouse operations in uniform indicators, and also to expand methods of transport logistics. Planning and management of transport operations with the solution of problems of the target conflict can be used only for continuous transport sizes. First of all it is connected with impossibility of accumulation of transport works. It is necessary to notice feature of the solution of problems of the target conflict which can carry as the end result, and it can be presented by function, including function of distribution of a random variable. Therefore, the solution of a task can be used in imitating modeling. For transport operations it is necessary to consider two cases: the maximum intensity of service can't be increased and possibility of accumulation of intensity of service at the expense of additional resources

  6. Seasonal transport - A study to determine the seasonal effects of transporting fish from the Snake River to optimize a transportation strategy

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The goal of this U.S. Army Corps of Engineers (USACE) - funded study that began in 2004 is to determine if the smolt-to-adult return rates (SARs), transport/in-river...

  7. An AFM Observation on Fossil Cytoplasm

    Institute of Scientific and Technical Information of China (English)

    WANG Xin; YU Junping; FANG Xiaohong

    2008-01-01

    Fossil cytoplasm is a new research topic of interest in paleobotany. Atomic force microscope (AFM) is a new technology applied widely in physics and biology; however, it is rarely used in paleontology. Here we applied AFM for the first time to study fossil cytoplasm. The results indicate that the fossil cytoplasm is heterogeneous and full of ultrastructures, just like extant cytoplasm, and that the application of AFM, especially in combination with other techniques, can reveal the subcellular details of fossil plants with more confidence.

  8. Scaling of phloem structure and optimality of photoassimilate transport in conifer needles

    DEFF Research Database (Denmark)

    Ronellenfitsch, Henrik; Liesche, Johannes; Jensen, Kaare Hartvig

    2015-01-01

    The phloem vascular system facilitates transport of energy-rich sugar and signalling molecules in plants, thus permitting long-range communication within the organism and growth of non-photosynthesizing organs such as roots and fruits. The flow is driven by osmotic pressure, generated...... conductive elements obeys a power law. We present a minimal model that accounts for these common traits and takes into account the transport strategy and natural constraints. This minimal model predicts a power law phloem distribution consistent with transport energy minimization, suggesting that energetics...

  9. Geographic information system-based healthcare waste management planning for treatment site location and optimal transportation routeing.

    Science.gov (United States)

    Shanmugasundaram, Jothiganesh; Soulalay, Vongdeuane; Chettiyappan, Visvanathan

    2012-06-01

    In Lao People's Democratic Republic (Lao PDR), a growth of healthcare centres, and the environmental hazards and public health risks typically accompanying them, increased the need for healthcare waste (HCW) management planning. An effective planning of an HCW management system including components such as the treatment plant siting and an optimized routeing system for collection and transportation of waste is deemed important. National government offices at developing countries often lack the proper tools and methodologies because of the high costs usually associated with them. However, this study attempts to demonstrate the use of an inexpensive GIS modelling tool for healthcare waste management in the country. Two areas were designed for this study on HCW management, including: (a) locating centralized treatment plants and designing optimum travel routes for waste collection from nearby healthcare facilities; and (b) utilizing existing hospital incinerators and designing optimum routes for collecting waste from nearby healthcare facilities. Spatial analysis paved the way to understand the spatial distribution of healthcare wastes and to identify hotspots of higher waste generating locations. Optimal route models were designed for collecting and transporting HCW to treatment plants, which also highlights constraints in collecting and transporting waste for treatment and disposal. The proposed model can be used as a decision support tool for the efficient management of hospital wastes by government healthcare waste management authorities and hospitals.

  10. Scaling of swim speed and stroke frequency in geometrically similar penguins: they swim optimally to minimize cost of transport

    Science.gov (United States)

    Sato, Katsufumi; Shiomi, Kozue; Watanabe, Yuuki; Watanuki, Yutaka; Takahashi, Akinori; Ponganis, Paul J.

    2010-01-01

    It has been predicted that geometrically similar animals would swim at the same speed with stroke frequency scaling with mass−1/3. In the present study, morphological and behavioural data obtained from free-ranging penguins (seven species) were compared. Morphological measurements support the geometrical similarity. However, cruising speeds of 1.8–2.3 m s−1 were significantly related to mass0.08 and stroke frequencies were proportional to mass−0.29. These scaling relationships do not agree with the previous predictions for geometrically similar animals. We propose a theoretical model, considering metabolic cost, work against mechanical forces (drag and buoyancy), pitch angle and dive depth. This new model predicts that: (i) the optimal swim speed, which minimizes the energy cost of transport, is proportional to (basal metabolic rate/drag)1/3 independent of buoyancy, pitch angle and dive depth; (ii) the optimal speed is related to mass0.05; and (iii) stroke frequency is proportional to mass−0.28. The observed scaling relationships of penguins support these predictions, which suggest that breath-hold divers swam optimally to minimize the cost of transport, including mechanical and metabolic energy during dive. PMID:19906666

  11. Optimism

    Science.gov (United States)

    Carver, Charles S.; Scheier, Michael F.; Segerstrom, Suzanne C.

    2010-01-01

    Optimism is an individual difference variable that reflects the extent to which people hold generalized favorable expectancies for their future. Higher levels of optimism have been related prospectively to better subjective well-being in times of adversity or difficulty (i.e., controlling for previous well-being). Consistent with such findings, optimism has been linked to higher levels of engagement coping and lower levels of avoidance, or disengagement, coping. There is evidence that optimism is associated with taking proactive steps to protect one's health, whereas pessimism is associated with health-damaging behaviors. Consistent with such findings, optimism is also related to indicators of better physical health. The energetic, task-focused approach that optimists take to goals also relates to benefits in the socioeconomic world. Some evidence suggests that optimism relates to more persistence in educational efforts and to higher later income. Optimists also appear to fare better than pessimists in relationships. Although there are instances in which optimism fails to convey an advantage, and instances in which it may convey a disadvantage, those instances are relatively rare. In sum, the behavioral patterns of optimists appear to provide models of living for others to learn from. PMID:20170998

  12. Optimization

    CERN Document Server

    Pearce, Charles

    2009-01-01

    Focuses on mathematical structure, and on real-world applications. This book includes developments in several optimization-related topics such as decision theory, linear programming, turnpike theory, duality theory, convex analysis, and queuing theory.

  13. Optimal and robust energy transport in light-harvesting complexes: (II) A quantum interplay of multichromophoric geometries and environmental interactions

    CERN Document Server

    Mohseni, Masoud; Lloyd, Seth; Rabitz, Herschel

    2011-01-01

    Today, the physical principles for the high efficiency of excitation energy transfer in light-harvesting complexes are still not fully understood. Notably, the degree of robustness of these systems for transporting energy is not known considering their realistic interactions with vibrational and radiative environments within the surrounding solvent and scaffold proteins. In this work, we employ an efficient technique to simulate ultrafast quantum dynamics of such complex excitonic systems in their non-equilibrium environment in the non-perturbative and non-Markovian regimes. We demonstrate that the natural dynamics of the FMO complex leads to optimum and stable energy transport due to a convergence of energy/time scales among important internal and external parameters. In particular, we show that the FMO energy transfer efficiency is optimal and robust with respect to all the relevant parameters of environmental interactions and Frenkel-exciton Hamiltonian including reorganization energy \\lambda, bath frequen...

  14. Cytoplasmic Streaming - Skylab Student Experiment ED-63

    Science.gov (United States)

    1973-01-01

    This chart describes the Skylab student experiment (ED-63), Cytoplasmic Streaming, proposed by Cheryl A. Peitz of Arapahoe High School, Littleton, Colorado. Experiment ED-63 was to observe the effect of zero-gravity on cytoplasmic streaming in the aquatic plant named Elodea, commonly called water weed or water thyme. The phenomenon of cytoplasmic streaming is not well understood, but it is recognized as the circulation mechanism of the internal materials or cytoplasm of a cell. Cytoplasm is a gelatinous substance that has the ability to change its viscosity and flow, carrying various cell materials with it. The activity can be stimulated by sunlight or heat. In March 1972, NASA and the National Science Teachers Association selected 25 experiment proposals for flight on Skylab. Science advisors from the Marshall Space Flight Center aided and assisted the students in developing the proposals for flight on Skylab.

  15. 甲状腺乳头状癌浸润前沿磷酸化RB核质转位表达与淋巴结转移相关%Correlation of nuclear-cytoplasmic transport of pRB in the invasive front and lymph node metastasis in papillary thyroid carcinoma

    Institute of Scientific and Technical Information of China (English)

    肖晓岚; 吴文川; 李灼日; 陈春吉

    2016-01-01

    目的:探讨甲状腺乳头状癌浸润前沿磷酸化RB(pRB)的表达及临床病理意义。方法:用免疫组织化学方法对82例加做颈部淋巴结清扫的部分或全部甲状腺手术切除标本进行pRB检测,分析pRB的表达及临床病理意义。结果:在甲状腺乳头状癌的浸润前沿,可见pRB以核质转位的模式表达,pRB在浸润前沿的核质转位表达是甲状腺乳头状癌淋巴结转移的独立预测因素。结论:浸润前沿pRB核质转位表达是甲状腺乳头状癌淋巴结转移的独立预测因素。%Objective To investigate the expression of phosphorylated RB (pRB) in the invasion front of papillary thyroid carcinoma and the clinical pathological implications. Methods Immunohistochemistry was ap-plied in analyzing pRB expression feature and the clinical pathological implications in a total of 82 patients who underwent total or subtotal thyroidectomy and neck lymph node dissection for papillary thyroid carcinoma. Results The displacement of pRB proteins from the nucleus to the cytoplasm was observed in the invasive front of papil-lary thyroid carcinoma , which was an independent predictor of lymph node metastasis in papillary thyroid carci-noma. Conclusion Nuclear-cytoplasmic transport of pRB in the invasive front was an independent predictor of lymph node metastasis in papillary thyroid carcinoma.

  16. Characterization of phosphorylation sites in the cytoplasmic domain of the 300 kDa mannose-6-phosphate receptor

    DEFF Research Database (Denmark)

    Rosorius, O; Mieskes, G; Issinger, O G;

    1993-01-01

    kinases phosphorylate the cytoplasmic tail exclusively on serine residues. Inhibition studies using synthetic peptides, partial sequencing of isolated tryptic phosphopeptides and co-migration with tryptic phosphopeptides from MPR 300 labelled in vivo showed that (i) PKA phosphorylates the cytoplasmic MPR...... which may play a role in the transport function of MPR 300 and/or interaction with other proteins....

  17. Influenza a virus assembly intermediates fuse in the cytoplasm.

    Directory of Open Access Journals (Sweden)

    Seema S Lakdawala

    2014-03-01

    Full Text Available Reassortment of influenza viral RNA (vRNA segments in co-infected cells can lead to the emergence of viruses with pandemic potential. Replication of influenza vRNA occurs in the nucleus of infected cells, while progeny virions bud from the plasma membrane. However, the intracellular mechanics of vRNA assembly into progeny virions is not well understood. Here we used recent advances in microscopy to explore vRNA assembly and transport during a productive infection. We visualized four distinct vRNA segments within a single cell using fluorescent in situ hybridization (FISH and observed that foci containing more than one vRNA segment were found at the external nuclear periphery, suggesting that vRNA segments are not exported to the cytoplasm individually. Although many cytoplasmic foci contain multiple vRNA segments, not all vRNA species are present in every focus, indicating that assembly of all eight vRNA segments does not occur prior to export from the nucleus. To extend the observations made in fixed cells, we used a virus that encodes GFP fused to the viral polymerase acidic (PA protein (WSN PA-GFP to explore the dynamics of vRNA assembly in live cells during a productive infection. Since WSN PA-GFP colocalizes with viral nucleoprotein and influenza vRNA segments, we used it as a surrogate for visualizing vRNA transport in 3D and at high speed by inverted selective-plane illumination microscopy. We observed cytoplasmic PA-GFP foci colocalizing and traveling together en route to the plasma membrane. Our data strongly support a model in which vRNA segments are exported from the nucleus as complexes that assemble en route to the plasma membrane through dynamic colocalization events in the cytoplasm.

  18. Optimal design for problems involving flow and transport phenomena in saturated subsurface systems

    Science.gov (United States)

    Mayer, Alex S.; Kelley, C. T.; Miller, Cass T.

    Estimation problems arise routinely in subsurface hydrology for applications that range from water resources management to water quality protection to subsurface restoration. Interest in optimal design of such systems has increased over the last two decades and this area is considered an important and active area of research. In this work, we review the state of the art, assess important challenges that must be resolved to reach a mature level of understanding, and summarize some promising approaches that might help meet some of the challenges. While much has been accomplished to date, we conclude that more work remains before comprehensive, efficient, and robust solution methods exist to solve the most challenging applications in subsurface science. We suggest that future directions of research include the application of direct search solution methods, and developments in stochastic and multi-objective optimization. We present a set of comprehensive test problems for use in the research community as a means for benchmarking and comparing optimization approaches.

  19. High-Fidelity Aerostructural Optimization of Nonplanar Wings for Commercial Transport Aircraft

    Science.gov (United States)

    Khosravi, Shahriar

    Although the aerospace sector is currently responsible for a relatively small portion of global anthropogenic greenhouse gas emissions, the growth of the airline industry raises serious concerns about the future of commercial aviation. As a result, the development of new aircraft design concepts with the potential to improve fuel efficiency remains an important priority. Numerical optimization based on high-fidelity physics has become an increasingly attractive tool over the past fifteen years in the search for environmentally friendly aircraft designs that reduce fuel consumption. This approach is able to discover novel design concepts and features that may never be considered without optimization. This can help reduce the economic costs and risks associated with developing new aircraft concepts by providing a more realistic assessment early in the design process. This thesis provides an assessment of the potential efficiency improvements obtained from nonplanar wings through the application of fully coupled high-fidelity aerostructural optimization. In this work, we conduct aerostructural optimization using the Euler equations to model the flow along with a viscous drag estimate based on the surface area. A major focus of the thesis is on finding the optimal shape and performance benefits of nonplanar wingtip devices. Two winglet configurations are considered: winglet-up and winglet-down. These are compared to optimized planar wings of the same projected span in order to quantify the possible drag reductions offered by winglets. In addition, the drooped wing is studied in the context of exploratory optimization. The main results show that the winglet-down configuration is the most efficient winglet shape, reducing the drag by approximately 2% at the same weight in comparison to a planar wing. There are two reasons for the superior performance of this design. First, this configuration moves the tip vortex further away from the wing. Second, the winglet

  20. Fast Algorithms for Earth Mover Distance Based on Optimal Transport and L1 Regularization II

    Science.gov (United States)

    2016-09-01

    L1 on P(G). We first define a flux on a lattice. Denote a matrix m = (mi+ 1 2 )Ni=1 ∈ RN×d, where each component mi+ 1 2 is a row vector in Rd, i.e...continuity and summability of transport densities: simpler proofs and new estimates. Calculus of Variations and Partial Differential Equations, 36 (3

  1. Real-time Container Transport Planning with Decision Trees based on Offline Obtained Optimal Solutions

    NARCIS (Netherlands)

    B. van Riessen (Bart); R.R. Negenborn (Rudy); R. Dekker (Rommert)

    2016-01-01

    textabstractHinterland networks for container transportation require planning methods in order to increase efficiency and reliability of the inland road, rail and waterway connections. In this paper we aim to derive real-time decision rules for suitable allocations of containers to inland services b

  2. Microbiological responses to depuration and transport of native and exotic clams at optimal and stressful temperatures.

    Science.gov (United States)

    Anacleto, Patrícia; Maulvault, Ana Luísa; Chaguri, Milena; Pedro, Sónia; Nunes, Maria Leonor; Rosa, Rui; Marques, António

    2013-12-01

    The microbiological responses of two bivalves species from Tagus estuary, Venerupis pullastra (native clam) and Ruditapes philippinarum (exotic clam) were investigated during 48 h of depuration and subsequent simulated transport in semi-dry conditions at two temperatures (4 and 22 °C) until reaching 50% lethal time (LT50). Regardless of temperature and species, the maintenance of clams in water for 48 h (depuration period) did not affect LT50 during transport. R. philippinarum showed higher survival rates than V. pullastra, always reaching LT50 later, especially at 4 °C. Significant differences between clams' species were found in almost all microbiological parameters. This can be related with clams' biological activity and habitat environmental conditions since both clams do not coexist in Tagus estuary. Depuration was efficient to reduce the bacterial load, particularly Escherichia coli, but not efficient to remove Vibrio spp. In both species, the growth of Vibrio spp. was inhibited at 4 °C, whereas exponential growth occurred at 22 °C. Total viable counts significantly increased in most treatments, while E. coli counts significantly decreased to undetected levels, except for non-depurated R. philippinarum simulated transported at 4 °C. Thus, this study highlights the importance of clams depuration for at least 24 h in polluted estuarine areas, followed by transport at low temperatures (4 °C). Copyright © 2013 Elsevier Ltd. All rights reserved.

  3. Differential expression in glioblastoma multiforme and cerebral hemangioblastoma of cytoplasmic proteins that bind two different domains within the 3'-untranslated region of the human glucose transporter 1 (GLUT1) messenger RNA.

    Science.gov (United States)

    Tsukamoto, H; Boado, R J; Pardridge, W M

    1996-01-01

    The glucose transporter 1 (GLUT1) protein is underexpressed in human glioblastoma multiforme and is overexpressed in human cerebral hemangioblastoma. To gain in-sight into possible posttranscriptional mechanisms regulating the expression of the GLUT1 protein in human brain tumors, cytosolic proteins were prepared from these two tumors and used in RNase T1 protection assays that employed [32P]human GLUT1 synthetic RNA prepared from transcription plasmids. Gel shift mobility assays and ultra-violet light cross-linking studies demonstrated the formation of specific RNA/protein complexes that migrated with a mol mass of 120, 44, and 41 kD. RNase T1 mapping and oligodeoxynucleotide competition studies showed that the 120 kD complex was comprised of an RNA fragment that localized to nucleotides 2186-2203 of the GLUT1 mRNA. The 44 kD complex contained an adenosine-uridine-rich RNA fragment that localized to nucleotides 1885-1906 of the human GLUT1 mRNA, and the formation of this complex was inhibited by synthetic RNA enriched in adenosine-uridine sequences. The 44 kD complex was selectively downregulated in hemangioblastoma as compared to glioblastoma multiforme. These studies demonstrate that human brain tumors have differential regulation of cytosolic proteins that specifically interact with two different domains in the 3'-untranslated region of the GLUT1 mRNA, which may serve to mediate the posttranscriptional regulation of GLUT1 gene expression in these tumors. PMID:8675694

  4. Transport of bromide and pesticides through an undisturbed soil column: A modeling study with global optimization analysis

    Science.gov (United States)

    Dusek, Jaromir; Dohnal, Michal; Snehota, Michal; Sobotkova, Martina; Ray, Chittaranjan; Vogel, Tomas

    2015-04-01

    The fate of pesticides in tropical soils is still not understood as well as it is for soils in temperate regions. In this study, water flow and transport of bromide tracer and five pesticides (atrazine, imazaquin, sulfometuron methyl, S-metolachlor, and imidacloprid) through an undisturbed soil column of tropical Oxisol were analyzed using a one-dimensional numerical model. The numerical model is based on Richards' equation for solving water flow, and the advection-dispersion equation for solving solute transport. Data from a laboratory column leaching experiment were used in the uncertainty analysis using a global optimization methodology to evaluate the model's sensitivity to transport parameters. All pesticides were found to be relatively mobile (sorption distribution coefficients lower than 2 cm3 g- 1). Experimental data indicated significant non-conservative behavior of bromide tracer. All pesticides, with the exception of imidacloprid, were found less persistent (degradation half-lives smaller than 45 days). Three of the five pesticides (atrazine, sulfometuron methyl, and S-metolachlor) were better described by the linear kinetic sorption model, while the breakthrough curves of imazaquin and imidacloprid were more appropriately approximated using nonlinear instantaneous sorption. Sensitivity analysis suggested that the model is most sensitive to sorption distribution coefficient. The prediction limits contained most of the measured points of the experimental breakthrough curves, indicating adequate model concept and model structure for the description of transport processes in the soil column under study. Uncertainty analysis using a physically-based Monte Carlo modeling of pesticide fate and transport provides useful information for the evaluation of chemical leaching in Hawaii soils.

  5. Optimal Transportation-entropy Inequalities for Several Usual Distributions on R

    Institute of Scientific and Technical Information of China (English)

    Wei LIU

    2011-01-01

    In this paper,based on the recent results of Gozlan and Léonard we give optimal transportationentropy inequalities for several usual distributions on R,such as Bernoulli,Binomial,Poisson,Gamma distributions and infinitely divisible distributions with positive or negative jumps.

  6. Optimization of an Electron Transport Layer to Enhance the Power Conversion Efficiency of Flexible Inverted Organic Solar Cells

    Directory of Open Access Journals (Sweden)

    Lee Kang Hyuck

    2010-01-01

    Full Text Available Abstract The photovoltaic (PV performance of flexible inverted organic solar cells (IOSCs with an active layer consisting of a blend of poly(3-hexylthiophene and [6, 6]-phenyl C61-butlyric acid methyl ester was investigated by varying the thicknesses of ZnO seed layers and introducing ZnO nanorods (NRs. A ZnO seed layer or ZnO NRs grown on the seed layer were used as an electron transport layer and pathway to optimize PV performance. ZnO seed layers were deposited using spin coating at 3,000 rpm for 30 s onto indium tin oxide (ITO-coated polyethersulphone (PES substrates. The ZnO NRs were grown using an aqueous solution method at a low temperature (90°C. The optimized device with ZnO NRs exhibited a threefold increase in PV performance compared with that of a device consisting of a ZnO seed layer without ZnO NRs. Flexible IOSCs fabricated using ZnO NRs with improved PV performance may pave the way for the development of PV devices with larger interface areas for effective exciton dissociation and continuous carrier transport paths.

  7. The Shortlist Method for fast computation of the Earth Mover's Distance and finding optimal solutions to transportation problems.

    Directory of Open Access Journals (Sweden)

    Carsten Gottschlich

    Full Text Available Finding solutions to the classical transportation problem is of great importance, since this optimization problem arises in many engineering and computer science applications. Especially the Earth Mover's Distance is used in a plethora of applications ranging from content-based image retrieval, shape matching, fingerprint recognition, object tracking and phishing web page detection to computing color differences in linguistics and biology. Our starting point is the well-known revised simplex algorithm, which iteratively improves a feasible solution to optimality. The Shortlist Method that we propose substantially reduces the number of candidates inspected for improving the solution, while at the same time balancing the number of pivots required. Tests on simulated benchmarks demonstrate a considerable reduction in computation time for the new method as compared to the usual revised simplex algorithm implemented with state-of-the-art initialization and pivot strategies. As a consequence, the Shortlist Method facilitates the computation of large scale transportation problems in viable time. In addition we describe a novel method for finding an initial feasible solution which we coin Modified Russell's Method.

  8. The Shortlist Method for fast computation of the Earth Mover's Distance and finding optimal solutions to transportation problems.

    Science.gov (United States)

    Gottschlich, Carsten; Schuhmacher, Dominic

    2014-01-01

    Finding solutions to the classical transportation problem is of great importance, since this optimization problem arises in many engineering and computer science applications. Especially the Earth Mover's Distance is used in a plethora of applications ranging from content-based image retrieval, shape matching, fingerprint recognition, object tracking and phishing web page detection to computing color differences in linguistics and biology. Our starting point is the well-known revised simplex algorithm, which iteratively improves a feasible solution to optimality. The Shortlist Method that we propose substantially reduces the number of candidates inspected for improving the solution, while at the same time balancing the number of pivots required. Tests on simulated benchmarks demonstrate a considerable reduction in computation time for the new method as compared to the usual revised simplex algorithm implemented with state-of-the-art initialization and pivot strategies. As a consequence, the Shortlist Method facilitates the computation of large scale transportation problems in viable time. In addition we describe a novel method for finding an initial feasible solution which we coin Modified Russell's Method.

  9. Application of Monte Carlo techniques to optimization of high-energy beam transport in a stochastic environment

    Science.gov (United States)

    Parrish, R. V.; Dieudonne, J. E.; Filippas, T. A.

    1971-01-01

    An algorithm employing a modified sequential random perturbation, or creeping random search, was applied to the problem of optimizing the parameters of a high-energy beam transport system. The stochastic solution of the mathematical model for first-order magnetic-field expansion allows the inclusion of state-variable constraints, and the inclusion of parameter constraints allowed by the method of algorithm application eliminates the possibility of infeasible solutions. The mathematical model and the algorithm were programmed for a real-time simulation facility; thus, two important features are provided to the beam designer: (1) a strong degree of man-machine communication (even to the extent of bypassing the algorithm and applying analog-matching techniques), and (2) extensive graphics for displaying information concerning both algorithm operation and transport-system behavior. Chromatic aberration was also included in the mathematical model and in the optimization process. Results presented show this method as yielding better solutions (in terms of resolutions) to the particular problem than those of a standard analog program as well as demonstrating flexibility, in terms of elements, constraints, and chromatic aberration, allowed by user interaction with both the algorithm and the stochastic model. Example of slit usage and a limited comparison of predicted results and actual results obtained with a 600 MeV cyclotron are given.

  10. Optimization of an Electron Transport Layer to Enhance the Power Conversion Efficiency of Flexible Inverted Organic Solar Cells.

    Science.gov (United States)

    Lee, Kang Hyuck; Kumar, Brijesh; Park, Hye-Jeong; Kim, Sang-Woo

    2010-08-31

    The photovoltaic (PV) performance of flexible inverted organic solar cells (IOSCs) with an active layer consisting of a blend of poly(3-hexylthiophene) and [6, 6]-phenyl C(61)-butlyric acid methyl ester was investigated by varying the thicknesses of ZnO seed layers and introducing ZnO nanorods (NRs). A ZnO seed layer or ZnO NRs grown on the seed layer were used as an electron transport layer and pathway to optimize PV performance. ZnO seed layers were deposited using spin coating at 3,000 rpm for 30 s onto indium tin oxide (ITO)-coated polyethersulphone (PES) substrates. The ZnO NRs were grown using an aqueous solution method at a low temperature (90°C). The optimized device with ZnO NRs exhibited a threefold increase in PV performance compared with that of a device consisting of a ZnO seed layer without ZnO NRs. Flexible IOSCs fabricated using ZnO NRs with improved PV performance may pave the way for the development of PV devices with larger interface areas for effective exciton dissociation and continuous carrier transport paths.

  11. Taking advantage of reduced droplet-surface interaction to optimize transport of bioanalytes in digital microfluidics.

    Science.gov (United States)

    Freire, Sergio L S; Thorne, Nathaniel; Wutkowski, Michael; Dao, Selina

    2014-11-10

    Digital microfluidics (DMF), a technique for manipulation of droplets, is a promising alternative for the development of "lab-on-a-chip" platforms. Often, droplet motion relies on the wetting of a surface, directly associated with the application of an electric field; surface interactions, however, make motion dependent on droplet contents, limiting the breadth of applications of the technique. Some alternatives have been presented to minimize this dependence. However, they rely on the addition of extra chemical species to the droplet or its surroundings, which could potentially interact with droplet moieties. Addressing this challenge, our group recently developed Field-DW devices to allow the transport of cells and proteins in DMF, without extra additives. Here, the protocol for device fabrication and operation is provided, including the electronic interface for motion control. We also continue the studies with the devices, showing that multicellular, relatively large, model organisms can also be transported, arguably unaffected by the electric fields required for device operation.

  12. Control and optimization for intelligent transportation systems in vicinity of intersections

    OpenAIRE

    Liu, Bing

    2016-01-01

    This thesis is devoted to study the potential applications of autonomous vehicles and V2X communications to construct the intelligent transportation systems. Firstly, the behavior of platoon in connected vehicle environment is studied. A platoon control algorithm is designed to obtain safe spacing as well as accordance of velocity and acceleration for vehicles in the same lane. Secondly, in larger scale, the platoons around an intersection are considered. The throughput in a traffic signal pe...

  13. Evaluation and optimization of mass transport of redox species in silicon microwire-array photoelectrodes

    OpenAIRE

    Xiang, Chengxiang; Meng, Andrew C.; Lewis, Nathan S.

    2012-01-01

    Physical integration of a Ag electrical contact internally into a metal/substrate/microstructured Si wire array/oxide/Ag/electrolyte photoelectrochemical solar cell has produced structures that display relatively low ohmic resistance losses, as well as highly efficient mass transport of redox species in the absence of forced convection. Even with front-side illumination, such wire-array based photoelectrochemical solar cells do not require a transparent conducting oxide top contact. In contac...

  14. Optimal-mass-transfer-based estimation of glymphatic transport in living brain

    OpenAIRE

    2015-01-01

    It was recently shown that the brain-wide cerebrospinal fluid (CSF) and interstitial fluid exchange system designated the ‘glymphatic pathway’ plays a key role in removing waste products from the brain, similarly to the lymphatic system in other body organs1,2. It is therefore important to study the flow patterns of glymphatic transport through the live brain in order to better understand its functionality in normal and pathological states. Unlike blood, the CSF does not flow rapidly through ...

  15. Scaling of phloem structure and optimality of photoassimilate transport in conifer needles.

    Science.gov (United States)

    Ronellenfitsch, Henrik; Liesche, Johannes; Jensen, Kaare H; Holbrook, N Michele; Schulz, Alexander; Katifori, Eleni

    2015-02-22

    The phloem vascular system facilitates transport of energy-rich sugar and signalling molecules in plants, thus permitting long-range communication within the organism and growth of non-photosynthesizing organs such as roots and fruits. The flow is driven by osmotic pressure, generated by differences in sugar concentration between distal parts of the plant. The phloem is an intricate distribution system, and many questions about its regulation and structural diversity remain unanswered. Here, we investigate the phloem structure in the simplest possible geometry: a linear leaf, found, for example, in the needles of conifer trees. We measure the phloem structure in four tree species representing a diverse set of habitats and needle sizes, from 1 (Picea omorika) to 35 cm (Pinus palustris). We show that the phloem shares common traits across these four species and find that the size of its conductive elements obeys a power law. We present a minimal model that accounts for these common traits and takes into account the transport strategy and natural constraints. This minimal model predicts a power law phloem distribution consistent with transport energy minimization, suggesting that energetics are more important than translocation speed at the leaf level.

  16. Choice of an Optimal Management Strategy of Transport Demand Using Multi-Criteria Analysis: City of Zagreb Case Study

    Directory of Open Access Journals (Sweden)

    Ljupko Šimunović

    2013-03-01

    Full Text Available After initial enthusiasm by motor vehicles, society is lately increasingly noticing their shortcomings. Traffic problems caused by excessive use of cars, still represent a very serious and widespread problem, particularly in cities. Public opinion expresses dissatisfaction with the quality of the environment and traffic conditions. As the most important demand, the demand for human health stands out in the first place, and, consequently, the demand for sustainable transport development. The fact that the EU is involved in solving traffic problems by means of various directives and scientific research projects, points out the seriousness of the problem. Two solutions which are mainly used for solving traffic problems in cities are the construction or extension of existing transport infrastructure and traffic demand management (TDM. Traffic demand management is a new paradigm, which aims at reducing or transforming of traffic demand through reduction of unnecessary drives by cars and improvement of more efficient, healthier and, above all, cleaner forms of public and non-motorized transport. There is a whole range of methods for traffic demand management, such as Park & Ride system, carpooling, carsharing, priority for the vehicles with specified number of passenger – HOV, teleworking, congestion charging, charging for use of road infrastructure, bicycling infrastructure improvement, etc. The topic of the work focuses on the choice of optimal traffic demand management strategies in the city of Zagreb using multi-criteria analysis.

  17. Optimization of prostate cancer treatment plans using the adjoint transport method and discrete ordinates codes

    Energy Technology Data Exchange (ETDEWEB)

    Yoo, S.; Henderson, D.L. [Dept. of Medical Physics, Madison, WI (United States); Thomadsen, B.R. [Dept. of Medical Physics and Dept. of Human Oncology, Madison (United States)

    2001-07-01

    Interstitial brachytherapy is a type of radiation in which radioactive sources are implanted directly into cancerous tissue. Determination of dose delivered to tissue by photons emitted from implanted seeds is an important step in the treatment plan process. In this paper we will investigate the use of the discrete ordinates method and the adjoint method to calculate absorbed dose in the regions of interest. MIP (mixed-integer programming) is used to determine the optimal seed distribution that conforms the prescribed dose to the tumor and delivers minimal dose to the sensitive structures. The patient treatment procedure consists of three steps: (1) image acquisition with the transrectal ultrasound (TRUS) and assessing the region of interest, (2) adjoint flux computation with discrete ordinate code for inverse dose calculation, and (3) optimization with the MIP branch-and-bound method.

  18. Optimizing tritium extraction from a Permeator Against Vacuum (PAV) by dimensional design using different tritium transport modeling tools

    Energy Technology Data Exchange (ETDEWEB)

    Martinez, P., E-mail: pablomiguel.martinez@ciemat.es [CIEMAT-LNF (Laboratorio Nacional de Fusion), Madrid (Spain); Moreno, C. [CIEMAT-LNF (Laboratorio Nacional de Fusion), Madrid (Spain); Martinez, I. [SENER Ingenieria y Sistemas, Provenca 392, 4a 08025 Barcelona (Spain); Sedano, L. [CIEMAT-LNF (Laboratorio Nacional de Fusion), Madrid (Spain)

    2012-08-15

    The Permeator Against Vacuum (PAV) has been conceived as the simplest, cost effective and reliable technology system dedicated to tritium extraction from breeding liquid metals. An optimal design of a PAV requires a detailed hydraulic design optimization for established operational ranges (HCLL at low velocities of {approx}1 mm/s or DCLL in the ranges of tens of cm/s). The present work analyses the PAV extraction efficiency dependency on the design parameters as optimum on-line Tritium Extraction System (TES). Three different models have been built for that purpose: one through physically refined 1D tritium transport computation using TMAP7 (unique simulation tool with QA for ITER); and two further detailed models on 2D/3D FEM tool (COMSOL Multi-physics 4.0). The geometry used in this work is a simplification of Fuskite{sup Registered-Sign} conceptual design developed at CIEMAT, consisting of a set of cylindrical and concentric {alpha}-Fe double membranes enclosing a vacuumed space and in contact with in-pipe flowing LiPb eutectic. The aim of this paper is to give the first steps to establish the optimal design parameters of a PAV and evaluate the state-of-the-art of these models.

  19. Vesicular Nucleo-Cytoplasmic Transport—Herpesviruses as Pioneers in Cell Biology

    Directory of Open Access Journals (Sweden)

    Thomas C. Mettenleiter

    2016-09-01

    Full Text Available Herpesviruses use a vesicle-mediated transfer of intranuclearly assembled nucleocapsids through the nuclear envelope (NE for final maturation in the cytoplasm. The molecular basis for this novel vesicular nucleo-cytoplasmic transport is beginning to be elucidated in detail. The heterodimeric viral nuclear egress complex (NEC, conserved within the classical herpesviruses, mediates vesicle formation from the inner nuclear membrane (INM by polymerization into a hexagonal lattice followed by fusion of the vesicle membrane with the outer nuclear membrane (ONM. Mechanisms of capsid inclusion as well as vesicle-membrane fusion, however, are largely unclear. Interestingly, a similar transport mechanism through the NE has been demonstrated in nuclear export of large ribonucleoprotein complexes during Drosophila neuromuscular junction formation, indicating a widespread presence of a novel concept of cellular nucleo-cytoplasmic transport.

  20. Vesicular Nucleo-Cytoplasmic Transport—Herpesviruses as Pioneers in Cell Biology

    Science.gov (United States)

    Mettenleiter, Thomas C.

    2016-01-01

    Herpesviruses use a vesicle-mediated transfer of intranuclearly assembled nucleocapsids through the nuclear envelope (NE) for final maturation in the cytoplasm. The molecular basis for this novel vesicular nucleo-cytoplasmic transport is beginning to be elucidated in detail. The heterodimeric viral nuclear egress complex (NEC), conserved within the classical herpesviruses, mediates vesicle formation from the inner nuclear membrane (INM) by polymerization into a hexagonal lattice followed by fusion of the vesicle membrane with the outer nuclear membrane (ONM). Mechanisms of capsid inclusion as well as vesicle-membrane fusion, however, are largely unclear. Interestingly, a similar transport mechanism through the NE has been demonstrated in nuclear export of large ribonucleoprotein complexes during Drosophila neuromuscular junction formation, indicating a widespread presence of a novel concept of cellular nucleo-cytoplasmic transport. PMID:27690080

  1. Fractal organization of feline oocyte cytoplasm.

    Science.gov (United States)

    De Vico, G; Peretti, V; Losa, G A

    2005-01-01

    The present study aimed at verifying whether immature cat oocytes with morphologic irregular cytoplasm display self-similar features which can be analytically described by fractal analysis. Original images of oocytes collected by ovariectomy were acquired at a final magnification of 400x with a CCD video camera connected to an optic microscope. After greyscale thresholding segmentation of cytoplasm, image profiles were submitted to fractal analysis using FANAL++, a program which provided an analytical standard procedure for determining the fractal dimension (FD). The presentation of the oocyte influenced the magnitude of the fractal dimension with the highest FD of 1.91 measured on grey-dark cytoplasm characterized by a highly connected network of lipid droplets and intracellular membranes. Fractal analysis provides an effective quantitative descriptor of the real cytoplasm morphology, which can influence the acquirement of in vitro developmental competence, without introducing any bias or shape approximation and thus contributes to an objective and reliable classification of feline oocytes.

  2. Fractal organization of feline oocyte cytoplasm

    Directory of Open Access Journals (Sweden)

    G De Vico

    2009-06-01

    Full Text Available The present study aimed at verifying whether immature cat oocytes with morphologic irregular cytoplasm display selfsimilar features which can be analytically described by fractal analysis. Original images of oocytes collected by ovariectomy were acquired at a final magnification of 400 X with a CCD video camera connected to an optic microscope. After greyscale thresholding segmentation of cytoplasm, image profiles were submitted to fractal analysis using FANAL++, a program which provided an analytical standard procedure for determining the fractal dimension (FD. The presentation of the oocyte influenced the magnitude of the fractal dimension with the highest FD of 1.91 measured on grey-dark cytoplasm characterized by a highly connected network of lipid droplets and intracellular membranes. Fractal analysis provides an effective quantitative descriptor of the real cytoplasm morphology, which can influence the acquirement of in vitro developmental competence, without introducing any bias or shape approximation and thus contributes to an objective and reliable classification of feline oocytes.

  3. Evaluation and optimization of mass transport of redox species in silicon microwire-array photoelectrodes.

    Science.gov (United States)

    Xiang, Chengxiang; Meng, Andrew C; Lewis, Nathan S

    2012-09-25

    Physical integration of a Ag electrical contact internally into a metal/substrate/microstructured Si wire array/oxide/Ag/electrolyte photoelectrochemical solar cell has produced structures that display relatively low ohmic resistance losses, as well as highly efficient mass transport of redox species in the absence of forced convection. Even with front-side illumination, such wire-array based photoelectrochemical solar cells do not require a transparent conducting oxide top contact. In contact with a test electrolyte that contained 50 mM/5.0 mM of the cobaltocenium(+/0) redox species in CH(3)CN-1.0 M LiClO(4), when the counterelectrode was placed in the solution and separated from the photoelectrode, mass transport restrictions of redox species in the internal volume of the Si wire array photoelectrode produced low fill factors and limited the obtainable current densities to 17.6 mA cm(-2) even under high illumination. In contrast, when the physically integrated internal Ag film served as the counter electrode, the redox couple species were regenerated inside the internal volume of the photoelectrode, especially in regions where depletion of the redox species due to mass transport limitations would have otherwise occurred. This behavior allowed the integrated assembly to operate as a two-terminal, stand-alone, photoelectrochemical solar cell. The current density vs. voltage behavior of the integrated photoelectrochemical solar cell produced short-circuit current densities in excess of 80 mA cm(-2) at high light intensities, and resulted in relatively low losses due to concentration overpotentials at 1 Sun illumination. The integrated wire array-based device architecture also provides design guidance for tandem photoelectrochemical cells for solar-driven water splitting.

  4. Integrated design and manufacturing for the high speed civil transport (a combined aerodynamics/propulsion optimization study)

    Science.gov (United States)

    Baecher, Juergen; Bandte, Oliver; DeLaurentis, Dan; Lewis, Kemper; Sicilia, Jose; Soboleski, Craig

    1995-01-01

    This report documents the efforts of a Georgia Tech High Speed Civil Transport (HSCT) aerospace student design team in completing a design methodology demonstration under NASA's Advanced Design Program (ADP). Aerodynamic and propulsion analyses are integrated into the synthesis code FLOPS in order to improve its prediction accuracy. Executing the integrated product and process development (IPPD) methodology proposed at the Aerospace Systems Design Laboratory (ASDL), an improved sizing process is described followed by a combined aero-propulsion optimization, where the objective function, average yield per revenue passenger mile ($/RPM), is constrained by flight stability, noise, approach speed, and field length restrictions. Primary goals include successful demonstration of the application of the response surface methodolgy (RSM) to parameter design, introduction to higher fidelity disciplinary analysis than normally feasible at the conceptual and early preliminary level, and investigations of relationships between aerodynamic and propulsion design parameters and their effect on the objective function, $/RPM. A unique approach to aircraft synthesis is developed in which statistical methods, specifically design of experiments and the RSM, are used to more efficiently search the design space for optimum configurations. In particular, two uses of these techniques are demonstrated. First, response model equations are formed which represent complex analysis in the form of a regression polynomial. Next, a second regression equation is constructed, not for modeling purposes, but instead for the purpose of optimization at the system level. Such an optimization problem with the given tools normally would be difficult due to the need for hard connections between the various complex codes involved. The statistical methodology presents an alternative and is demonstrated via an example of aerodynamic modeling and planform optimization for a HSCT.

  5. ExbB Cytoplasmic Loop Deletions Cause Immediate, Proton Motive Force-Independent Growth Arrest

    Science.gov (United States)

    Bulathsinghala, Charles M.; Jana, Bimal; Baker, Kristin R.

    2013-01-01

    The Escherichia coli TonB system consists of the cytoplasmic membrane proteins TonB, ExbB, and ExbD and multiple outer membrane active transporters for diverse iron siderophores and vitamin B12. The cytoplasmic membrane proteins harvest and transmit the proton motive force (PMF) to outer membrane transporters. This system, which spans the cell envelope, has only one component with a significant cytoplasmic presence, ExbB. Characterization of sequential 10-residue deletions in the ExbB cytoplasmic loop (residues 40 to 129; referred to as Δ10 proteins) revealed that it was required for all TonB-dependent activities, including interaction between the periplasmic domains of TonB and ExbD. Expression of eight out of nine of the Δ10 proteins at chromosomal levels led to immediate, but reversible, growth arrest. Arrest was not due to collapse of the PMF and did not require the presence of ExbD or TonB. All Δ10 proteins that caused growth arrest were dominant for that phenotype. However, several were not dominant for iron transport, indicating that growth arrest was an intrinsic property of the Δ10 variants, whether or not they could associate with wild-type ExbB proteins. The lack of dominance in iron transport also ruled out trivial explanations for growth arrest, such as high-level induction. Taken together, the data suggest that growth arrest reflected a changed interaction between the ExbB cytoplasmic loop and one or more unknown growth-regulatory proteins. Consistent with that, a large proportion of the ExbB cytoplasmic loop between transmembrane domain 1 (TMD1) and TMD2 is predicted to be disordered, suggesting the need for interaction with one or more cytoplasmic proteins to induce a final structure. PMID:23913327

  6. Control and optimization of solute transport in a thin porous tube

    KAUST Repository

    Griffiths, I. M.

    2013-03-01

    Predicting the distribution of solutes or particles in flows within porous-walled tubes is essential to inform the design of devices that rely on cross-flow filtration, such as those used in water purification, irrigation devices, field-flow fractionation, and hollow-fibre bioreactors for tissue-engineering applications. Motivated by these applications, a radially averaged model for fluid and solute transport in a tube with thin porous walls is derived by developing the classical ideas of Taylor dispersion. The model includes solute diffusion and advection via both radial and axial flow components, and the advection, diffusion, and uptake coefficients in the averaged equation are explicitly derived. The effect of wall permeability, slip, and pressure differentials upon the dispersive solute behaviour are investigated. The model is used to explore the control of solute transport across the membrane walls via the membrane permeability, and a parametric expression for the permeability required to generate a given solute distribution is derived. The theory is applied to the specific example of a hollow-fibre membrane bioreactor, where a uniform delivery of nutrient across the membrane walls to the extra-capillary space is required to promote spatially uniform cell growth. © 2013 American Institute of Physics.

  7. Design and optimization of porous ceramic supports for asymmetric ceria-based oxygen transport membranes

    DEFF Research Database (Denmark)

    Kaiser, Andreas; Foghmoes, Søren Preben Vagn; Pećanac, G.

    2016-01-01

    content from 11 vol% to 16 vol%, the gas permeabilities increased by a factor of 5 when support tapes were sintered to comparable densities. The improved permeabilities were due to a more favourable microstructure with larger interconnected pores at a porosity of 45% and a fracture strength of 47±2 MPa (m......The microstructure, mechanical properties and gas permeability of porous supports of Ce0.9Gd0.1O1.95−δ (CGO) were investigated as a function of sintering temperature and volume fraction of pore former for use in planar asymmetric oxygen transport membranes (OTMs). With increasing the pore former......=7). The achieved gas permeability of 2.25×10−15 m2 for a 0.4 mm thick support will not limit the gas transport for oxygen production but in partial oxidation of methane to syngas at higher oxygen fluxes. For integration of the CGO support layer into a flat, asymmetric CGO membrane, the sintering...

  8. Optimizing the ASC WAN: evaluating network performance tools for comparing transport protocols.

    Energy Technology Data Exchange (ETDEWEB)

    Lydick, Christopher L.

    2007-07-01

    The Advanced Simulation & Computing Wide Area Network (ASC WAN), which is a high delay-bandwidth network connection between US Department of Energy National Laboratories, is constantly being examined and evaluated for efficiency. One of the current transport-layer protocols which is used, TCP, was developed for traffic demands which are different from that on the ASC WAN. The Stream Control Transport Protocol (SCTP), on the other hand, has shown characteristics which make it more appealing to networks such as these. Most important, before considering a replacement for TCP on any network, a testing tool that performs well against certain criteria needs to be found. In order to try to find such a tool, two popular networking tools (Netperf v.2.4.3 & v.2.4.6 (OpenSS7 STREAMS), and Iperf v.2.0.6) were tested. These tools implement both TCP and SCTP and were evaluated using four metrics: (1) How effectively can the tool reach a throughput near the bandwidth? (2) How much of the CPU does the tool utilize during operation? (3) Is the tool freely and widely available? And, (4) Is the tool actively developed? Following the analysis of those tools, this paper goes further into explaining some recommendations and ideas for future work.

  9. Structural insights of ZIP4 extracellular domain critical for optimal zinc transport

    Science.gov (United States)

    Zhang, Tuo; Sui, Dexin; Hu, Jian

    2016-06-01

    The ZIP zinc transporter family is responsible for zinc uptake from the extracellular milieu or intracellular vesicles. The LIV-1 subfamily, containing nine out of the 14 human ZIP proteins, is featured with a large extracellular domain (ECD). The critical role of the ECD is manifested by disease-causing mutations on ZIP4, a representative LIV-1 protein. Here we report the first crystal structure of a mammalian ZIP4-ECD, which reveals two structurally independent subdomains and an unprecedented dimer centred at the signature PAL motif. Structure-guided mutagenesis, cell-based zinc uptake assays and mapping of the disease-causing mutations indicate that the two subdomains play pivotal but distinct roles and that the bridging region connecting them is particularly important for ZIP4 function. These findings lead to working hypotheses on how ZIP4-ECD exerts critical functions in zinc transport. The conserved dimeric architecture in ZIP4-ECD is also demonstrated to be a common structural feature among the LIV-1 proteins.

  10. Microtubule–microtubule sliding by kinesin-1 is essential for normal cytoplasmic streaming in Drosophila oocytes

    Science.gov (United States)

    Lu, Wen; Winding, Michael; Lakonishok, Margot; Wildonger, Jill

    2016-01-01

    Cytoplasmic streaming in Drosophila oocytes is a microtubule-based bulk cytoplasmic movement. Streaming efficiently circulates and localizes mRNAs and proteins deposited by the nurse cells across the oocyte. This movement is driven by kinesin-1, a major microtubule motor. Recently, we have shown that kinesin-1 heavy chain (KHC) can transport one microtubule on another microtubule, thus driving microtubule–microtubule sliding in multiple cell types. To study the role of microtubule sliding in oocyte cytoplasmic streaming, we used a Khc mutant that is deficient in microtubule sliding but able to transport a majority of cargoes. We demonstrated that streaming is reduced by genomic replacement of wild-type Khc with this sliding-deficient mutant. Streaming can be fully rescued by wild-type KHC and partially rescued by a chimeric motor that cannot move organelles but is active in microtubule sliding. Consistent with these data, we identified two populations of microtubules in fast-streaming oocytes: a network of stable microtubules anchored to the actin cortex and free cytoplasmic microtubules that moved in the ooplasm. We further demonstrated that the reduced streaming in sliding-deficient oocytes resulted in posterior determination defects. Together, we propose that kinesin-1 slides free cytoplasmic microtubules against cortically immobilized microtubules, generating forces that contribute to cytoplasmic streaming and are essential for the refinement of posterior determinants. PMID:27512034

  11. Microtubule-microtubule sliding by kinesin-1 is essential for normal cytoplasmic streaming in Drosophila oocytes.

    Science.gov (United States)

    Lu, Wen; Winding, Michael; Lakonishok, Margot; Wildonger, Jill; Gelfand, Vladimir I

    2016-08-23

    Cytoplasmic streaming in Drosophila oocytes is a microtubule-based bulk cytoplasmic movement. Streaming efficiently circulates and localizes mRNAs and proteins deposited by the nurse cells across the oocyte. This movement is driven by kinesin-1, a major microtubule motor. Recently, we have shown that kinesin-1 heavy chain (KHC) can transport one microtubule on another microtubule, thus driving microtubule-microtubule sliding in multiple cell types. To study the role of microtubule sliding in oocyte cytoplasmic streaming, we used a Khc mutant that is deficient in microtubule sliding but able to transport a majority of cargoes. We demonstrated that streaming is reduced by genomic replacement of wild-type Khc with this sliding-deficient mutant. Streaming can be fully rescued by wild-type KHC and partially rescued by a chimeric motor that cannot move organelles but is active in microtubule sliding. Consistent with these data, we identified two populations of microtubules in fast-streaming oocytes: a network of stable microtubules anchored to the actin cortex and free cytoplasmic microtubules that moved in the ooplasm. We further demonstrated that the reduced streaming in sliding-deficient oocytes resulted in posterior determination defects. Together, we propose that kinesin-1 slides free cytoplasmic microtubules against cortically immobilized microtubules, generating forces that contribute to cytoplasmic streaming and are essential for the refinement of posterior determinants.

  12. Promising SINEs for embargoing nuclear-cytoplasmic export as an anticancer strategy.

    Science.gov (United States)

    Tan, David S P; Bedard, Philippe L; Kuruvilla, John; Siu, Lillian L; Razak, Albiruni R Abdul

    2014-05-01

    In cancer cells, the nuclear-cytoplasmic transport machinery is frequently disrupted, resulting in mislocalization and loss of function for many key regulatory proteins. In this review, the mechanisms by which tumor cells co-opt the nuclear transport machinery to facilitate carcinogenesis, cell survival, drug resistance, and tumor progression will be elucidated, with a particular focus on the role of the nuclear-cytoplasmic export protein. The recent development of a new generation of selective inhibitors of nuclear export (XPO1 antagonists) and how these novel anticancer drugs may bring us closer to the implementation of this therapeutic strategy in the clinic will be discussed.

  13. Optimizing Water Transport through Graphene-Based Membranes: Insights from Nonequilibrium Molecular Dynamics.

    Science.gov (United States)

    Muscatello, Jordan; Jaeger, Frederike; Matar, Omar K; Müller, Erich A

    2016-05-18

    Recent experimental results suggest that stacked layers of graphene oxide exhibit strong selective permeability to water. To construe this observation, the transport mechanism of water permeating through a membrane consisting of layered graphene sheets is investigated via nonequilibrium and equilibrium molecular dynamics simulations. The effect of sheet geometry is studied by changing the offset between the entrance and exit slits of the membrane. The simulation results reveal that the permeability is not solely dominated by entrance effects; the path traversed by water molecules has a considerable impact on the permeability. We show that contrary to speculation in the literature, water molecules do not pass through the membrane as a hydrogen-bonded chain; instead, they form well-mixed fluid regions confined between the graphene sheets. The results of the present work are used to provide guidelines for the development of graphene and graphene oxide membranes for desalination and solvent separation.

  14. PART I – USUAL PROBLEMS OF OPTIMIZING THE ACTION SYSTEMS OFTHE BAND TRANSPORTERS

    Directory of Open Access Journals (Sweden)

    Nicoleta-Maria MIHUT

    2012-05-01

    Full Text Available Most of the systems of electric action are non-linear systems, including the continuous transportsystems with band, that could be brought by linearization and negligence at the linear system. The latest news inthe field of static convertors, of the new transfer schemes of electric energy, make possible the analysis of theaction systems of the continuous transport installations with band as linearisable systems. For the linearisableaction systems described by state equations, there are two consecrated calculation methods of the optimaltrajectory of the system, the variational calculation and the Euler-Lagrange algorithm, as the latter one isconsidered by the specialty literature as an optimum generator, and the first one as an extremum generator. Butthe two methods need conditions reviewed enough in the Euler-Lagrange conditions

  15. Experimental Study Optimizing Hole Cleaning-Cuttings Transport in Oil Drilling Engineering

    Institute of Scientific and Technical Information of China (English)

    Ibrahim A A; Musa T A

    2003-01-01

    With a clear understanding of the drilling fluid techniques and the cutting-taking mechanism, a new advanced model is set up for analyzing field data and quantitative forecast of cutting-taking mechanism. Therefore, a number of values affecting the drilling rate and the hole cleaning are studied over a wide range of parameters. Drilling data obtained under high-borehole-pressure conditions are analyzed to determine the causes of the reduction in rate of penetration (ROP) as the borehole pressure increases, which in some cases is caused by the buildup of rock debris under the bit. The theoretical achievement and testing conclusions can be very instructional for horizontal well drilling. Much higher annular velocities are required for effective hole cleaning in directional wells than in vertical wells. Highviscosity muds are observed to provide better transport than low-viscosity muds.

  16. Alternative Destination Transport? The Role of Paramedics in Optimal Use of the Emergency Department

    Directory of Open Access Journals (Sweden)

    Michael M. Neeki

    2016-11-01

    Full Text Available Introduction: Alternative destination transportation by emergency medical services (EMS is a subject of hot debate between those favoring all patients being evaluated by an emergency physician (EP and those recognizing the need to reduce emergency department (ED crowding. This study aimed to determine whether paramedics could accurately assess a patient’s acuity level to determine the need to transport to an ED. Methods: We performed a prospective double-blinded analysis of responses recorded by paramedics and EPs of arriving patients’ acuity level in a large Level II trauma center between April 2015 and November 2015. Under-triage was defined as lower acuity assessed by paramedics but higher acuity by EPs. Over-triage was defined as higher acuity assessed by paramedics but lower acuity by EPs. The degree of agreement between the paramedics and EPs’ evaluations of patient’s acuity level was compared using Chi-square test. Results: We included a total of 503 patients in the final analysis. For paramedics, 2 51 (49.9% patients were assessed to be emergent, 178 (35.4% assessed as urgent, and 74 (14.7% assessed as non-emergent/non-urgent. In comparison, the EPs assessed 296 (58.9% patients as emergent, 148 (29.4% assessed as urgent, and 59 (11.7% assessed as non-emergent/ non-urgent. Paramedics agreed with EPs regarding the acuity level assessment on 71.8% of the cases. The overall under- and over-triage were 19.3% and 8.9%, respectively. A moderate Kappa=0.5174 indicated moderate inter-rater agreement between paramedics’ and EPs’ assessment on the same cohort of patients. Conclusion: There is a significant difference in paramedic and physician assessment of patients into emergent, urgent, or non-emergent/non-urgent categories. The field triage of a patient to an alternative destination by paramedics under their current scope of practice and training cannot be supported.

  17. Strict convexity and C 1, α regularity of potential functions in optimal transportation under condition A3w

    Science.gov (United States)

    Chen, Shibing; Wang, Xu-Jia

    2016-01-01

    In this paper we prove the strict c-convexity and the C 1, α regularity for potential functions in optimal transportation under condition (A3w). These results were obtained by Caffarelli [1,3,4] for the cost c (x, y) =| x - y | 2, by Liu [11], Loeper [15], Trudinger and Wang [20] for costs satisfying the condition (A3). For costs satisfying the condition (A3w), the results have also been proved by Figalli, Kim, and McCann [6], assuming that the initial and target domains are uniformly c-convex, see also [21]; and by Guillen and Kitagawa [8], assuming the cost function satisfies A3w in larger domains. In this paper we prove the strict c-convexity and the C 1, α regularity assuming either the support of source density is compactly contained in a larger domain where the cost function satisfies A3w, or the dimension 2 ≤ n ≤ 4.

  18. Designing Sustainable Public Transportation: Integrated Optimization of Bus Speed and Holding Time in a Connected Vehicle Environment

    Directory of Open Access Journals (Sweden)

    Wei Wu

    2016-11-01

    Full Text Available Developing public transportation and giving priority to buses is a feasible solution for improving the level of public transportation service, which facilitates congestion alleviation and prevention, and contributes to urban development and city sustainability. This paper presents a novel bus operation control strategy including both holding control and speed control to improve the level of service of transit systems within a connected vehicle environment. Most previous work focuses on optimization of signal timing to decrease the bus signal delay by assuming that holding control is not applied; the speed of buses is given as a constant input and the acceleration and deceleration processes of buses can be neglected. This paper explores the benefits of a bus operation control strategy to minimize the total cost, which includes bus signal delay, bus holding delay, bus travel delay, acceleration cost due to frequent stops and intense driving. A set of formulations are developed to explicitly capture the interaction between bus holding control and speed control. Experimental analysisand simulation tests have shown that the proposed integrated operational model outperforms the traditional control, speed control only, or holding control only strategies in terms of reducing the total cost of buses. The sensitivity analysis has further demonstrated the potential effectiveness of the proposed approach to be applied in a real-time bus operation control system under different levels of traffic demand, bus stop locations, and speed limits.

  19. A Design of Urban Public Transport System Optimization%城市公交系统优化设计

    Institute of Scientific and Technical Information of China (English)

    王秋平; 古自鹏; 袁伟; 刘挺; 袁彦涛; 秦军

    2012-01-01

    Bus scheduling is the core content of the bus business operations, to improve the level of urban public transport operations scheduling is to improve the quality of urban public transport services and the important way to make the bus business attractive. From the perspective of adjustment of the grid inter- val, the article take the interests of both passengers and bus companies into account, establishing singleobjective optimization model for minimal expenses. The data of Xi'an 5 bus line is used to test the model and the validation experiment shows that the model is feasible.%公交调度是公交企业运营的核心内容,提高城市公交的运营调度水平是改善城市公交服务质量、提高公交吸引力的重要途径。从调整发车间隔的角度出发,兼顾公交公司和乘客双方利益,建立以乘客和公交企业运营费用最小为目标的单目标优化模型,并以西安市5路公交线路的调查数据对模型进行求解和验证,实验表明该模型可行。

  20. Optimization of thermoelectric performance in semiconducting polymers for understanding charge transport and flexible thermoelectric applications

    Science.gov (United States)

    Glaudell, Anne; Chabinyc, Michael

    2014-03-01

    Organic electronic materials have been widely considered for a variety of energy conversion applications, from photovoltaics to LEDs. Only very recently have organic materials been considered for thermoelectric applications - converting between temperature gradients and electrical potential. The intrinsic disorder in semiconducting polymers leads to an inherently low thermal conductivity, a key parameter in thermoelectric performance. The ability to solution deposit on flexible substrates opens up niche applications including personal cooling and conformal devices. Here work is presented on the electrical conductivity and thermopower of thin film semiconducting polymers, including P3HT and PBTTT-C14. Thermoelectric properties are explored over a wide range of conductivities, from nearly insulating to beyond 100 S/cm, enabled by employing different doping mechanisms, including molecular charge-transfer doping with F4TCNQ and vapor doping with a fluoroalkyl trichlorosilane (FTS). Temperature-dependent measurements suggest competing charge transport mechanisms, likely due to the mixed ordered/disordered character of these polymers. These results show promise for organic materials for thermoelectric applications, and recent results on thin film devices will also be presented.

  1. Production and Optimization of Direct Coal Liquefaction derived Low Carbon-Footprint Transportation Fuels

    Energy Technology Data Exchange (ETDEWEB)

    Steven Markovich

    2010-06-30

    This report summarizes works conducted under DOE Contract No. DE-FC26-05NT42448. The work scope was divided into two categories - (a) experimental program to pretreat and refine a coal derived syncrude sample to meet transportation fuels requirements; (b) system analysis of a commercial scale direct coal liquefaction facility. The coal syncrude was derived from a bituminous coal by Headwaters CTL, while the refining study was carried out under a subcontract to Axens North America. The system analysis included H{sub 2} production cost via six different options, conceptual process design, utilities requirements, CO{sub 2} emission and overall plant economy. As part of the system analysis, impact of various H{sub 2} production options was evaluated. For consistence the comparison was carried out using the DOE H2A model. However, assumptions in the model were updated using Headwaters database. Results of Tier 2 jet fuel specifications evaluation by the Fuels & Energy Branch, US Air Force Research Laboratory (AFRL/RZPF) located at Wright Patterson Air Force Base (Ohio) are also discussed in this report.

  2. Scaling of phloem structure and optimality of photoassimilate transport in conifer needles

    CERN Document Server

    Ronellenfitsch, Henrik; Jensen, Kaare H; Holbrook, N Michele; Schulz, Alexander; Katifori, Eleni

    2014-01-01

    The phloem vascular system facilitates transport of energy-rich sugar and signaling molecules in plants, thus permitting long range communication within the organism and growth of non-photosynthesizing organs such as roots and fruits. The flow is driven by osmotic pressure, generated by differences in sugar concentration between distal parts of the plant. The phloem is an intricate distribution system, and many questions about its regulation and structural diversity remain unanswered. Here, we investigate the phloem structure in the simplest possible geometry: a linear leaf, found, for example, in the needles of conifer trees. We measure the phloem structure in four tree species representing a diverse set of habitats and needle sizes, from 1 cm (\\textit{Picea omorika}) to 35 cm (\\textit{Pinus palustris}). We show that the phloem shares common traits across these four species and find that the size of its conductive elements obeys a power law. We present a minimal model that accounts for these common traits an...

  3. Organization of the Bacterial Light-Harvesting Apparatus Rationalized by Exciton Transport Optimization

    CERN Document Server

    Harel, Elad

    2011-01-01

    Photosynthesis, the process by which energy from sunlight drives cellular metabolism, relies on a unique organization of light-harvesting and reaction center complexes. Recently, the organization of light-harvesting LH2 complexes and dimeric reaction center-light harvesting I-PufX (RC-LH1-PufX) core complexes in membranes of purple non-sulfur bacteria was revealed by atomic force microscopy (AFM)1. Here, we report that the structure of LH2 and its organization within the membrane can be largely rationalized by a simple physical model that relies primarily on exciton transfer optimization. The process through which the light-harvesting complexes transfer excitation energy has been recognized to incorporate both coherent and incoherent processes mediated by the surrounding protein environment. Using the Haken-Strobl model, we show that the organization of the complexes in the membrane can be almost entirely explained by simple electrostatic considerations and that quantum effects act primarily to enforce robust...

  4. Rotavirus disrupts cytoplasmic P bodies during infection.

    Science.gov (United States)

    Bhowmick, Rahul; Mukherjee, Arpita; Patra, Upayan; Chawla-Sarkar, Mamta

    2015-12-02

    Cytoplasmic Processing bodies (P bodies), the RNA-protein aggregation foci of translationally stalled and potentially decaying mRNA, have been reported to be differentially modulated by viruses. Rotavirus, the causative agent of acute infantile gastroenteritis is a double stranded RNA virus which completes its entire life-cycle exclusively in host cell cytoplasm. In this study, the fate of P bodies was investigated upon rotavirus infection. It was found that P bodies get disrupted during rotavirus infection. The disruption occurred by more than one different mechanism where deadenylating P body component Pan3 was degraded by rotavirus NSP1 and exonuclease XRN1 along with the decapping enzyme hDCP1a were relocalized from cytoplasm to nucleus. Overall the study highlights decay and subcellular relocalization of P body components as novel mechanisms by which rotavirus subverts cellular antiviral responses.

  5. Optimized Field Sampling and Monitoring of Airborne Hazardous Transport Plumes; A Geostatistical Simulation Approach

    Energy Technology Data Exchange (ETDEWEB)

    Chen, DI-WEN

    2001-11-21

    Airborne hazardous plumes inadvertently released during nuclear/chemical/biological incidents are mostly of unknown composition and concentration until measurements are taken of post-accident ground concentrations from plume-ground deposition of constituents. Unfortunately, measurements often are days post-incident and rely on hazardous manned air-vehicle measurements. Before this happens, computational plume migration models are the only source of information on the plume characteristics, constituents, concentrations, directions of travel, ground deposition, etc. A mobile ''lighter than air'' (LTA) system is being developed at Oak Ridge National Laboratory that will be part of the first response in emergency conditions. These interactive and remote unmanned air vehicles will carry light-weight detectors and weather instrumentation to measure the conditions during and after plume release. This requires a cooperative computationally organized, GPS-controlled set of LTA's that self-coordinate around the objectives in an emergency situation in restricted time frames. A critical step before an optimum and cost-effective field sampling and monitoring program proceeds is the collection of data that provides statistically significant information, collected in a reliable and expeditious manner. Efficient aerial arrangements of the detectors taking the data (for active airborne release conditions) are necessary for plume identification, computational 3-dimensional reconstruction, and source distribution functions. This report describes the application of stochastic or geostatistical simulations to delineate the plume for guiding subsequent sampling and monitoring designs. A case study is presented of building digital plume images, based on existing ''hard'' experimental data and ''soft'' preliminary transport modeling results of Prairie Grass Trials Site. Markov Bayes Simulation, a coupled Bayesian

  6. How crowded is the prokaryotic cytoplasm?

    Science.gov (United States)

    Spitzer, Jan; Poolman, Bert

    2013-07-11

    We consider biomacromolecular crowding within the cytoplasm of prokaryotic cells as a two-phase system of 'supercrowded' cytogel and 'dilute' cytosol; we simplify and quantify this model for a coccoid cell over a wide range of biomacromolecular crowding. The key result shows that the supercrowded cytogel extends the vectorial character of the plasma membrane deeper into the cytoplasm by about 20-70 nm. We discuss useful physiological insights that this model gives into the functioning of a prokaryotic cell on the micrometer scale. Copyright © 2013 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

  7. Subunit organization in cytoplasmic dynein subcomplexes

    Science.gov (United States)

    King, Stephen J.; Bonilla, Myriam; Rodgers, Michael E.; Schroer, Trina A.

    2002-01-01

    Because cytoplasmic dynein plays numerous critical roles in eukaryotic cells, determining the subunit composition and the organization and functions of the subunits within dynein are important goals. This has been difficult partly because of accessory polypeptide heterogeneity of dynein populations. The motor domain containing heavy chains of cytoplasmic dynein are associated with multiple intermediate, light intermediate, and light chain accessory polypeptides. We examined the organization of these subunits within cytoplasmic dynein by separating the molecule into two distinct subcomplexes. These subcomplexes were competent to reassemble into a molecule with dynein-like properties. One subcomplex was composed of the dynein heavy and light intermediate chains whereas the other subcomplex was composed of the intermediate and light chains. The intermediate and light chain subcomplex could be further separated into two pools, only one of which contained dynein light chains. The two pools had distinct intermediate chain compositions, suggesting that intermediate chain isoforms have different light chain–binding properties. When the two intermediate chain pools were characterized by analytical velocity sedimentation, at least four molecular components were seen: intermediate chain monomers, intermediate chain dimers, intermediate chain monomers with bound light chains, and a mixture of intermediate chain dimers with assorted bound light chains. These data provide new insights into the compositional heterogeneity and assembly of the cytoplasmic dynein complex and suggest that individual dynein molecules have distinct molecular compositions in vivo. PMID:11967380

  8. Antineutrophil cytoplasmic antibodies in juvenile chronic arthritis

    NARCIS (Netherlands)

    Mulder, L; Horst, G; Limburg, P; deGraeffMeeder, ER; Kuis, W; Kallenberg, C

    1997-01-01

    Objective, To evaluate the diagnostic significance of antineutrophil cytoplasmic antibodies (ANCA) by assessing the prevalence of ANCA in juvenile chronic arthritis (JCA) (n = 93) of either oligoarticular, polyarticular, or systemic onset. To investigate the prevalence of ANCA in other diseases of c

  9. How crowded is the prokaryotic cytoplasm?

    NARCIS (Netherlands)

    Spitzer, Jan; Poolman, Bert; Ferguson, Stuart

    2013-01-01

    We consider biomacromolecular crowding within the cytoplasm of prokaryotic cells as a two-phase system of 'supercrowded' cytogel and 'dilute' cytosol; we simplify and quantify this model for a coccoid cell over a wide range of biomacromolecular crowding. The key result shows that the supercrowded

  10. Detection of antineutrophil cytoplasmic antibodies (ANCAs)

    DEFF Research Database (Denmark)

    Damoiseaux, Jan; Csernok, Elena; Rasmussen, Niels

    2017-01-01

    of diagnosis) from 251 patients with ANCA-associated vasculitis (AAV), including granulomatosis with polyangiitis and microscopic polyangiitis, and from 924 disease controls were tested for the presence of cytoplasmic pattern/perinuclear pattern and atypical ANCA (A-ANCA) by indirect immunofluorescence (IIF...

  11. Maglev for fast regional transportation. Optimization of long stator propulsion and energy supply; Magnetschnellbahn fuer den schnellen Regionalverkehr. Optimierung des Langstatorantriebs und der Energieversorgung

    Energy Technology Data Exchange (ETDEWEB)

    Fischperer, R.

    2006-07-01

    This work deals with linear propulsion systems of the Transrapid maglev system especially applicable to regional transportation tasks. In a first step the principle of the linear motor and its configurations and layout strategies for long distance applications are explained and analyzed with regard to their operational characteristics. Next, modified requirements for regional transportation are identified and strategies for optimization of the propulsion system are set up. Various optimization measures within the propulsion system and neighboring subsystems are worked out and explained. Finally, a quantitative analysis of different measures is shown using an exemplary regional line. Optimization potentials compared to a long distance propulsion layouts are shown. It has been found that given the relevant developments in the subsystems concerned savings of up to 40% both in investment and operation costs are feasible. (orig.)

  12. Transcytosis of Aminopeptidase N in caco-2 cells is mediated by a Non-cytoplasmic Signal

    DEFF Research Database (Denmark)

    Vogel, L K; Norén, Ove; Sjöström, H

    1995-01-01

    transported to the basolateral plasma membrane in proportions equivalent to the wild type enzyme. This shows that no cytoplasmic basolateral sorting signal is involved in directing aminopeptidase N to the basolateral plasma membrane. Both the wild type and the tail-less aminopeptidase N were transcytosed from...... was observed. This indicates that transcytosis of aminopeptidase N from the basolateral to the apical membrane does not occur by default transport but involves an active sorting mechanism....

  13. Flow field design and optimization based on the mass transport polarization regulation in a flow-through type vanadium flow battery

    Science.gov (United States)

    Zheng, Qiong; Xing, Feng; Li, Xianfeng; Ning, Guiling; Zhang, Huamin

    2016-08-01

    Vanadium flow battery holds great promise for use in large scale energy storage applications. However, the power density is relatively low, leading to significant increase in the system cost. Apart from the kinetic and electronic conductivity improvement, the mass transport enhancement is also necessary to further increase the power density and reduce the system cost. To better understand the mass transport limitations, in the research, the space-varying and time-varying characteristic of the mass transport polarization is investigated based on the analysis of the flow velocity and reactant concentration in the bulk electrolyte by modeling. The result demonstrates that the varying characteristic of mass transport polarization is more obvious at high SoC or high current densities. To soften the adverse impact of the mass transport polarization, a new rectangular plug flow battery with a plug flow and short flow path is designed and optimized based on the mass transport polarization regulation (reducing the mass transport polarization and improving its uniformity of distribution). The regulation strategy of mass transport polarization is practical for the performance improvement in VFBs, especially for high power density VFBs. The findings in the research are also applicable for other flow batteries and instructive for practical use.

  14. Transport and Retention Modelling of Iron Oxide Nanoparticles in Core Scale Porous Media for Electromagnetic Heating Well-Stimulation Optimization

    Science.gov (United States)

    Santoso, R. K.; Rachmat, S.; Putra, W. D. K.; Resha, A. H.; Hartowo, H.

    2017-07-01

    Understanding the transport and retention of iron oxide nanoparticles is critical in optimizing electromagnetic heating well stimulation. If the injected concentration or injection rate is too big, nanoparticles can build-up inside the pore throat, which can reduce the permeability of the reservoir. A numerical model has been created to describe the behavior of iron oxide nanoparticles in porous media. The model is coupling material balance equation and fluid flow in porous media equations. There are six parameters to be estimated through matching with experimental data: irreversible attachment rate, reversible attachment rate, irreversible attachment capacity, reversible attachment capacity, reversible detachment rate and permeability. All parameters were obtained directly through coreflooding result in previous study. We add Langmuir static isotherm test to limit the maximum adsorption capacity to provide a better estimation of concentration distribution. We use 1% NaCl solution as the base fluid and 45-50 mesh sand as the porous media. From the Langmuir static isotherm test, the maximum adsorption concentration is determined. Then, coreflooding is conducted using 10 ppm nanofluid and 12 cc/min injection rate. The proposed model is matched with the experimental data and its parameters are consistent with the maximum adsorption capacity provided from the test.

  15. Optimization Framework for Supporting 40 Gb/s and 100 Gb/s Services over Heterogeneous Optical Transport Networks

    Directory of Open Access Journals (Sweden)

    Joao Santos

    2012-05-01

    Full Text Available Continuous traffic growth and crunched profit margins are leading network operators to deploying high-capacity backbone infrastructures with minimal capital investment. However, the cost-effective design of optical transport networks (OTNs remains a complex challenge subjected to multiple constraints, e.g., maximum bit rate per channel, electrical multiplexing capabilities, wavelength count per fiber, optical interface cost, maximum transparent reach, etc. To efficiently solve this multi-constrained dimensioning problem in presence of heterogeneous client demands and optical channel rates of 40 Gb/s and 100 Gb/s, this paper presents a novel hybrid optimization framework. The proposed approach is based on an iterative combination of linear programming and rounding algorithms for the demand routing, with graph coloring heuristics for the wavelength assignment. The performance of this framework is assessed and compared with a similar approach that resorts to an integer linear programming (ILP model to route the demands. The results obtained show that our proposal is able to reach the same low network expenditures as the ILP while requesting less computation time. We also confirm that the most cost-effective network solutions are attained when optical line rate heterogeneity is jointly applied with diverse multiplexing capabilities at the OTN electrical layer, such as grooming and inverse-multiplexing.

  16. Joint Optimization of Star P-hub Median Problem and Seat Inventory Control Decisions Considering a Hybrid Routing Transportation System

    Directory of Open Access Journals (Sweden)

    Hamid Tikani

    2016-11-01

    Full Text Available In this paper, we study the problem of integrated capacitated hub location problem and seat inventory control considering concept and techniques of revenue management. We consider an airline company maximizes its revenue by utilizing the best network topology and providing proper booking limits for all itineraries and fare classes. The transportation system arises in the form of a star/star network and includes both hub-stop and non-stop flights. This problem is formulated as a two-stage stochastic integer program with mixed-integer recourse. We solve various instances carried out from the Turkish network data set. Due to the NP-hardness of the problem, we propose a hybrid optimization method, consisting of an evolutionary algorithm based on genetic algorithm and exact solution. The quality of the solutions found by the proposed meta-heuristic is compared with the original version of GA and the mathematical programming model. The results obtained by the proposed model imply that integrating hub location and seat inventory control problem would help to increase the total revenue of airline companies. Also, in the case of serving non-stop flights, the model can provide more profit by employing less number of hubs.

  17. Atmospheric Nitrogen Trifluoride: Optimized emission estimates using 2-D and 3-D Chemical Transport Models from 1973-2008

    Science.gov (United States)

    Ivy, D. J.; Rigby, M. L.; Prinn, R. G.; Muhle, J.; Weiss, R. F.

    2009-12-01

    We present optimized annual global emissions from 1973-2008 of nitrogen trifluoride (NF3), a powerful greenhouse gas which is not currently regulated by the Kyoto Protocol. In the past few decades, NF3 production has dramatically increased due to its usage in the semiconductor industry. Emissions were estimated through the 'pulse-method' discrete Kalman filter using both a simple, flexible 2-D 12-box model used in the Advanced Global Atmospheric Gases Experiment (AGAGE) network and the Model for Ozone and Related Tracers (MOZART v4.5), a full 3-D atmospheric chemistry model. No official audited reports of industrial NF3 emissions are available, and with limited information on production, a priori emissions were estimated using both a bottom-up and top-down approach with two different spatial patterns based on semiconductor perfluorocarbon (PFC) emissions from the Emission Database for Global Atmospheric Research (EDGAR v3.2) and Semiconductor Industry Association sales information. Both spatial patterns used in the models gave consistent results, showing the robustness of the estimated global emissions. Differences between estimates using the 2-D and 3-D models can be attributed to transport rates and resolution differences. Additionally, new NF3 industry production and market information is presented. Emission estimates from both the 2-D and 3-D models suggest that either the assumed industry release rate of NF3 or industry production information is still underestimated.

  18. RAPTOR: Optimization, real-time simulation and control of the tokamak q profile evolution using a simplified transport model

    Science.gov (United States)

    Felici, Federico; Sauter, Olivier; Goodman, Timothy; Paley, James

    2010-11-01

    Control of the plasma current density and safety factor profile evolution in a tokamak is crucial for accessing advanced regimes. The evolution of the current density profile is steered by a combination of inductive voltage and auxiliary current drive actuators, and is nonlinearly coupled to the evolution of the (ion/electron) temperature and density profiles. Using appropriate simplifications, a model has been obtained which can be simulated on time scales faster than the tokamak discharge itself, but still retains the essential physics describing the nonlinear coupling between the profiles. This model, dubbed RAPTOR (Rapid Plasma Transport simulatOR) has been implemented in the new real-time control system on the TCV tokamak at CRPP, and can be used for real-time reconstruction and model-based control of the q profile. It can also be used off-line to determine optimal actuator trajectories in open loop simulations to steer the plasma profiles towards their required steady-state shapes while remaining within a constrained set of allowable profiles.

  19. Research on Network Safety Optimization of Military POL Transportation%军队油料运输网络安全优化研究

    Institute of Scientific and Technical Information of China (English)

    王耀; 雍歧东; 周济晓; 向群

    2012-01-01

      The route-selection action of military petro-oil and lubricants (POL) transportation is restricted and influenced by transportation network and the risk of transportation path. The transportation network is the important part that the enemy tends to attack in the war,so the risk of POL transportation is huge. Optimizing the transportation network and selecting the optimum route are the important approaches that avoid the enemy’s attack and ensure the POL transportation safety. Bi-level decision-makers,namely the Military Communications and Transportation Department of the General Logistics Department and the Military Representative Office or the POL-transportation Fleets as viewed from different decision-makers,are determined as network-planner and route-selector re-spectively. For the sake of the equilibrium of general risks and the objective optimization of single transportation route,the bi-level programming model is constructed;the transportation network is optimized and the optimum route is chosen. The results show that the new model is reasonable and useful.%  军队油料运输路径选择受交通运输网络和运输线路风险的影响和制约。战时,交通运输网络是敌方破坏的重点,油料运输面临很大风险,安全形势非常严峻。合理优化交通运输网络,选择合适的运输路径是避免敌方破坏、保障油料运输安全的重要途径。从不同决策角度出发,选择以总后勤部军事交通运输部为代表的网络规划者和以各级军事代表处及运油分队为代表的运输路径选择者为两级决策者,以实现总体风险均衡和单条运输路径目标最优为出发点,建立双层规划模型,对运输网络进行优化,选择最优运输路径。该法既可降低不同性质的风险,又能兼顾各种风险的相互影响。

  20. Transport Studies Enabling Efficiency Optimization of Cost-Competitive Fuel Cell Stacks (aka AURORA: Areal Use and Reactant Optimization at Rated Amperage)

    Energy Technology Data Exchange (ETDEWEB)

    Conti, Amedeo [Nuvera Fuel Cells, Inc., Billerica, MA (United States); Dross, Robert [Nuvera Fuel Cells, Inc., Billerica, MA (United States)

    2013-12-06

    Hydrogen fuel cells are recognized as one of the most viable solutions for mobility in the 21st century; however, there are technical challenges that must be addressed before the technology can become available for mass production. One of the most demanding aspects is the costs of present-day fuel cells which are prohibitively high for the majority of envisioned markets. The fuel cell community recognizes two major drivers to an effective cost reduction: (1) decreasing the noble metals content, and (2) increasing the power density in order to reduce the number of cells needed to achieve a specified power level. To date, the majority of development work aimed at increasing the value metric (i.e. W/mg-Pt) has focused on the reduction of precious metal loadings, and this important work continues. Efforts to increase power density have been limited by two main factors: (1) performance limitations associated with mass transport barriers, and (2) the historical prioritization of efficiency over cost. This program is driven by commercialization imperatives, and challenges both of these factors. The premise of this Program, supported by proprietary cost modeling by Nuvera, is that DOE 2015 cost targets can be met by simultaneously exceeding DOE 2015 targets for Platinum loadings (using materials with less than 0.2 mg-Pt/cm2) and MEA power density (operating at higher than 1.0 Watt/cm2). The approach of this program is to combine Nuvera’s stack technology, which has demonstrated the ability to operate stably at high current densities (> 1.5 A/cm2), with low Platinum loading MEAs developed by Johnson Matthey in order to maximize Pt specific power density and reduce stack cost. A predictive performance model developed by PSU/UTK is central to the program allowing the team to study the physics and optimize materials/conditions specific to low Pt loading electrodes and ultra-high current density and operation.

  1. Final Cost and Performance Report Application of Flow and Transport Optimization Codes to Groundwater Pump and Treat Systems

    Science.gov (United States)

    2004-01-01

    and treat; Remediation System Evaluation ( RSE ); Remedial Process Optimization (RPO) 16. SECURITY CLASSIFICATION OF: 19a. NAME OF RESPONSIBLE...Demolition Explosive RPO Remedial Process Optimization RSE Remediation System Evaluation SVE soil vapor extraction TCE Trichloroethylene TIO...standards in less time). Remediation System Evaluation ( RSE ) or Remedial Process Optimization (RPO) provides a broad assessment of optimization

  2. Arrest of cytoplasmic streaming induces algal proliferation in green paramecia.

    Directory of Open Access Journals (Sweden)

    Toshiyuki Takahashi

    Full Text Available A green ciliate Paramecium bursaria, bearing several hundreds of endosymbiotic algae, demonstrates rotational microtubule-based cytoplasmic streaming, in which cytoplasmic granules and endosymbiotic algae flow in a constant direction. However, its physiological significance is still unknown. We investigated physiological roles of cytoplasmic streaming in P. bursaria through host cell cycle using video-microscopy. Here, we found that cytoplasmic streaming was arrested in dividing green paramecia and the endosymbiotic algae proliferated only during the arrest of cytoplasmic streaming. Interestingly, arrest of cytoplasmic streaming with pressure or a microtubule drug also induced proliferation of endosymbiotic algae independently of host cell cycle. Thus, cytoplasmic streaming may control the algal proliferation in P. bursaria. Furthermore, confocal microscopic observation revealed that a division septum was formed in the constricted area of a dividing paramecium, producing arrest of cytoplasmic streaming. This is a first report to suggest that cytoplasmic streaming controls proliferation of eukaryotic cells.

  3. Investigating and Optimizing Carrier Transport, Carrier Distribution, and Efficiency Droop in GaN-based Light-emitting Diodes

    Science.gov (United States)

    Zhu, Di

    2011-12-01

    -current efficiency and reduced efficiency droop. Compared with 4-QB-doped LEDs, 1-QB-doped LEDs show a 37.5% increase in light-output power at high currents. Consistent with the measurements, simulation shows a shift of radiative recombination among the MQWs and a reduced electron leakage current into the p-type GaN when fewer QBs are doped. The results can be attributed to a more symmetric carrier transport and uniform carrier distribution which help to reduce electron leakage and thus reduce the efficiency droop. In this dissertation, artificial evolution is introduced to the LED optimization process which combines a genetic algorithm (GA) and device-simulation software. We show that this approach is capable of generating novel concepts in designing and optimizing LED devices. Application of the GA to the QB-doping in the MQWs yields optimized structures which is consistent with the tailored QB doping experiments. Application of the GA to the EBL region suggests a novel structure with an inverted sheet charge at the spacer-EBL interface. The resulting repulsion of electrons can significantly reduce electron leakage and enhance the efficiency. Finally, dual-wavelength LEDs, which have two types of quantum wells (QWs) emitting at two different wavelengths, are experimentally characterized and compared with numerical simulations. These dual-wavelength LEDs allow us to determine which QW emits most of the light. An experimental observation and a quantitative analysis of the radiative recombination shift within the MQW active region are obtained. In addition, an injection-current dependence of the radiative recombination shift is predicted by numerical simulations and indeed observed in dual-wavelength LEDs. This injection-current dependence of the radiative recombination distribution can be explained very well by incorporating quantum-mechanical tunneling of carriers into and through the QBs into to the classical drift-diffusion model. In summary, using the LEDs with tailored QB

  4. Game theory approach to optimizing of public transport traffic under conditions of travel mode choice by passengers

    Directory of Open Access Journals (Sweden)

    Mark KORYAGIN

    2014-09-01

    Full Text Available Consideration was given to the problem of making decisions on public transport management. Three parties making decisions were marked out: passenger flow, transport operator and municipal authorities. Passengers choose between public and private transport evaluating the value of time. The value of time is modeled by uniform distribution. The transport operator seeks to maximize the profit by varying the public transport frequency. The decrease in the frequency decreases the passenger flow of the public transport and cost of transportation. It’s important for the municipal authorities to determine the frequency minimizing the time loss of the population and cost of transportation. The existence of the decision concerning the problems of management was proven. The numerical example characterizing the influence of the parameters on the problem solution was given.

  5. 物流企业运输成本优化研究%Study on Optimization of Transportation Cost of Logistics Enterprises

    Institute of Scientific and Technical Information of China (English)

    毕玉辉

    2013-01-01

    In order to reduce the transportation cost of logistics enterprises, we established three types of logistics enterprises transportation cost optimization model: the supply-demand equilibrium model with the absence of transshipment terminals, the supply-demand non-equilibrium model with the absence of transshipment terminals, as well as the model which contained the transshipment terminals, analyzed them in connection with an empirical example and proposed the countermeasure to optimize the transportation cost of the logistics enterprises: integrating resources among the enterprises; optimizing transportation plan and improving transportation efficiency; and increasing level of independent transportation management of the enterprises.%为了降低物流企业运输成本,构建了三类物流企业运输成本优化模型:不含中转站的供需平衡模型、不含中转站的供需不平衡模型以及含中转站的模型,并对其进行了实证分析,提出了优化物流企业运输成本的对策:实现物流企业之间的资源整合,优化运输方案、提升运输效率,提高物流企业自身运输管理水平.该研究不仅能够降低企业运营成本,而且对于我国物流企业国际竞争力的提高、建立新型的竞合关系具有重要的意义.

  6. Exporting RNA from the nucleus to the cytoplasm.

    Science.gov (United States)

    Köhler, Alwin; Hurt, Ed

    2007-10-01

    The transport of RNA molecules from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes via mobile export receptors. Small RNAs (such as tRNAs and microRNAs) follow relatively simple export routes by binding directly to export receptors. Large RNAs (such as ribosomal RNAs and mRNAs) assemble into complicated ribonucleoprotein (RNP) particles and recruit their exporters via class-specific adaptor proteins. Export of mRNAs is unique as it is extensively coupled to transcription (in yeast) and splicing (in metazoa). Understanding the mechanisms that connect RNP formation with export is a major challenge in the field.

  7. Protein diffusion in mammalian cell cytoplasm.

    Science.gov (United States)

    Kühn, Thomas; Ihalainen, Teemu O; Hyväluoma, Jari; Dross, Nicolas; Willman, Sami F; Langowski, Jörg; Vihinen-Ranta, Maija; Timonen, Jussi

    2011-01-01

    We introduce a new method for mesoscopic modeling of protein diffusion in an entire cell. This method is based on the construction of a three-dimensional digital model cell from confocal microscopy data. The model cell is segmented into the cytoplasm, nucleus, plasma membrane, and nuclear envelope, in which environment protein motion is modeled by fully numerical mesoscopic methods. Finer cellular structures that cannot be resolved with the imaging technique, which significantly affect protein motion, are accounted for in this method by assigning an effective, position-dependent porosity to the cell. This porosity can also be determined by confocal microscopy using the equilibrium distribution of a non-binding fluorescent protein. Distinction can now be made within this method between diffusion in the liquid phase of the cell (cytosol/nucleosol) and the cytoplasm/nucleoplasm. Here we applied the method to analyze fluorescence recovery after photobleach (FRAP) experiments in which the diffusion coefficient of a freely-diffusing model protein was determined for two different cell lines, and to explain the clear difference typically observed between conventional FRAP results and those of fluorescence correlation spectroscopy (FCS). A large difference was found in the FRAP experiments between diffusion in the cytoplasm/nucleoplasm and in the cytosol/nucleosol, for all of which the diffusion coefficients were determined. The cytosol results were found to be in very good agreement with those by FCS.

  8. Protein diffusion in mammalian cell cytoplasm.

    Directory of Open Access Journals (Sweden)

    Thomas Kühn

    Full Text Available We introduce a new method for mesoscopic modeling of protein diffusion in an entire cell. This method is based on the construction of a three-dimensional digital model cell from confocal microscopy data. The model cell is segmented into the cytoplasm, nucleus, plasma membrane, and nuclear envelope, in which environment protein motion is modeled by fully numerical mesoscopic methods. Finer cellular structures that cannot be resolved with the imaging technique, which significantly affect protein motion, are accounted for in this method by assigning an effective, position-dependent porosity to the cell. This porosity can also be determined by confocal microscopy using the equilibrium distribution of a non-binding fluorescent protein. Distinction can now be made within this method between diffusion in the liquid phase of the cell (cytosol/nucleosol and the cytoplasm/nucleoplasm. Here we applied the method to analyze fluorescence recovery after photobleach (FRAP experiments in which the diffusion coefficient of a freely-diffusing model protein was determined for two different cell lines, and to explain the clear difference typically observed between conventional FRAP results and those of fluorescence correlation spectroscopy (FCS. A large difference was found in the FRAP experiments between diffusion in the cytoplasm/nucleoplasm and in the cytosol/nucleosol, for all of which the diffusion coefficients were determined. The cytosol results were found to be in very good agreement with those by FCS.

  9. Anti-neutrophil cytoplasm autoantibodies (ANCA) in autoimmune liver diseases

    NARCIS (Netherlands)

    Roozendaal, C.; Kallenberg, Cees

    1999-01-01

    Anti-neutrophil cytoplasm antibodies (ANCA) are autoantibodies directed against cytoplasmic constituents of neutrophil granulocytes and monocytes. ANCA have been detected in serum from patients with inflammatory bowel diseases (mainly ulcerative colitis) and autoimmune mediated liver diseases (mainl

  10. Antineutrophil cytoplasmic autoantibody-associated small-vessel vasculitis

    NARCIS (Netherlands)

    Kallenberg, Cees G. M.

    2007-01-01

    Purpose of reviews This review focuses on recent advance in the diagnosis pathogenesis and treatment of antineutrophil cytoplasmic autoantibody-associated small-vessel vasculitis. Recent findings Antineutrophil cytoplasmic autoantibodies are closely associated with Wegener's granulomatosis and micro

  11. Cytoplasmic inositol hexakisphosphate production is sufficient for mediating the Gle1-mRNA export pathway.

    Science.gov (United States)

    Miller, Aimee L; Suntharalingam, Mythili; Johnson, Sylvia L; Audhya, Anjon; Emr, Scott D; Wente, Susan R

    2004-12-03

    Production of inositol hexakisphosphate (IP6) by Ipk1, the inositol-1,3,4,5,6-pentakisphosphate 2-kinase, is required for Gle1-mediated mRNA export in Saccharomyces cerevisiae cells. To examine the network of interactions that require IP6 production, an analysis of fitness defects was conducted in mutants harboring both an ipk1 null allele and a mutant allele in genes encoding nucleoporins or transport factors. Enhanced lethality was observed with a specific subset of mutants, including nup42, nup116, nup159, dbp5, and gle2, all of which had been previously connected to Gle1 function. Complementation of the nup116Deltaipk1Delta and nup42Deltaipk1Delta double mutants did not require the Phe-Gly repeat domains in the respective nucleoporins, suggesting that IP6 was acting subsequent to heterogeneous nuclear ribonucleoprotein targeting to the nuclear pore complex. With Nup42 and Nup159 localized exclusively to the nuclear pore complex cytoplasmic side, we speculated that IP6 may regulate a cytoplasmic step in mRNA export. To test this prediction, the spatial requirements for the production of IP6 were investigated. Restriction of Ipk1 to the cytoplasm did not block IP6 production. Moreover, coincident sequestering of both Ipk1 and Mss4 (an enzyme required for phosphatidylinositol 4,5-bisphosphate production) to the cytoplasm also did not block IP6 production. Given that the kinase required for inositol 1,3,4,5,6-pentakisphosphate production (Ipk2) is localized in the nucleus, these results indicated that soluble inositides were diffusing between the nucleus and the cytoplasm. Additionally, the cytoplasmic production of IP6 by plasma membrane-anchored Ipk1 rescued a gle1-2 ipk1-4 synthetic lethal mutant. Thus, cytoplasmic IP6 production is sufficient for mediating the Gle1-mRNA export pathway.

  12. The Cytoplasmic Permeation Pathway of Neurotransmitter Transporters†

    OpenAIRE

    Rudnick, Gary

    2011-01-01

    Ion-coupled solute transporters are responsible for transporting nutrients, ions and signaling molecules across a variety of biological membranes. Recent high-resolution crystal structures of several transporters from protein families that were previously thought to be unrelated show common structural features indicating a large structural family representing transporters from all kingdoms of life. This review describes studies that led to an understanding of the conformational changes requir...

  13. 库存-运输系统整合优化Excel模型求解%The Excel Model of Inventory/Transportation Integrated Optimization

    Institute of Scientific and Technical Information of China (English)

    于文玲; 莫云萍

    2011-01-01

    The paper puts forward an inventory/transport integrated optimization model using software Excel Solver, the calculated logistics cost of which is much less than that of the traditional inventory/ transportation model. The software Excel Solver is to shown to be of quite impressive capability in solving inventory and transportation planning problems.%提出了库存-运输整合优化模型,将库存与运输问题看作一个系统整体考虑,比传统的将库存、运输单独考虑的物流成本要少的多.通过Excel模型的建立与求解,展现了Excel软件在规划求解方面的不可忽视的作用.

  14. Logistics and Transportation Cost Control and Optimization Analysis%物流企业运输成本优化控制分析

    Institute of Scientific and Technical Information of China (English)

    刘立霞

    2014-01-01

    由于现代交通运输的迅速发展,物流运输成为了物流中不可或缺的环节。在物流总成本中,物流运输成本占了很大比例,因此对物流运输成本进行优化控制具有实际意义。文中主要探讨关于物流企业的运输成本优化控制问题,并提出相关措施。%With the rapid development of modern transportation,logistics and transport has become an integral part of the logistics.In the total cost of logistics,logistics and transport costs account for a large proportion,so it has practical meaning to optimize the control of logistics cost.This paper mainly discusses the transportation cost optimization control problems of logistics enterprises,and put forward relevant measures.

  15. A computational model for the optimization of transport phenomena in a rotating hollow-fiber bioreactor for artificial liver.

    Science.gov (United States)

    Consolo, Filippo; Fiore, Gianfranco B; Truscello, Silvia; Caronna, Marco; Morbiducci, Umberto; Montevecchi, Franco M; Redaelli, Alberto

    2009-03-01

    A comprehensive computational study modelling the operation of a rotating hollow-fiber bioreactor for artificial liver (BAL) was performed to explore the interactions between the oxygenated culture medium and the cultured hepatocytes. Computational fluid dynamics investigations were carried out using two-dimensional (2D) and 3D time-dependent numerical simulations, integrating calculations of diffusion, convection, and multiphase fluid dynamics. The analysis was aimed at determining the rotational speed value of the chamber to ensure homogenous distribution of the floating microcarrier-attached aggregated cells (microCAACs) and avoid their sedimentation and excessive packing, analyzing oxygen (O(2)) delivery and cellular O(2) consumption as an index of cellular metabolic activity, and analyzing the fluid-induced mechanical stress experienced by cells. According to our results, homogeneous distribution of cells is reached at a rotational speed of 30 rpm; spreading of cellular concentration at around the initial value of 12% was limited (median = 11.97%, 5th percentile = 10.94%, 95th percentile = 13.2%), resulting in uniform suspension of microCAACs, which did not appear to be excessively packed. Mixing within the rotating fluid caused a maximum fluid-induced stress value of 0.05 Pa, which was neither endangering for liver-specific functions of cultured cells, nor causing disruption of the floating aggregates. Moreover, an inlet medium flow rate of 200 mL/m with a partial pressure of oxygen (pO(2)) value of 160 mmHg was found to guarantee an adequate O(2) supply for the hepatocytes (2.7 x 10(8) hepatocytes are simulated); under such conditions, the minimum pO(2) value (23 mmHg) is above the critical threshold value, causing the onset of cellular hypoxia (10 mmHg). We proved that numerical simulation of transport phenomena is a valuable tool for the computer-aided design of BALs, helping overcome the unsolved issues in optimizing the cell-environment conditioning

  16. Long-term optimization of the transport sector to address greenhouse gas reduction targets under rapid growth. Application of an energy system model for Gauteng province, South Africa

    Energy Technology Data Exchange (ETDEWEB)

    Tomaschek, Jan

    2013-12-11

    The transport sector is seen as one of the key factors for driving future energy consumption and greenhouse gas (GHG) emissions. Especially in developing countries, significant growth in transport demand is expected. Gauteng province, as the economic centre of South Africa and transport hub for the whole of southern Africa, is one emerging urban region that faces rapid growth. However, the province is on its way to playing a leading role for supporting ways to adapt to climate change and mitigate GHG emissions. Conversely, there is a lack of scientific research on the promising measures for GHG mitigation in the transport sector. For the rapidly growing transport sector of the province in particular, research is focused primarily on extending and structuring the road infrastructure. Moreover, it is important that the transport sector is considered as part of the whole energy system, as significant contributions to GHG emissions and the associated costs arise from energy supply, provision and conversion. This research is the first application of an integrated energy system model (i.e. the TIMES-GEECO model) for the optimization of the transport sector of Gauteng. Optimizing energy system models allows finding least-cost measures for various scenarios, by considering dependencies and interlinkages in the energy system as well as environmental constraints. To do so, the transport sector and the energy supply sector had to be incorporated into the model application in terms of the characteristics of a developing urban region, which includes all relevant transport modes, vehicle technologies, fuel options, vehicle-to-grid energy storage, the consideration of road types as well as explicit expansions of the public transport system and income-dependent travel demand modelling. Additionally, GHG mitigation options outside the provincial boundaries were incorporated to allow for mitigation at least cost and to consider regional resource availability. Moreover, in TIMES

  17. Antineutrophil cytoplasmic autoantibodies in ulcerative colitis

    Directory of Open Access Journals (Sweden)

    Vodjgani M

    2000-10-01

    Full Text Available Antineutrophil cytoplasmic autoanibodies (ANCA were detecte in patients with certain autoimmune vascular disease such as Wegner’s granulomatosis, polyarthrits nodosa and systemic luuc erythematous. Indirect immunofluorescence (IIF technique was employed to detec these autoantibodies.ANCA have been recently detected in some forms of inflammatory bowel disease (IBD, ulcerative colitis (U.C. Crohn’s disease (C.D and primary sclerosing cholangitis (PSC. By IIF method, two general patterns of ANCA were seen: a cytoplasmic (C-ANCA and perinuclear form (P-ANCA. In this study we evaluated the presece of ANCA in 52 U.C. patients and 69 matched normal control group by IIF technique, and it’s relationship with disease activity. Site of colon involvement and, lesion extent. The results showed that all control group were ANCA negative, but 58% of patients had ANCA, and most cases (70% had C- ANCA. The obtained results also revealed that there was no relationship between ANCA and disease activity

  18. 基于SPFA的整车物流运输线路及运输方式的优化及求解%The Optimization and Solving of Vehicle Logistics Transport Routes and the Mode of Transportation Based on SPFA

    Institute of Scientific and Technical Information of China (English)

    吴小珍; 李表奎; 董紫嫣; 李博星; 詹俊

    2014-01-01

    Transportation cost is very important to the role of logistics enterprises,it is always the focus of attention by logistics enterprises to solve the problem of vehicle transportation route optimization with computer aided technology. In this thesis,based on the existing transport network of Anji vehicle logistics for the study,we have to aim at the lowest cost of transportation and establish the optimization model,then using SPFA algorithm to solve the problem of transport route choice. We hope that this thesis makes some useful exploration in reducing logistics cost.%运输成本对物流企业的作用至关重要,而运用计算机辅助技术来解决整车运输线路优化的问题也一直是物流企业关注的重点。文中以安吉整车物流现有的运输网络为研究对象,以运输成本最低为目标,建立运输线路及运输方式的优化模型,并运用改进后的SPFA算法编程进行求解,从而解决运输线路及运输方式的选择问题。希望通过研究在降低物流运输成本方面做出一些有益的探索。

  19. Regulation of Cytoplasmic Dynein ATPase by Lis1

    Science.gov (United States)

    Mesngon, Mariano T.; Tarricone, Cataldo; Hebbar, Sachin; Guillotte, Aimee M.; Schmitt, E. William; Lanier, Lorene; Musacchio, Andrea; King, Stephen J.; Smith, Deanna S.

    2015-01-01

    Mutations in Lis1 cause classical lissencephaly, a developmental brain abnormality characterized by defects in neuronal positioning. Over the last decade, a clear link has been forged between Lis1 and the microtubule motor cytoplasmic dynein. Substantial evidence indicates that Lis1 functions in a highly conserved pathway with dynein to regulate neuronal migration and other motile events. Yeast two-hybrid studies predict that Lis1 binds directly to dynein heavy chains (Sasaki et al., 2000; Tai et al., 2002), but the mechanistic significance of this interaction is not well understood. We now report that recombinant Lis1 binds to native brain dynein and significantly increases the microtubule-stimulated enzymatic activity of dynein in vitro. Lis1 does this without increasing the proportion of dynein that binds to microtubules, indicating that Lis1 influences enzymatic activity rather than microtubule association. Dynein stimulation in vitro is not a generic feature of microtubule-associated proteins, because tau did not stimulate dynein. To our knowledge, this is the first indication that Lis1 or any other factor directly modulates the enzymatic activity of cytoplasmic dynein. Lis1 must be able to homodimerize to stimulate dynein, because a C-terminal fragment (containing the dynein interaction site but missing the self-association domain) was unable to stimulate dynein. Binding and colocalization studies indicate that Lis1 does not interact with all dynein complexes found in the brain. We propose a model in which Lis1 stimulates the activity of a subset of motors, which could be particularly important during neuronal migration and long-distance axonal transport. PMID:16481446

  20. Economical Logistics Transportation planning Case

    Institute of Scientific and Technical Information of China (English)

    王蓉

    2014-01-01

    Transportation is one of the most important nodes of supply chain. Economical transportation planning enables enterprises to reduce cost and perhaps optimize supply chain. This report clarifies the optimization of the transport node with a door-door project.

  1. Atypical, cytoplasmic and perinuclear anti-neutrophil cytoplasmic antibodies in patients with inflammatory bowel disease.

    Science.gov (United States)

    Frenzer, A; Fierz, W; Rundler, E; Hammer, B; Binek, J

    1998-09-01

    Atypical, cytoplasmic and perinuclear anti-neutrophil cytoplasmic antibodies (x-, c- and pANCA, respectively) are associated with a variety of inflammatory diseases, including inflammatory bowel disease (IBD). Anti-neutrophil cytoplasmic antibodies are more common in patients with ulcerative colitis (UC) than in patients with Crohn's disease (CD). Most publications only refer to p- and cANCA in relation to IBD. We have prospectively evaluated the reactivity of sera from 58 patients with IBD and 10 healthy controls against human neutrophils with emphasis on the distinction of the ANCA types. The sera were incubated with ethanol- and formaldehyde-fixed granulocytes to differentiate between c-, p- and xANCA. The results showed that 10 of 24 patients with UC were positive for ANCA, whereas only one of 34 patients with CD was ANCA positive. These results correspond to a sensitivity of 42%, a specificity of 97%, a negative predictive value of 91% and a positive predictive value of 75% in UC. Of the 11 ANCA-positive sera, two showed a cytoplasmic staining pattern, three showed a perinuclear and six an atypical staining pattern. The disease activity was not correlated to either the ANCA titre or to the presence of ANCA in the serum. In conclusion, ANCA are of limited value in differentiating between UC and CD. Because the majority of ANCA in patients with IBD are xANCA, these ANCA should be explored by not only incubating on ethanol-fixed granulocytes, but also on formaldehyde-fixed granulocytes.

  2. Optimizing Airspace System Capacity Through a Small Aircraft Transportation System: An Analysis of Economic and Operational Considerations

    Science.gov (United States)

    Tarry, Scott E.; Bowen, Brent D.

    2001-01-01

    America's air transport system is currently faced with two equally important dilemmas. First, congestion and delays associated with the overburdened hub and spoke system will continue to worsen unless dramatic changes are made in the way air transportation services are provided. Second, many communities and various regions of the country have not benefited from the air transport system, which tends to focus its attention on major population centers. An emerging solution to both problems is a Small Aircraft Transportation System (SATS), which will utilize a new generation of advanced small aircraft to provide air transport services to those citizens who are poorly served by the hub and spoke system and those citizens who are not served at all. Using new innovations in navigation, communication, and propulsion technologies, these aircraft will enable users to safely and reliably access the over 5,000 general aviation landing facilities around the United States. A small aircraft transportation system holds the potential to revolutionize the way Americans travel and to greatly enhance the use of air transport as an economic development tool in rural and isolated communities across the nation.

  3. Automatically stable discontinuous Petrov-Galerkin methods for stationary transport problems: Quasi-optimal test space norm

    KAUST Repository

    Niemi, Antti H.

    2013-12-01

    We investigate the application of the discontinuous Petrov-Galerkin (DPG) finite element framework to stationary convection-diffusion problems. In particular, we demonstrate how the quasi-optimal test space norm improves the robustness of the DPG method with respect to vanishing diffusion. We numerically compare coarse-mesh accuracy of the approximation when using the quasi-optimal norm, the standard norm, and the weighted norm. Our results show that the quasi-optimal norm leads to more accurate results on three benchmark problems in two spatial dimensions. We address the problems associated to the resolution of the optimal test functions with respect to the quasi-optimal norm by studying their convergence numerically. In order to facilitate understanding of the method, we also include a detailed explanation of the methodology from the algorithmic point of view. © 2013 Elsevier Ltd. All rights reserved.

  4. Modelado del Transporte de Distribución Mediante Programación Lineal Entera An Optimization Model of Distribution Transport using Integer Linear Programming

    Directory of Open Access Journals (Sweden)

    L. Ferrer

    2004-01-01

    Full Text Available En este artículo se presenta un modelo de transporte de distribución usando programación lineal. El proceso global de distribución se considera dividido en sucesivos niveles entre la empresa y sus clientes. En cada nivel se distinguen unidades de origen-destino, entre un origen y varios destinos, con transporte directo y con ventanas en las fechas de entrega de los pedidos a transportar. La programación de la distribución se realiza en cada unidad, mediante programación lineal entera, considerando en la formulación flota limitada de vehículos y flota ilimitada. La programación global se obtiene como superposición de las programaciones de todas las unidades origen-destino. Para validar el modelo se han utilizado los datos proporcionados por una empresa del sector textil que cumple las características requeridas. Se concluye que el modelo presentado, resulta ser adecuado para modelar las empresas caracterizadas y ha permitido diseñar e implementar un procedimiento exacto para la programación de la distribución del producto de la empresaThis article presents a model of distribution transport using linear programming. The overall distribution process is considered to be divided into successive levels between the company and its clients. Origin-destination units are distinguished at each level between an origin and various destinations, with direct transport and with windows in the delivery dates of the orders to be transported. The distribution programming is carried out in each unit through integer linear programming considering in the formulation both limited and unlimited fleets of vehicles. The overall programming is obtained as a superposition of the programming of all the origin-destination units. Validation of the model was carried out using data obtained from a textile company having the required characteristics. It is concluded that the model presented is useful in modeling the companies described, and has permitted the

  5. Increased cytoplasmic TDP-43 reduces global protein synthesis by interacting with RACK1 on polyribosomes.

    Science.gov (United States)

    Russo, Arianna; Scardigli, Raffaella; La Regina, Federico; Murray, Melissa E; Romano, Nicla; Dickson, Dennis W; Wolozin, Benjamin; Cattaneo, Antonino; Ceci, Marcello

    2017-04-15

    TDP-43 is a well known RNA binding protein involved in the pathogenesis of Amyotrophic Lateral Sclerosis (ALS) and Frontotemporal Lobar Dementia (FTLD). In physiological conditions, TDP-43 mainly localizes in the nucleus and shuttles, at least in neurons, to the cytoplasm to form TDP-43 RNA granules. In the nucleus, TDP-43 participates to the expression and splicing of RNAs, while in the cytoplasm its functions range from transport to translation of specific mRNAs. However, if loss or gain of these TDP-43 functions are affected in ALS/FTLD pathogenesis is not clear. Here, we report that TDP-43 localizes on ribosomes not only in primary neurons but also in SH-SY5Y human neuroblastoma cells. We find that binding of TDP-43 to the translational machinery is mediated by an interaction with a specific ribosomal protein, RACK1, and that an increase in cytoplasmic TDP-43 represses global protein synthesis, an effect which is rescued by overexpression of RACK1. Ribosomal loss of RACK1, which excludes TDP-43 from the translational machinery, remarkably reduces formation of TDP-43 cytoplasmic inclusions in neuroblastoma cells. Finally, we corroborate the interaction between TDP-43 and RACK1 on polyribosomes of neuroblastoma cells with mis-localization of RACK1 on TDP-43 positive cytoplasmic inclusions in motor neurons of ALS patients. In conclusions, results from this study suggest that TDP-43 represents a translational repressor not only for specific mRNAs but for overall translation and that its binding to polyribosomes through RACK1 may promote, under conditions inducing ALS pathogenesis, the formation of cytoplasmic inclusions. © The Author 2017. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

  6. A Mechanism for Cytoplasmic Streaming: Kinesin-Driven Alignment of Microtubules and Fast Fluid Flows.

    Science.gov (United States)

    Monteith, Corey E; Brunner, Matthew E; Djagaeva, Inna; Bielecki, Anthony M; Deutsch, Joshua M; Saxton, William M

    2016-05-10

    The transport of cytoplasmic components can be profoundly affected by hydrodynamics. Cytoplasmic streaming in Drosophila oocytes offers a striking example. Forces on fluid from kinesin-1 are initially directed by a disordered meshwork of microtubules, generating minor slow cytoplasmic flows. Subsequently, to mix incoming nurse cell cytoplasm with ooplasm, a subcortical layer of microtubules forms parallel arrays that support long-range, fast flows. To analyze the streaming mechanism, we combined observations of microtubule and organelle motions with detailed mathematical modeling. In the fast state, microtubules tethered to the cortex form a thin subcortical layer and undergo correlated sinusoidal bending. Organelles moving in flows along the arrays show velocities that are slow near the cortex and fast on the inward side of the subcortical microtubule layer. Starting with fundamental physical principles suggested by qualitative hypotheses, and with published values for microtubule stiffness, kinesin velocity, and cytoplasmic viscosity, we developed a quantitative coupled hydrodynamic model for streaming. The fully detailed mathematical model and its simulations identify key variables that can shift the system between disordered (slow) and ordered (fast) states. Measurements of array curvature, wave period, and the effects of diminished kinesin velocity on flow rates, as well as prior observations on f-actin perturbation, support the model. This establishes a concrete mechanistic framework for the ooplasmic streaming process. The self-organizing fast phase is a result of viscous drag on kinesin-driven cargoes that mediates equal and opposite forces on cytoplasmic fluid and on microtubules whose minus ends are tethered to the cortex. Fluid moves toward plus ends and microtubules are forced backward toward their minus ends, resulting in buckling. Under certain conditions, the buckling microtubules self-organize into parallel bending arrays, guiding varying directions

  7. An Optimization Design of Comprehensive Passenger Transport Hubs Linking Bus Lines%综合客运枢纽接运公交线路优化设计

    Institute of Scientific and Technical Information of China (English)

    王佳; 符卓

    2012-01-01

    The intrinsic value and role are analyzed on the optimization design of comprehensive passenger transport hub linking bus lines. An optimization model with two aims -- maximum transportation efficiency and minimum bus lines -- is established and converted to an open vehicle routing problem with pickup and delivery for solution. The tabu search algorithm for solution is given in this paper and a case is studied to verify algorithm. It is proved that the algorithm performs a good optimization-searching function.%分析了综合客运枢纽接运公交线路优化设计问题的内涵及作用,构建了以运输效率最大和布设线路最小为双目标的优化模型,并将它转化为一类特殊的取送一体化的开放式车辆路径问题进行求解,给出了求解的禁忌搜索算法。最后通过案例进行了验证,证实了该算法具有良好的寻优性能。

  8. Model for bidirectional movement of cytoplasmic dynein

    CERN Document Server

    Sumathy, S

    2014-01-01

    Cytoplasmic dynein exhibits a directional processive movement on microtubule filaments and is known to move in steps of varying length based on the number of ATP molecules bound to it and the load that it carries. It is experimentally observed that dynein takes occasional backward steps and the frequency of such backward steps increases as the load approaches the stall force. Using a stochastic process model, we investigate the bidirectional movement of single head of a dynein motor. The probability for backward step is implemented based on Crook's fluctuation theorem of non-equilibrium statistical mechanics. We find that the movement of dynein motor is characterized with negative velocity implying backward motion beyond stall force. We observe that the motor moves backward for super stall forces by hydrolyzing the ATP exactly the same way as it does while moving forward for sub stall forces.

  9. Cytoplasmic tail domain of glycoprotein B is essential for HHV-6 infection

    Energy Technology Data Exchange (ETDEWEB)

    Mahmoud, Nora F. [Division of Clinical Virology, Center for Infectious Diseases, Kobe University Graduate School of Medicine, Kobe (Japan); Faculty of Pharmacy, Suez Canal University, Ismailia (Egypt); Jasirwan, Chyntia [Division of Clinical Virology, Center for Infectious Diseases, Kobe University Graduate School of Medicine, Kobe (Japan); Division of Hepatobiliary, Department of Internal Medicine, Faculty of Medicine, University of Indonesia (Indonesia); Kanemoto, Satoshi; Wakata, Aika; Wang, Bochao; Hata, Yuuki [Division of Clinical Virology, Center for Infectious Diseases, Kobe University Graduate School of Medicine, Kobe (Japan); Nagamata, Satoshi [Division of Clinical Virology, Center for Infectious Diseases, Kobe University Graduate School of Medicine, Kobe (Japan); Department of Obstetrics and Gynecology, Kobe University Graduate School of Medicine, Kobe (Japan); Kawabata, Akiko [Division of Clinical Virology, Center for Infectious Diseases, Kobe University Graduate School of Medicine, Kobe (Japan); Tang, Huamin [Division of Clinical Virology, Center for Infectious Diseases, Kobe University Graduate School of Medicine, Kobe (Japan); Department of Immunology, Nanjing Medical University, Nanjing (China); Mori, Yasuko, E-mail: ymori@med.kobe-u.ac.jp [Division of Clinical Virology, Center for Infectious Diseases, Kobe University Graduate School of Medicine, Kobe (Japan)

    2016-03-15

    Human herpesvirus 6 (HHV-6) glycoprotein B (gB) is an abundantly expressed viral glycoprotein required for viral entry and cell fusion, and is highly conserved among herpesviruses. The present study examined the function of HHV-6 gB cytoplasmic tail domain (CTD). A gB CTD deletion mutant was constructed which, in contrast to its revertant, could not be reconstituted. Moreover, deletion of gB cytoplasmic tail impaired the intracellular transport of gB protein to the trans-Golgi network (TGN). Taken together, these results suggest that gB CTD is critical for HHV-6 propagation and important for intracellular transportation. - Highlights: • Glycoprotein B (gB) is highly conserved among herpesviruses. • HHV-6 gB is also abundantly expressed in virions. • In the present study, we showed the function of HHV-6 gB cytoplasmic tail domain (CTD). • We found that deletion of gB CTD impairs the intracellular transport of gB protein to the trans-Golgi network (TGN), and CTD of gB is critical for HHV-6 propagation.

  10. Myosin-Powered Membrane Compartment Drives Cytoplasmic Streaming, Cell Expansion and Plant Development.

    Directory of Open Access Journals (Sweden)

    Valera V Peremyslov

    Full Text Available Using genetic approaches, particle image velocimetry and an inert tracer of cytoplasmic streaming, we have made a mechanistic connection between the motor proteins (myosins XI, cargo transported by these motors (distinct endomembrane compartment defined by membrane-anchored MyoB receptors and the process of cytoplasmic streaming in plant cells. It is shown that the MyoB compartment in Nicotiana benthamiana is highly dynamic moving with the mean velocity of ~3 μm/sec. In contrast, Golgi, mitochondria, peroxisomes, carrier vesicles and a cytosol flow tracer share distinct velocity profile with mean velocities of 0.6-1.5 μm/sec. Dominant negative inhibition of the myosins XI or MyoB receptors using overexpression of the N. benthamiana myosin cargo-binding domain or MyoB myosin-binding domain, respectively, resulted in velocity reduction for not only the MyoB compartment, but also each of the tested organelles, vesicles and cytoplasmic streaming. Furthermore, the extents of this reduction were similar for each of these compartments suggesting that MyoB compartment plays primary role in cytosol dynamics. Using gene knockout analysis in Arabidopsis thaliana, it is demonstrated that inactivation of MyoB1-4 results in reduced velocity of mitochondria implying slower cytoplasmic streaming. It is also shown that myosins XI and MyoB receptors genetically interact to contribute to cell expansion, plant growth, morphogenesis and proper onset of flowering. These results support a model according to which myosin-dependent, MyoB receptor-mediated transport of a specialized membrane compartment that is conserved in all land plants drives cytoplasmic streaming that carries organelles and vesicles and facilitates cell growth and plant development.

  11. Myosin-Powered Membrane Compartment Drives Cytoplasmic Streaming, Cell Expansion and Plant Development.

    Science.gov (United States)

    Peremyslov, Valera V; Cole, Rex A; Fowler, John E; Dolja, Valerian V

    2015-01-01

    Using genetic approaches, particle image velocimetry and an inert tracer of cytoplasmic streaming, we have made a mechanistic connection between the motor proteins (myosins XI), cargo transported by these motors (distinct endomembrane compartment defined by membrane-anchored MyoB receptors) and the process of cytoplasmic streaming in plant cells. It is shown that the MyoB compartment in Nicotiana benthamiana is highly dynamic moving with the mean velocity of ~3 μm/sec. In contrast, Golgi, mitochondria, peroxisomes, carrier vesicles and a cytosol flow tracer share distinct velocity profile with mean velocities of 0.6-1.5 μm/sec. Dominant negative inhibition of the myosins XI or MyoB receptors using overexpression of the N. benthamiana myosin cargo-binding domain or MyoB myosin-binding domain, respectively, resulted in velocity reduction for not only the MyoB compartment, but also each of the tested organelles, vesicles and cytoplasmic streaming. Furthermore, the extents of this reduction were similar for each of these compartments suggesting that MyoB compartment plays primary role in cytosol dynamics. Using gene knockout analysis in Arabidopsis thaliana, it is demonstrated that inactivation of MyoB1-4 results in reduced velocity of mitochondria implying slower cytoplasmic streaming. It is also shown that myosins XI and MyoB receptors genetically interact to contribute to cell expansion, plant growth, morphogenesis and proper onset of flowering. These results support a model according to which myosin-dependent, MyoB receptor-mediated transport of a specialized membrane compartment that is conserved in all land plants drives cytoplasmic streaming that carries organelles and vesicles and facilitates cell growth and plant development.

  12. Inborn errors of cytoplasmic triglyceride metabolism.

    Science.gov (United States)

    Wu, Jiang Wei; Yang, Hao; Wang, Shu Pei; Soni, Krishnakant G; Brunel-Guitton, Catherine; Mitchell, Grant A

    2015-01-01

    Triglyceride (TG) synthesis, storage, and degradation together constitute cytoplasmic TG metabolism (CTGM). CTGM is mostly studied in adipocytes, where starting from glycerol-3-phosphate and fatty acyl (FA)-coenzyme A (CoA), TGs are synthesized then stored in cytoplasmic lipid droplets. TG hydrolysis proceeds sequentially, producing FAs and glycerol. Several reactions of CTGM can be catalyzed by more than one enzyme, creating great potential for complex tissue-specific physiology. In adipose tissue, CTGM provides FA as a systemic energy source during fasting and is related to obesity. Inborn errors and mouse models have demonstrated the importance of CTGM for non-adipose tissues, including skeletal muscle, myocardium and liver, because steatosis and dysfunction can occur. We discuss known inborn errors of CTGM, including deficiencies of: AGPAT2 (a form of generalized lipodystrophy), LPIN1 (childhood rhabdomyolysis), LPIN2 (an inflammatory condition, Majeed syndrome, described elsewhere in this issue), DGAT1 (protein loosing enteropathy), perilipin 1 (partial lipodystrophy), CGI-58 (gene ABHD5, neutral lipid storage disease (NLSD) with ichthyosis and "Jordan's anomaly" of vacuolated polymorphonuclear leukocytes), adipose triglyceride lipase (ATGL, gene PNPLA2, NLSD with myopathy, cardiomyopathy and Jordan's anomaly), hormone-sensitive lipase (HSL, gene LIPE, hypertriglyceridemia, and insulin resistance). Two inborn errors of glycerol metabolism are known: glycerol kinase (GK, causing pseudohypertriglyceridemia) and glycerol-3-phosphate dehydrogenase (GPD1, childhood hepatic steatosis). Mouse models often resemble human phenotypes but may diverge markedly. Inborn errors have been described for less than one-third of CTGM enzymes, and new phenotypes may yet be identified.

  13. The epididymis, cytoplasmic droplets and male fertility

    Institute of Scientific and Technical Information of China (English)

    Trevor G Cooper

    2011-01-01

    The potential of spermatozoa to become motile during post-testicular maturation,and the relationship between the cytoplasmic droplet and fertilizing capacity are reviewed.Post-testicular maturation of spermatozoa involves the autonomous induction of motility,which can occur in vivo in testes with occluded excurrent ducts and in vitro in testicular explants,and artefactual changes in morphology that appear to occur in the testis in vitro.Both modifications may reflect time-dependent oxidation of disulphide bonds of head and tail proteins.Regulatory volume decrease(RVD),which counters sperm swelling at ejaculation,is discussed in relation to loss of cytoplasmic droplets and consequences for fertility.It is postulated that:(i)fertile males possess spermatozoa with sufficient osmolytes to drive RVD at ejaculation,permitting the droplet to round up and pinch off without membrane rupture; and(ⅱ)infertile males possess spermatozoa with insufficient osmolytes so that RVD is inadequate,the droplet swells and the resulting flagellar angulation prevents droplet loss.Droplet retention at ejaculation is a harbinger of infertility caused by failure of the spermatozoon to negotiate the uterotubal junction or mucous and reach the egg.In this hypothesis,the epididymis regulates fertility indirectly by the extent of osmolyte provision to spermatozoa,which influences RVD and therefore droplet loss.Man is an exception,because ejaculated human spermatozoa retain their droplets.This may reflect their short midpiece,approximating head length,permitting a swollen droplet to extend along the entire midpiece; this not only obviates droplet migration and flagellar angulation but also hampers droplet loss.

  14. A TSP-Based Military Transportations Optimization Model and Its Solution%基于TSP的军交VRP优化模型及其求解

    Institute of Scientific and Technical Information of China (English)

    张锦; 宋业新; 李芳; 陈新响

    2011-01-01

    通过引入虚拟配送中心的概念,将军交VRP转化为约束性TSP,然后构建了结构完备且能较好适应LINGO9.0编程规则的优化模型;最后以典型案例为对象进行仿真分析,验证了模型的正确性和求解实现的可行性和高效性.%With the introducing of conceptual virtual distribution center, which transforms the traditional military transportations VRP to a restricting TSP, an optimization model of military transportations VRP is established in accordance with the programming rules of LINGO. In the end, to verify the accuracy of the model, the feasibility and high effectiveness of its solving, a simulation case analysis is provided.

  15. The molecular mechanism and physiological role of cytoplasmic streaming.

    Science.gov (United States)

    Tominaga, Motoki; Ito, Kohji

    2015-10-01

    Cytoplasmic streaming occurs widely in plants ranging from algae to angiosperms. However, the molecular mechanism and physiological role of cytoplasmic streaming have long remained unelucidated. Recent molecular genetic approaches have identified specific myosin members (XI-2 and XI-K as major and XI-1, XI-B, and XI-I as minor motive forces) for the generation of cytoplasmic streaming among 13 myosin XIs in Arabidopsis thaliana. Simultaneous knockout of these myosin XI members led to a reduced velocity of cytoplasmic streaming and marked defects of plant development. Furthermore, the artificial modifications of myosin XI-2 velocity changed plant and cell sizes along with the velocity of cytoplasmic streaming. Therefore, we assume that cytoplasmic streaming is one of the key regulators in determining plant size.

  16. Improving the design of higher-capacity railway tank cars for hazardous materials transport: optimizing the trade-off between weight and safety.

    Science.gov (United States)

    Barkan, Christopher P L

    2008-12-15

    As with many aspects of modern industrial society, decision-makers face trade-offs in considering hazardous materials transportation equipment and practices. Tank cars used for transport of hazardous materials can be made more resistant to damage in accidents through use of a thicker steel tank and other protective features. However, the additional weight of these features reduces the car's capacity and thus its efficiency as a transportation vehicle. In this paper the problem of tank car safety versus weight is developed as a multi-attribute decision problem. North American railroads recently developed specifications for higher capacity tank cars for transportation of hazardous materials including enhanced safety design features. A group of tank car safety design features or "risk reduction options" (RROs) were analyzed with regard to their effect on the conditional probability of release in an accident, and their incremental effect on tank car weight. All possible combinations of these RROs were then analyzed in terms of the reduced release probability per unit of weight increase and the Pareto optimal set of options identified. This set included the combinations of RROs that provided the greatest improvement in safety with the least amount of additional weight for any desired level of tank car weight increase. The analysis was conducted for both non-insulated and insulated tank cars and used two objective functions, minimization of conditional probability of release, and minimization of expected quantity lost, given that a car was derailed in an accident. Sensitivity analyses of the effect of tank car size and use of different objective functions were conducted and the optimality results were found to be robust. The results of this analysis were used by the Association of American Railroads Tank Car Committee to develop new specifications for higher capacity non-insulated and insulated, non-pressure tank cars resulting in an estimated 32% and 24% respective

  17. Optimizing Military Logistics Distribution Transport Support%优化军事物流配送运输保障

    Institute of Scientific and Technical Information of China (English)

    陈兵; 陈晨

    2012-01-01

    For the war under the condition of information, it not only is a contest in soldier and weapons, but also is the test of transport support capacity. Only transport support capacity is good, the troop has strong fighting capacity, and wins in the battle. Military logistics transportation is an important way to support army daily training and life, and is the key of war.%信息化条件下的战争,不仅是对人和武器最佳组合的较量,更是对运输保障能力的考验.运输保障跟得上,部队才能有战斗力,才能打得赢.军事物流配送运输是保障军队平时训练、生活等军事活动的重要方式,更是军队战时的大动脉.

  18. Optimization for Hazardous Material Road Transportation Based on Multi-objective Method%危险品的多目标运输路径优化研究

    Institute of Scientific and Technical Information of China (English)

    刘慧怡

    2013-01-01

    由于危险品运输的特殊性质,在危险品运输路径选择过程中,需要考虑更多的因素,因此提出基于多目标的路径优化模型,通过运输风险、危险平均后果及总后果全面考虑运输中的危险,并将风险、运距及费用目标抽象得到类似广义费用的综合表达形式,使得影响因素影响程度的确定具有更强的灵活性以及适用性;对于综合目标模型采用Dijkstra算法求解,该方法简便易算具有很强操作性,最后用算例验证了方法的科学可行性.%As for hazardous material road transportation,due to its special quality and susceptible to be affected by more factors,this paper propose a model based on multi-objective optimization.By weighting each objective to get a similar generalized cost expression,makes the function of influencing factors more flexibility and applicability; and by applying global optimization algorithm to optimize the path,this method is simple and easy to be calculated,which will provide a more operable model for the optimization problem of hazardous material road transportation.Finally,the feasibility of the method is proved by the given example.

  19. Experimental and Numerical Optimization of a High-Lift System to Improve Low-Speed Performance, Stability, and Control of an Arrow-Wing Supersonic Transport

    Science.gov (United States)

    Hahne, David E.; Glaab, Louis J.

    1999-01-01

    An investigation was performed to evaluate leading-and trailing-edge flap deflections for optimal aerodynamic performance of a High-Speed Civil Transport concept during takeoff and approach-to-landing conditions. The configuration used for this study was designed by the Douglas Aircraft Company during the 1970's. A 0.1-scale model of this configuration was tested in the Langley 30- by 60-Foot Tunnel with both the original leading-edge flap system and a new leading-edge flap system, which was designed with modem computational flow analysis and optimization tools. Leading-and trailing-edge flap deflections were generated for the original and modified leading-edge flap systems with the computational flow analysis and optimization tools. Although wind tunnel data indicated improvements in aerodynamic performance for the analytically derived flap deflections for both leading-edge flap systems, perturbations of the analytically derived leading-edge flap deflections yielded significant additional improvements in aerodynamic performance. In addition to the aerodynamic performance optimization testing, stability and control data were also obtained. An evaluation of the crosswind landing capability of the aircraft configuration revealed that insufficient lateral control existed as a result of high levels of lateral stability. Deflection of the leading-and trailing-edge flaps improved the crosswind landing capability of the vehicle considerably; however, additional improvements are required.

  20. Applying the genetic theories of ageing to the cytoplasm: cytoplasmic genetic covariation for fitness and lifespan.

    Science.gov (United States)

    Dowling, D K; Maklakov, A A; Friberg, U; Hailer, F

    2009-04-01

    Two genetic models exist to explain the evolution of ageing - mutation accumulation (MA) and antagonistic pleiotropy (AP). Under MA, a reduced intensity of selection with age results in accumulation of late-acting deleterious mutations. Under AP, late-acting deleterious mutations accumulate because they confer beneficial effects early in life. Recent studies suggest that the mitochondrial genome is a major player in ageing. It therefore seems plausible that the MA and AP models will be relevant to genomes within the cytoplasm. This possibility has not been considered previously. We explore whether patterns of covariation between fitness and ageing across 25 cytoplasmic lines, sampled from a population of Drosophila melanogaster, are consistent with the genetic associations predicted under MA or AP. We find negative covariation for fitness and the rate of ageing, and positive covariation for fitness and lifespan. Notably, the direction of these associations is opposite to that typically predicted under AP.

  1. The potential role of kinesin and dynein in Golgi scattering and cytoplasmic vacuole formation during acute experimental pancreatitis

    Institute of Scientific and Technical Information of China (English)

    Ina A Weber; Igor Buchwalow; Daniela Hahn; Wolfram Domschke; Markus M Lerch; Jürgen Schnekenburger

    2010-01-01

    @@ Dear Editor, Acute pancreatitis is initiated in pancreatic acinar cells and characterized by a profound disturbance in intracel-lular vesicle transport. Moreover, secretion of pancreatic zymogens is blocked, paralleled by the formation of cytoplasmic vacuoles with premature protease activation that precedes cellular necrosis and organ damage.

  2. Pressure Prediction of Coal Slurry Transportation Pipeline Based on Particle Swarm Optimization Kernel Function Extreme Learning Machine

    Directory of Open Access Journals (Sweden)

    Xue-cun Yang

    2015-01-01

    Full Text Available For coal slurry pipeline blockage prediction problem, through the analysis of actual scene, it is determined that the pressure prediction from each measuring point is the premise of pipeline blockage prediction. Kernel function of support vector machine is introduced into extreme learning machine, the parameters are optimized by particle swarm algorithm, and blockage prediction method based on particle swarm optimization kernel function extreme learning machine (PSOKELM is put forward. The actual test data from HuangLing coal gangue power plant are used for simulation experiments and compared with support vector machine prediction model optimized by particle swarm algorithm (PSOSVM and kernel function extreme learning machine prediction model (KELM. The results prove that mean square error (MSE for the prediction model based on PSOKELM is 0.0038 and the correlation coefficient is 0.9955, which is superior to prediction model based on PSOSVM in speed and accuracy and superior to KELM prediction model in accuracy.

  3. Effects of colchicine or demecolcine on cytoplasmic protrusions and assisted enucleation of golden hamster oocytes.

    Science.gov (United States)

    Wang, Lingyan; Jiang, Han; Su, Li; Tang, Bo; Li, Dexue; Li, Ziyi

    2009-12-01

    To establish experimental protocols for cloning golden hamsters, optimal concentrations of colchicine and demecolcine were determined for inducing cytoplasmic protrusion (containing chromosomes) and assisting enucleation of their oocytes. Denuded oocytes at different ages were treated with 2.5-10 microg/ml of colchicine for 1-4h or 0.02-0.6 microg/ml of demecolcine for 15-60 min. Cytoplasmic protrusions of oocytes were removed with a micromanipulation pipette. The results show that: 1) at 13.5-18h post-hCG injection, approximately 90% of oocytes treated for with 10 microg/ml of colchicine formed cytoplasmic protrusions, and in some oocytes enucleation occurred; 2) when treated with 0.4 microg/ml of demecolcine for 1h, cytoplasmic protrusions 13.5-18h post-hCG treatment were present in almost all oocytes; 3) after the protrusions induced by either treatment had been removed, the assisted enucleation rate was >80%, whereas it was approximately 32% with blind enucleation.

  4. Optimization of the Algerian crude and condensate network; Optimisation du reseau algerien de transport de brut et de condensat

    Energy Technology Data Exchange (ETDEWEB)

    Smati, A.; Zeraibi, N. [Universite de Boumerdes, Institut des hydrocarbures et de la Chimie, Dept. Energetique, Boumerdes (Algeria); Touabti, M.C. [Universite de Setif, Lab. de Genie du Gaz, Setif (Algeria)

    2000-07-01

    The diagnosis and the optimal extension of the Algerian crude and condensate network, as a result of the escalation of production rhythms, necessitate the development of systemic procedures of modeling. In this context, the batching is represented by a two-commodity network flow. The theory of graphs and the maximal flow problem, associated with a model of reliability, are then put to contribution. The global model can then be used as an experimentation stand where the impact of any decision or event is released by simulation. However, because of the nonlinearity of costs, the optimal extension of the network is submitted to the resolution of a nonlinear programming model. (authors)

  5. Microbial transport : Adaptations to natural environments

    NARCIS (Netherlands)

    Konings, Wil N.

    2006-01-01

    The cytoplasmic membrane of bacteria is the matrix for metabolic energy transducing processes such as proton motive force generation and solute transport. Passive permeation of protons across the cytoplasmic membrane is a crucial determinant in the proton motive generating capacity of the organisms.

  6. Regulation of autophagy by cytoplasmic p53.

    Science.gov (United States)

    Tasdemir, Ezgi; Maiuri, M Chiara; Galluzzi, Lorenzo; Vitale, Ilio; Djavaheri-Mergny, Mojgan; D'Amelio, Marcello; Criollo, Alfredo; Morselli, Eugenia; Zhu, Changlian; Harper, Francis; Nannmark, Ulf; Samara, Chrysanthi; Pinton, Paolo; Vicencio, José Miguel; Carnuccio, Rosa; Moll, Ute M; Madeo, Frank; Paterlini-Brechot, Patrizia; Rizzuto, Rosario; Szabadkai, Gyorgy; Pierron, Gérard; Blomgren, Klas; Tavernarakis, Nektarios; Codogno, Patrice; Cecconi, Francesco; Kroemer, Guido

    2008-06-01

    Multiple cellular stressors, including activation of the tumour suppressor p53, can stimulate autophagy. Here we show that deletion, depletion or inhibition of p53 can induce autophagy in human, mouse and nematode cells subjected to knockout, knockdown or pharmacological inhibition of p53. Enhanced autophagy improved the survival of p53-deficient cancer cells under conditions of hypoxia and nutrient depletion, allowing them to maintain high ATP levels. Inhibition of p53 led to autophagy in enucleated cells, and cytoplasmic, not nuclear, p53 was able to repress the enhanced autophagy of p53(-/-) cells. Many different inducers of autophagy (for example, starvation, rapamycin and toxins affecting the endoplasmic reticulum) stimulated proteasome-mediated degradation of p53 through a pathway relying on the E3 ubiquitin ligase HDM2. Inhibition of p53 degradation prevented the activation of autophagy in several cell lines, in response to several distinct stimuli. These results provide evidence of a key signalling pathway that links autophagy to the cancer-associated dysregulation of p53.

  7. Molecular analysis of cytoplasmic male sterility

    Energy Technology Data Exchange (ETDEWEB)

    Hanson, M.R.

    1990-01-01

    The ultimate aims of the project are to understand the molecular mechanism of the disruption in pollen development which occurs in cytoplasmic male sterile plants and to understand the control of respiratory energy flow in the higher plant cell. A mitochondrial locus termed S-pcf segregates with sterility and with an alteration in respiration in Petunia. This cloned locus contains three genes, an abnormal fused gene termed pcf, a gene for a subunit of an NADH dehydrogenase complex, and a small ribosomal subunit protein. The pcf gene is comprised of partial sequences of ATPase subunit 9, cytochrome oxidase subunit II, and an unidentified reading frame. Components of the S-Pcf locus will be introduced into the nuclear of a fertile genotype under the control of appropriate regulatory signals, and polypeptide products of introduced genes will be directed to the mitochondrion with a transit peptide. By examining transgenic plants, we can determine what elements of the locus are critical for altered respiration or sterility. Such knowledge could explain how mitochondrial DNA affects pollen development in the large number of plant species which exhibit the agronomically important trait of male sterility. 10 refs., 3 figs.

  8. Optimal Routing and Control of Multiple Agents Moving in a Transportation Network and Subject to an Arrival Schedule and Separation Constraints

    Science.gov (United States)

    Sadovsky, A. V.; Davis, D.; Isaacson, D. R.

    2012-01-01

    We address the problem of navigating a set of moving agents, e.g. automated guided vehicles, through a transportation network so as to bring each agent to its destination at a specified time. Each pair of agents is required to be separated by a minimal distance, generally agent-dependent, at all times. The speed range, initial position, required destination, and required time of arrival at destination for each agent are assumed provided. The movement of each agent is governed by a controlled differential equation (state equation). The problem consists in choosing for each agent a path and a control strategy so as to meet the constraints and reach the destination at the required time. This problem arises in various fields of transportation, including Air Traffic Management and train coordination, and in robotics. The main contribution of the paper is a model that allows to recast this problem as a decoupled collection of problems in classical optimal control and is easily generalized to the case when inertia cannot be neglected. Some qualitative insight into solution behavior is obtained using the Pontryagin Maximum Principle. Sample numerical solutions are computed using a numerical optimal control solver.

  9. In silico classification of proteins from acidic and neutral cytoplasms.

    Directory of Open Access Journals (Sweden)

    Yaping Fang

    Full Text Available Protein acidostability is a common problem in biopharmaceutical and other industries. However, it remains a great challenge to engineer proteins for enhanced acidostability because our knowledge of protein acidostabilization is still very limited. In this paper, we present a comparative study of proteins from bacteria with acidic (AP and neutral cytoplasms (NP using an integrated statistical and machine learning approach. We construct a set of 393 non-redundant AP-NP ortholog pairs and calculate a total of 889 sequence based features for these proteins. The pairwise alignments of these ortholog pairs are used to build a residue substitution propensity matrix between APs and NPs. We use Gini importance provided by the Random Forest algorithm to rank the relative importance of these features. A scoring function using the 10 most significant features is developed and optimized using a hill climbing algorithm. The accuracy of the score function is 86.01% in predicting AP-NP ortholog pairs and is 76.65% in predicting non-ortholog AP-NP pairs, suggesting that there are significant differences between APs and NPs which can be used to predict relative acidostability of proteins. The overall trends uncovered in the study can be used as general guidelines for designing acidostable proteins. To best of our knowledge, this work represents the first systematic comparative study of the acidostable proteins and their non-acidostable orthologs.

  10. Optimizing electronic structure and quantum transport at the graphene-Si(111) interface: an ab initio density-functional study.

    Science.gov (United States)

    Tayran, Ceren; Zhu, Zhen; Baldoni, Matteo; Selli, Daniele; Seifert, Gotthard; Tománek, David

    2013-04-26

    We use ab initio density-functional calculations to determine the interaction of a graphene monolayer with the Si(111) surface. We find that graphene forms strong bonds to the bare substrate and accommodates the 12% lattice mismatch by forming a wavy structure consisting of free-standing conductive ridges that are connected by ribbon-shaped regions of graphene, which bond covalently to the substrate. We perform quantum transport calculations for different geometries to study changes in the transport properties of graphene introduced by the wavy structure and bonding to the Si substrate. Our results suggest that wavy graphene combines high mobility along the ridges with efficient carrier injection into Si in the contact regions.

  11. Arabidopsis ABCB21 is a facultative auxin importer/exporter regulated by cytoplasmic auxin concentration.

    Science.gov (United States)

    Kamimoto, Yoshihisa; Terasaka, Kazuyoshi; Hamamoto, Masafumi; Takanashi, Kojiro; Fukuda, Shoju; Shitan, Nobukazu; Sugiyama, Akifumi; Suzuki, Hideyuki; Shibata, Daisuke; Wang, Bangjun; Pollmann, Stephan; Geisler, Markus; Yazaki, Kazufumi

    2012-12-01

    The phytohormone auxin is critical for plant growth and many developmental processes. Members of the P-glycoprotein (PGP/ABCB) subfamily of ATP-binding cassette (ABC) transporters have been shown to function in the polar movement of auxin by transporting auxin over the plasma membrane in both monocots and dicots. Here, we characterize a new Arabidopsis member of the ABCB subfamily, ABCB21/PGP21, a close homolog of ABCB4, for which conflicting transport directionalities have been reported. ABCB21 is strongly expressed in the abaxial side of cotyledons and in junctions of lateral organs in the aerial part, whereas in roots it is specifically expressed in pericycle cells. Membrane fractionation by sucrose density gradient centrifugation followed by Western blot showed that ABCB21 is a plasma membrane-localized ABC transporter. A transport assay with Arabidopsis protoplasts suggested that ABCB21 was involved in IAA transport in an outward direction, while naphthalene acetic acid (NAA) was a less preferable substrate for ABCB21. Further functional analysis of ABCB21 using yeast import and export assays showed that ABCB21 mediates the 1-N-naphthylphthalamic acid (NPA)-sensitive translocation of auxin in an inward direction when the cytoplasmic IAA concentration is low, whereas this transporter mediates outward transport under high internal IAA. An increase in the cytoplasmic IAA concentration by pre-loading of IAA into yeast cells abolished the IAA uptake activity by ABCB21 as well as ABCB4. These findings suggest that ABCB21 functions as a facultative importer/exporter controlling auxin concentrations in plant cells.

  12. Improving efficiency of organic light-emitting devices by optimizing the LiF interlayer in the hole transport layer

    Institute of Scientific and Technical Information of China (English)

    Jiauo Zhi-Qiang; Wu Xiao-Ming; Hua Yu-Lin; Dong Mu-Sen; Su Yue-Ju; Shen Li-Ying; Yin Shou-Gen

    2011-01-01

    The efficiency of organic light-emitting devices (OLEDs) based on N,N'-bis(1-naphthyl)-N,N'-diphenyl-N,l' biphenyl-4,4'-diamine (NPB) (the hole transport layer) and tris(8-hydroxyquinoline) aluminum (Alq3) (both emission and electron transport layers) is improved remarkably by inserting a LiF interlayer into the hole transport layer.This thin LiF interlayer can effectively influence electrical performance and significantly improve the current efficiency of the device.A device with an optimum LiF layer thickness at the optimum position in NPB exhibits a maximum current efficiency of 5.96 cd/A at 215.79 mA/cm2,which is about 86% higher than that of an ordinary device (without a LiF interlayer,3.2 cd/A).An explanation can be put forward that LiF in the NPB layer can block holes and balance the recombination of holes and electrons.The results may provide some valuable references for improving OLED current efficiency.

  13. Numerical Solution of the Electron Heat Transport Equation and Physics-Constrained Modeling of the Thermal Conductivity via Sequential Quadratic Programming Optimization in Nuclear Fusion Plasmas

    Science.gov (United States)

    Paloma, Cynthia S.

    The plasma electron temperature (Te) plays a critical role in a tokamak nu- clear fusion reactor since temperatures on the order of 108K are required to achieve fusion conditions. Many plasma properties in a tokamak nuclear fusion reactor are modeled by partial differential equations (PDE's) because they depend not only on time but also on space. In particular, the dynamics of the electron temperature is governed by a PDE referred to as the Electron Heat Transport Equation (EHTE). In this work, a numerical method is developed to solve the EHTE based on a custom finite-difference technique. The solution of the EHTE is compared to temperature profiles obtained by using TRANSP, a sophisticated plasma transport code, for specific discharges from the DIII-D tokamak, located at the DIII-D National Fusion Facility in San Diego, CA. The thermal conductivity (also called thermal diffusivity) of the electrons (Xe) is a plasma parameter that plays a critical role in the EHTE since it indicates how the electron temperature diffusion varies across the minor effective radius of the tokamak. TRANSP approximates Xe through a curve-fitting technique to match experimentally measured electron temperature profiles. While complex physics-based model have been proposed for Xe, there is a lack of a simple mathematical model for the thermal diffusivity that could be used for control design. In this work, a model for Xe is proposed based on a scaling law involving key plasma variables such as the electron temperature (Te), the electron density (ne), and the safety factor (q). An optimization algorithm is developed based on the Sequential Quadratic Programming (SQP) technique to optimize the scaling factors appearing in the proposed model so that the predicted electron temperature and magnetic flux profiles match predefined target profiles in the best possible way. A simulation study summarizing the outcomes of the optimization procedure is presented to illustrate the potential of the

  14. Long Non-coding RNAs in the Cytoplasm

    Institute of Scientific and Technical Information of China (English)

    Farooq Rashid; Abdullah Shah; Ge Shan

    2016-01-01

    An enormous amount of long non-coding RNAs (lncRNAs) transcribed from eukaryotic genome are important regulators in different aspects of cellular events. Cytoplasm is the residence and the site of action for many lncRNAs. The cytoplasmic lncRNAs play indispensable roles with multiple molecular mechanisms in animal and human cells. In this review, we mainly talk about functions and the underlying mechanisms of lncRNAs in the cytoplasm. We highlight relatively well-studied examples of cytoplasmic lncRNAs for their roles in modulating mRNA stability, regulating mRNA translation, serving as competing endogenous RNAs, functioning as precursors of microRNAs, and mediating protein modifications. We also elaborate the perspectives of cytoplasmic lncRNA studies.

  15. Discontinuous Petrov-Galerkin method based on the optimal test space norm for steady transport problems in one space dimension

    KAUST Repository

    Niemi, Antti

    2013-05-01

    We revisit the finite element analysis of convection-dominated flow problems within the recently developed Discontinuous Petrov-Galerkin (DPG) variational framework. We demonstrate how test function spaces that guarantee numerical stability can be computed automatically with respect to the optimal test space norm. This makes the DPG method not only stable but also robust, that is, uniformly stable with respect to the Péclet number in the current application. We employ discontinuous piecewise Bernstein polynomials as trial functions and construct a subgrid discretization that accounts for the singular perturbation character of the problem to resolve the corresponding optimal test functions. We also show that a smooth B-spline basis has certain computational advantages in the subgrid discretization. The overall effectiveness of the algorithm is demonstrated on two problems for the linear advection-diffusion equation. © 2011 Elsevier B.V.

  16. Antineutrophil Cytoplasmic Antibodies Associated With Infective Endocarditis

    Science.gov (United States)

    Langlois, Vincent; Lesourd, Anais; Girszyn, Nicolas; Ménard, Jean-Francois; Levesque, Hervé; Caron, Francois; Marie, Isabelle

    2016-01-01

    Abstract To determine the prevalence of antineutrophil cytoplasmic antibodies (ANCA) in patients with infective endocarditis (IE) in internal medicine; and to compare clinical and biochemical features and outcome between patients exhibiting IE with and without ANCA. Fifty consecutive patients with IE underwent ANCA testing. The medical records of these patients were reviewed. Of the 50 patients with IE, 12 exhibited ANCA (24%). ANCA-positive patients with IE exhibited: longer duration between the onset of first symptoms and IE diagnosis (P = 0.02); and more frequently: weight loss (P = 0.017) and renal impairment (P = 0.08), lower levels of C-reactive protein (P = 0.0009) and serum albumin (P = 0.0032), involvement of both aortic and mitral valves (P = 0.009), and longer hospital stay (P = 0.016). Under multivariate analysis, significant factors for ANCA-associated IE were: longer hospital stay (P = 0.004), lower level of serum albumin (P = 0.02), and multiple valve involvement (P = 0.04). Mortality rate was 25% in ANCA patients; death was because of IE complications in all these patients. Our study identifies a high prevalence of ANCA in unselected patients with IE in internal medicine (24%). Our findings further underscore that ANCA may be associated with a subacute form of IE leading to multiple valve involvement and more frequent renal impairment. Because death was due to IE complications in all patients, our data suggest that aggressive therapy may be required to improve such patients’ outcome. PMID:26817911

  17. Antineutrophil Cytoplasmic Antibodies, Autoimmune Neutropenia, and Vasculitis

    Science.gov (United States)

    Grayson, Peter C.; Sloan, J. Mark; Niles, John L.; Monach, Paul A.; Merkel, Peter A.

    2011-01-01

    Objectives Reports of an association between antineutrophil cytoplasmic antibodies (ANCA) and autoimmune neutropenia have rarely included cases of proven vasculitis. A case of ANCA-associated vasculitis (AAV) with recurrent neutropenia is described and relevant literature on the association between ANCA, neutropenia, and vasculitis is reviewed. Methods Longitudinal clinical assessments and laboratory findings are described in a patient with AAV and recurrent episodes of profound neutropenia from December 2008 – October 2010. A PubMed database search of the medical literature was performed for papers published from 1960 through October 2010 to identify all reported cases of ANCA and neutropenia. Results A 49 year-old man developed recurrent neutropenia, periodic fevers, arthritis, biopsy-proven cutaneous vasculitis, sensorineural hearing loss, epididymitis, and positive tests for ANCA with specificity for antibodies to both proteinase 3 and myeloperoxidase. Antineutrophil membrane antibodies were detected during an acute neutropenic phase and were not detectable in a post-recovery sample, whereas ANCA titers did not seem to correlate with neutropenia. An association between ANCA and neutropenia has been reported in 74 cases from 24 studies in the context of drug/toxin exposure, underlying autoimmune disease, or chronic neutropenia without underlying autoimmune disease. In these cases, the presence of atypical ANCA patterns and other antibodies were common; however, vasculitis was uncommon and when it occurred was usually limited to the skin and in cases of underlying toxin exposure. Conclusions ANCA is associated with autoimmune neutropenia, but systemic vasculitis rarely occurs in association with ANCA and neutropenia. The interaction between neutrophils and ANCA may provide insight into understanding both autoimmune neutropenia and AAV. PMID:21507463

  18. Nuclear reprogramming by interphase cytoplasm of 2-cell mouse embryos

    Science.gov (United States)

    Kang, Enugu; Wu, Guangming; Ma, Hong; Li, Ying; Tippner-Hedges, Rebecca; Tachibana, Masahito; Sparman, Michelle; Wolf, Don P.; Schöler, Hans; Mitalipov, Shoukhrat

    2014-01-01

    Summary Successful mammalian cloning employing somatic cell nuclear transfer (SCNT) into unfertilized, metaphase II-arrested (MII) oocytes attests to the cytoplasmic presence of reprogramming factors capable of inducing pluripotency in somatic cell nuclei1-3. However, these poorly defined maternal factors presumably decline sharply after fertilization since cytoplasm of pronuclear stage zygotes is reportedly inactive4, 5. Recent evidence suggests that zygotic cytoplasm, if maintained at metaphase (M-phase) can also support derivation of embryonic stem cells (ESCs) following SCNT6-8, albeit at low efficiency. This led to the conclusion that critical oocyte reprogramming factors present in M-phase but not in interphase cytoplasm are “trapped” inside the nucleus during interphase and effectively removed during enucleation9. Here, we investigated the presence of reprogramming activity in the interphase cytoplasm of 2-cell mouse embryos (I2C). First, the presence of candidate reprogramming factors was documented in both intact and enucleated M-phase and interphase zygotes and 2-cell embryos. Consequently, enucleation did not provide a likely explanation for the inability of interphase cytoplasm to induce reprogramming. Then, when we carefully synchronized the cell cycle stage between the transplanted nucleus (ESC, fetal fibroblast or terminally differentiated cumulus cell) and the recipient I2C cytoplasm, the reconstructed SCNT embryos developed into blastocysts and ESCs capable of contributing to traditional germline and tetraploid chimeras. In addition, direct transfer of cloned embryos, reconstructed with ESC nuclei, into recipients resulted in live offspring. Thus, the cytoplasm of I2C supports efficient reprogramming with cell cycle synchronization between the donor nucleus and recipient cytoplasm as the most critical parameter determining success. The ability to utilize interphase cytoplasm in SCNT could impact efforts to generate autologous human ESCs for

  19. Cytoplasmic CUG RNA foci are insufficient to elicit key DM1 features.

    Directory of Open Access Journals (Sweden)

    Warunee Dansithong

    aggregates is an important variable that influences toxicity and support the hypothesis that small molecules that increase the rate of transport of the mutant DMPK RNA from the nucleus into the cytoplasm may significantly improve DM1 pathology.

  20. Discontinuous Petrov-Galerkin method based on the optimal test space norm for one-dimensional transport problems

    KAUST Repository

    Niemi, Antti H.

    2011-05-14

    We revisit the finite element analysis of convection dominated flow problems within the recently developed Discontinuous Petrov-Galerkin (DPG) variational framework. We demonstrate how test function spaces that guarantee numerical stability can be computed automatically with respect to the so called optimal test space norm by using an element subgrid discretization. This should make the DPG method not only stable but also robust, that is, uniformly stable with respect to the Ṕeclet number in the current application. The e_ectiveness of the algorithm is demonstrated on two problems for the linear advection-di_usion equation.

  1. Optimizing light transport in scintillation crystals for time-of-flight PET: an experimental and optical Monte Carlo simulation study.

    Science.gov (United States)

    Berg, Eric; Roncali, Emilie; Cherry, Simon R

    2015-06-01

    Achieving excellent timing resolution in gamma ray detectors is crucial in several applications such as medical imaging with time-of-flight positron emission tomography (TOF-PET). Although many factors impact the overall system timing resolution, the statistical nature of scintillation light, including photon production and transport in the crystal to the photodetector, is typically the limiting factor for modern scintillation detectors. In this study, we investigated the impact of surface treatment, in particular, roughening select areas of otherwise polished crystals, on light transport and timing resolution. A custom Monte Carlo photon tracking tool was used to gain insight into changes in light collection and timing resolution that were observed experimentally: select roughening configurations increased the light collection up to 25% and improved timing resolution by 15% compared to crystals with all polished surfaces. Simulations showed that partial surface roughening caused a greater number of photons to be reflected towards the photodetector and increased the initial rate of photoelectron production. This study provides a simple method to improve timing resolution and light collection in scintillator-based gamma ray detectors, a topic of high importance in the field of TOF-PET. Additionally, we demonstrated utility of our Monte Carlo simulation tool to accurately predict the effect of altering crystal surfaces on light collection and timing resolution.

  2. Pediatric Inflammatory Bowel Disease with Cytoplasmic Staining of Antineutrophil Cytoplasmic Antibodies

    Directory of Open Access Journals (Sweden)

    Omar I. Saadah

    2013-01-01

    Full Text Available Background. It is unusual for the antineutrophil cytoplasmic antibody with cytoplasmic pattern (cANCA to present in patients with inflammatory bowel disease (IBD without vasculitis. The purpose of this study was to describe the occurrence and characteristics of pediatrics IBD with cANCA. Methods. A retrospective review of pediatric IBD associated with cANCA serology in patients from King Abdulaziz University Hospital, Saudi Arabia, between September 2002 and February 2012. Results. Out of 131 patients with IBD screened for cANCAs, cANCA was positive in 7 (5.3% patients of whom 4 had ulcerative colitis and 3 had Crohn's disease. The median age was 8.8 years (2–14.8 years. Six (86% were males. Of the 7 patients, 5 (71% were Saudi Arabians and 2 were of Indian ethnicity. The most common symptoms were diarrhea, abdominal pain, weight loss, and rectal bleeding. None had family history or clinical features suggestive of vasculitis involving renal and respiratory systems. No difference in the disease location or severity was observed between cANCA positive and cANCA negative patients apart from male preponderance in cANCA positive patients. Conclusion. The occurrence of cANCA in pediatric IBD is rare. Apart from male preponderance, there were no peculiar characteristics for the cANCA positive patients.

  3. Uniparental Inheritance Promotes Adaptive Evolution in Cytoplasmic Genomes.

    Science.gov (United States)

    Christie, Joshua R; Beekman, Madeleine

    2017-03-01

    Eukaryotes carry numerous asexual cytoplasmic genomes (mitochondria and plastids). Lacking recombination, asexual genomes should theoretically suffer from impaired adaptive evolution. Yet, empirical evidence indicates that cytoplasmic genomes experience higher levels of adaptive evolution than predicted by theory. In this study, we use a computational model to show that the unique biology of cytoplasmic genomes-specifically their organization into host cells and their uniparental (maternal) inheritance-enable them to undergo effective adaptive evolution. Uniparental inheritance of cytoplasmic genomes decreases competition between different beneficial substitutions (clonal interference), promoting the accumulation of beneficial substitutions. Uniparental inheritance also facilitates selection against deleterious cytoplasmic substitutions, slowing Muller's ratchet. In addition, uniparental inheritance generally reduces genetic hitchhiking of deleterious substitutions during selective sweeps. Overall, uniparental inheritance promotes adaptive evolution by increasing the level of beneficial substitutions relative to deleterious substitutions. When we assume that cytoplasmic genome inheritance is biparental, decreasing the number of genomes transmitted during gametogenesis (bottleneck) aids adaptive evolution. Nevertheless, adaptive evolution is always more efficient when inheritance is uniparental. Our findings explain empirical observations that cytoplasmic genomes-despite their asexual mode of reproduction-can readily undergo adaptive evolution. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  4. Differences in catalytic properties between cerebral cytoplasmic and mitochondrial hexokinases.

    Science.gov (United States)

    Thompson, M F; Bachelard, H S

    1977-03-01

    1. Clear kinetic differences between cytoplasmic and mitochondrial forms of type-I cerebral hexokinase were demonstrated from experiments performed under identical conditions on three (cytoplasmic, bound mitochondrial and solubilized mitochondrial) preparations of the enzyme. 2. Whereas the Michaelis constant for glucose (KmGlc) was consistent, that for MgATP2- (KmATP) was lower in the cytoplasmic than in the two mitochondrial preparations. The substrate dissociation constants (KsGlc and KsATP) were both higher in the cytoplasmic than in the mitochondrial preparations. A further difference in the substrate kinetic patterns was that KmATP=KmATP for the cytoplasmic enzyme, in contrast with the mitochondrial enzyme, where KmATP was clearly not equal to KsATP [Bachelard et al. (1971) Biochem. J. 123, 707-715]. 3. Dead-end inhibition produced by N-acetyl-glucosamine and by AMP also exhibited different quantitative kinetic patterns for the two enzyme sources. Both inhibitions gave Ki values similar or equal to those of Ki' for the cytoplasmic activity, whereas Ki was clearly not equal to Ki' for the mitochondrial activity. 4. All of these studies demonstrated the similarity of the two mitochondrial activities (particulate and solubilized), which were both clearly different from the cytoplasmic activity. 5. The analysis gives a practical example of our previous theoretical treatment on the derivation of true inhibition constants. 6. The results are discussed in terms of the function of cerebral hexokinases.

  5. CTP synthase forms cytoophidia in the cytoplasm and nucleus

    Energy Technology Data Exchange (ETDEWEB)

    Gou, Ke-Mian [MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3PT (United Kingdom); State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing 100193 (China); Chang, Chia-Chun [Institute of Biotechnology, National Taiwan University, Taipei, Taiwan, ROC (China); Shen, Qing-Ji [MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3PT (United Kingdom); Sung, Li-Ying, E-mail: liyingsung@ntu.edu.tw [Institute of Biotechnology, National Taiwan University, Taipei, Taiwan, ROC (China); Agricultural Biotechnology Research Center, Academia Sinica, Taipei 115, Taiwan, ROC (China); Liu, Ji-Long, E-mail: jilong.liu@dpag.ox.ac.uk [MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3PT (United Kingdom)

    2014-04-15

    CTP synthase is an essential metabolic enzyme responsible for the de novo synthesis of CTP. Multiple studies have recently showed that CTP synthase protein molecules form filamentous structures termed cytoophidia or CTP synthase filaments in the cytoplasm of eukaryotic cells, as well as in bacteria. Here we report that CTP synthase can form cytoophidia not only in the cytoplasm, but also in the nucleus of eukaryotic cells. Both glutamine deprivation and glutamine analog treatment promote formation of cytoplasmic cytoophidia (C-cytoophidia) and nuclear cytoophidia (N-cytoophidia). N-cytoophidia are generally shorter and thinner than their cytoplasmic counterparts. In mammalian cells, both CTP synthase 1 and CTP synthase 2 can form cytoophidia. Using live imaging, we have observed that both C-cytoophidia and N-cytoophidia undergo multiple rounds of fusion upon glutamine analog treatment. Our study reveals the coexistence of cytoophidia in the cytoplasm and nucleus, therefore providing a good opportunity to investigate the intracellular compartmentation of CTP synthase. - Highlights: • CTP synthase forms cytoophidia not only in the cytoplasm but also in the nucleus. • Glutamine deprivation and Glutamine analogs promotes cytoophidium formation. • N-cytoophidia exhibit distinct morphology when compared to C-cytoophidia. • Both CTP synthase 1 and CTP synthase 2 form cytoophidia in mammalian cells. • Fusions of cytoophidia occur in the cytoplasm and nucleus.

  6. An Approach to the Optimization of Mobile Payments for the Transport System using (NFC through Cloud Computing

    Directory of Open Access Journals (Sweden)

    Estevan Gómez Torres

    2017-02-01

    Full Text Available The use of mobile devices has gradually increased. Every day, the number of organizations adopting systems which include some type of mobile payments is becoming bigger. Because of this reason, it is mandatory to have agile and quick systems to guarantee security and reliability, not only for the user but also for the operator. In that way, users will get a high-quality service based on mobile technologies. An analysis of NFC Technology has been made in this paper taking into consideration a proposal of a system development including mobile payments, which could be used in the transportation system of Metro of Quito. To assure the response time and transactional security, the use of cloud computing is recommended.

  7. Final Report for the project titled "Enabling Supernova Computations by Integrated Transport and Provisioning Methods Optimized for Dedicated Channels"

    Energy Technology Data Exchange (ETDEWEB)

    Malathi Veeraraghavan

    2007-10-31

    A high-speed optical circuit network is one that offers users rate-guaranteed connectivity between two endpoints, unlike today’s IP-routed Internet in which the rate available to a pair of users fluctuates based on the volume of competing traffic. This particular research project advanced our understanding of circuit networks in two ways. First, transport protocols were developed for circuit networks. In a circuit network, since bandwidth resources are reserved for each circuit on an end-to-end basis (much like how a person reserves a seat on every leg of a multi-segment flight), and the sender is limited to send at the rate of the circuit, there is no possibility of congestion during data transfer. Therefore, no congestion control functions are necessary in a transport protocol designed for circuits. However, error control and flow control are still required because bits can become errored due to noise and interference even on highly reliable optical links, and receivers can, due to multitasking or other reasons, not deplete the receive buffer fast enough to keep up with the sending rate (e.g., if the receiving host is multitasking between receiving a file transfer and some other computation). In this work, we developed two transport protocols for circuits, both of which are described below. Second, this project developed techniques for internetworking different types of connection-oriented networks, which are of two types: circuit-switched or packet-switched. In circuit-switched networks, multiplexing on links is “position based,” where “position” refers to the frequency, time slot, and port (fiber), while connection-oriented packet-switched networks use packet header information to demultiplex packets and switch them from node to node. The latter are commonly referred to as virtual circuit networks. Examples of circuit networks are time-division multiplexed Synchronous Optical Network/Synchronous Digital Hierarchy (SONET/SDH) and Wavelength Division

  8. Distribution project optimization of united transportation of railway and highway%公铁联运配送方案优化

    Institute of Scientific and Technical Information of China (English)

    谢海红; 刘瑛

    2011-01-01

    为了提高公铁联运物流配送客户满意度和降低物流运输成本,将物流配送过程中铁路物流配送中心、货运站(配送点)与收货点之间的路径作为优化对象,分析了公铁联运中铁路物流配送中心的配送模式,建立了以客户物流费用最低为目标的路径选择模型,考虑了各个节点之间的单位运输费用、货物在各节点的包装和储存费用以及客户对某种货物的需求量。计算结果表明:当铁路物流中心不直接向客户配送货物,而是选择货运站来配送货物时,客户物流总费用最小,因此,路径选择模型可以准确地描述物流配送问题。%To improve the customer satisfaction of logistic service and reduce the transportation cost in the united transportation of railway and highway, the paths among the distribution centers of railway logistics, freight transportation stations and customers were taken as optimal object, the distribution patterns of distribution centers of railway logistics were analyzed, a route choice model of logistic distribution with an objective function of the minimal distribution cost to customers was set up, and the unit transportation costs, storing costs and packaging costs of freights at all notes and the freight requirements of customers were considered. Computation result shows that the total cost of logistic transportation is minimal when customers receive freights from the stations rather than the centers, which indicates that the logistic distribution problem can be accurately depicted by using the model. 1 tab, 4 figs, 14 refs.

  9. Balanced nuclear and cytoplasmic activities of EDS1 are required for a complete plant innate immune response.

    Directory of Open Access Journals (Sweden)

    Ana V García

    Full Text Available An important layer of plant innate immunity to host-adapted pathogens is conferred by intracellular nucleotide-binding/oligomerization domain-leucine rich repeat (NB-LRR receptors recognizing specific microbial effectors. Signaling from activated receptors of the TIR (Toll/Interleukin-1 Receptor-NB-LRR class converges on the nucleo-cytoplasmic immune regulator EDS1 (Enhanced Disease Susceptibility1. In this report we show that a receptor-stimulated increase in accumulation of nuclear EDS1 precedes or coincides with the EDS1-dependent induction and repression of defense-related genes. EDS1 is capable of nuclear transport receptor-mediated shuttling between the cytoplasm and nucleus. By enhancing EDS1 export from inside nuclei (through attachment of an additional nuclear export sequence (NES or conditionally releasing EDS1 to the nucleus (by fusion to a glucocorticoid receptor (GR in transgenic Arabidopsis we establish that the EDS1 nuclear pool is essential for resistance to biotrophic and hemi-biotrophic pathogens and for transcriptional reprogramming. Evidence points to post-transcriptional processes regulating receptor-triggered accumulation of EDS1 in nuclei. Changes in nuclear EDS1 levels become equilibrated with the cytoplasmic EDS1 pool and cytoplasmic EDS1 is needed for complete resistance and restriction of host cell death at infection sites. We propose that coordinated nuclear and cytoplasmic activities of EDS1 enable the plant to mount an appropriately balanced immune response to pathogen attack.

  10. Balanced nuclear and cytoplasmic activities of EDS1 are required for a complete plant innate immune response.

    Science.gov (United States)

    García, Ana V; Blanvillain-Baufumé, Servane; Huibers, Robin P; Wiermer, Marcel; Li, Guangyong; Gobbato, Enrico; Rietz, Steffen; Parker, Jane E

    2010-07-01

    An important layer of plant innate immunity to host-adapted pathogens is conferred by intracellular nucleotide-binding/oligomerization domain-leucine rich repeat (NB-LRR) receptors recognizing specific microbial effectors. Signaling from activated receptors of the TIR (Toll/Interleukin-1 Receptor)-NB-LRR class converges on the nucleo-cytoplasmic immune regulator EDS1 (Enhanced Disease Susceptibility1). In this report we show that a receptor-stimulated increase in accumulation of nuclear EDS1 precedes or coincides with the EDS1-dependent induction and repression of defense-related genes. EDS1 is capable of nuclear transport receptor-mediated shuttling between the cytoplasm and nucleus. By enhancing EDS1 export from inside nuclei (through attachment of an additional nuclear export sequence (NES)) or conditionally releasing EDS1 to the nucleus (by fusion to a glucocorticoid receptor (GR)) in transgenic Arabidopsis we establish that the EDS1 nuclear pool is essential for resistance to biotrophic and hemi-biotrophic pathogens and for transcriptional reprogramming. Evidence points to post-transcriptional processes regulating receptor-triggered accumulation of EDS1 in nuclei. Changes in nuclear EDS1 levels become equilibrated with the cytoplasmic EDS1 pool and cytoplasmic EDS1 is needed for complete resistance and restriction of host cell death at infection sites. We propose that coordinated nuclear and cytoplasmic activities of EDS1 enable the plant to mount an appropriately balanced immune response to pathogen attack.

  11. Water-transporting proteins.

    Science.gov (United States)

    Zeuthen, Thomas

    2010-04-01

    Transport through lipids and aquaporins is osmotic and entirely driven by the difference in osmotic pressure. Water transport in cotransporters and uniporters is different: Water can be cotransported, energized by coupling to the substrate flux by a mechanism closely associated with protein. In the K(+)/Cl(-) and the Na(+)/K(+)/2Cl(-) cotransporters, water is entirely cotransported, while water transport in glucose uniporters and Na(+)-coupled transporters of nutrients and neurotransmitters takes place by both osmosis and cotransport. The molecular mechanism behind cotransport of water is not clear. It is associated with the substrate movements in aqueous pathways within the protein; a conventional unstirred layer mechanism can be ruled out, due to high rates of diffusion in the cytoplasm. The physiological roles of the various modes of water transport are reviewed in relation to epithelial transport. Epithelial water transport is energized by the movements of ions, but how the coupling takes place is uncertain. All epithelia can transport water uphill against an osmotic gradient, which is hard to explain by simple osmosis. Furthermore, genetic removal of aquaporins has not given support to osmosis as the exclusive mode of transport. Water cotransport can explain the coupling between ion and water transport, a major fraction of transepithelial water transport and uphill water transport. Aquaporins enhance water transport by utilizing osmotic gradients and cause the osmolarity of the transportate to approach isotonicity.

  12. Cr(VI) transport via a supported ionic liquid membrane containing CYPHOS IL101 as carrier: system analysis and optimization through experimental design strategies.

    Science.gov (United States)

    Rodríguez de San Miguel, Eduardo; Vital, Xóchitl; de Gyves, Josefina

    2014-05-30

    Chromium(VI) transport through a supported liquid membrane (SLM) system containing the commercial ionic liquid CYPHOS IL101 as carrier was studied. A reducing stripping phase was used as a mean to increase recovery and to simultaneously transform Cr(VI) into a less toxic residue for disposal or reuse. General functions which describe the time-depending evolution of the metal fractions in the cell compartments were defined and used in data evaluation. An experimental design strategy, using factorial and central-composite design matrices, was applied to assess the influence of the extractant, NaOH and citrate concentrations in the different phases, while a desirability function scheme allowed the synchronized optimization of depletion and recovery of the analyte. The mechanism for chromium permeation was analyzed and discussed to contribute to the understanding of the transfer process. The influence of metal concentration was evaluated as well. The presence of different interfering ions (Ca(2+), Al(3+), NO3(-), SO4(2-), and Cl(-)) at several Cr(VI): interfering ion ratios was studied through the use of a Plackett and Burman experimental design matrix. Under optimized conditions 90% of recovery was obtained from a feed solution containing 7mgL(-1) of Cr(VI) in 0.01moldm(-3) HCl medium after 5h of pertraction.

  13. Refractory disease in antineutrophil cytoplasmic antibodies associated vasculitis

    NARCIS (Netherlands)

    Rutgers, Abraham; Kallenberg, Cornelis

    2012-01-01

    Purpose of review Induction treatment of antineutrophil cytoplasmic antibodies (ANCA) associated vasculitis (AAV) is not always successful and nonresponding patients are considered refractory. Recent findings Refractory disease should be subdefined to the treatment that was received. Cyclophosphamid

  14. On the evolution of cytoplasmic incompatibility in haplodiploid species

    NARCIS (Netherlands)

    Egas, C.J.M.; de Freitas Vala Salvador, F.; Breeuwer, J.A.J.

    2002-01-01

    The most enigmatic sexual manipulation by Wolbachia endosymbionts is cytoplasmic incompatibility (CI): infected mates are reproductively incompatible with uninfected females. In this paper, we extend the theory on population dynamics and evolution of CI, with emphasis on haplodiploid species. First,

  15. Cytoplasmic tail of coronavirus spike protein has intracellular targeting signals

    Indian Academy of Sciences (India)

    JIBIN SADASIVAN; MANMEET SINGH; JAYASRI DAS SARMA

    2017-06-01

    Intracellular trafficking and localization studies of spike protein from SARS and OC43 showed that SARS spikeprotein is localized in the ER or ERGIC compartment and OC43 spike protein is predominantly localized in thelysosome. Differential localization can be explained by signal sequence. The sequence alignment using Clustal Wshows that the signal sequence present at the cytoplasmic tail plays an important role in spike protein localization. Aunique GYQEL motif is identified at the cytoplasmic terminal of OC43 spike protein which helps in localization in thelysosome, and a novel KLHYT motif is identified in the cytoplasmic tail of SARS spike protein which helps in ER orERGIC localization. This study sheds some light on the role of cytoplasmic tail of spike protein in cell-to-cell fusion,coronavirus host cell fusion and subsequent pathogenicity.

  16. Final Report for the project titled "Enabling Supernova Computations by Integrated Transport and Provisioning Methods Optimized for Dedicated Channels"

    Energy Technology Data Exchange (ETDEWEB)

    Malathi Veeraraghavan

    2007-10-31

    A high-speed optical circuit network is one that offers users rate-guaranteed connectivity between two endpoints, unlike today’s IP-routed Internet in which the rate available to a pair of users fluctuates based on the volume of competing traffic. This particular research project advanced our understanding of circuit networks in two ways. First, transport protocols were developed for circuit networks. In a circuit network, since bandwidth resources are reserved for each circuit on an end-to-end basis (much like how a person reserves a seat on every leg of a multi-segment flight), and the sender is limited to send at the rate of the circuit, there is no possibility of congestion during data transfer. Therefore, no congestion control functions are necessary in a transport protocol designed for circuits. However, error control and flow control are still required because bits can become errored due to noise and interference even on highly reliable optical links, and receivers can, due to multitasking or other reasons, not deplete the receive buffer fast enough to keep up with the sending rate (e.g., if the receiving host is multitasking between receiving a file transfer and some other computation). In this work, we developed two transport protocols for circuits, both of which are described below. Second, this project developed techniques for internetworking different types of connection-oriented networks, which are of two types: circuit-switched or packet-switched. In circuit-switched networks, multiplexing on links is “position based,” where “position” refers to the frequency, time slot, and port (fiber), while connection-oriented packet-switched networks use packet header information to demultiplex packets and switch them from node to node. The latter are commonly referred to as virtual circuit networks. Examples of circuit networks are time-division multiplexed Synchronous Optical Network/Synchronous Digital Hierarchy (SONET/SDH) and Wavelength Division

  17. Evolutionary conservation of sequence elements controlling cytoplasmic polyadenylylation.

    OpenAIRE

    1996-01-01

    Cytoplasmic polyadenylylation is an evolutionarily conserved mechanism involved in the translational activation of a set of maternal messenger RNAs (mRNAs) during early development. In this report, we show by interspecies injections that Xenopus and mouse use the same regulatory sequences to control cytoplasmic poly(A) addition during meiotic maturation. Similarly, Xenopus and Drosophila embryos exploit functionally conserved signals to regulate polyadenylylation during early post-fertilizati...

  18. Lung transplantation for severe antineutrophilic cytoplasmic antibody-associated vasculitis.

    Science.gov (United States)

    Weinkauf, J; Puttagunta, L; Stewart, K; Humar, A; Homik, J; Caldwell, S; Fenton, M; Nador, R; Lien, Dale

    2010-09-01

    Antineutrophil cytoplasmic antibody-associated vasculitis is a life-threatening disorder for which medical therapy has greatly improved survival. However, there is still significant mortality associated with antineutrophil cytoplasmic antibody-associated vasculitis. Little data exists on the utility of lung transplantation for patients, especially with an acute and severe form of this disease. Herein, we report successful lung transplantation for a patient with life-threatening pulmonary hemorrhage and respiratory failure as a consequence of this pulmonary renal syndrome.

  19. HIV-1 and M-PMV RNA Nuclear Export Elements Program Viral Genomes for Distinct Cytoplasmic Trafficking Behaviors.

    Science.gov (United States)

    Pocock, Ginger M; Becker, Jordan T; Swanson, Chad M; Ahlquist, Paul; Sherer, Nathan M

    2016-04-01

    Retroviruses encode cis-acting RNA nuclear export elements that override nuclear retention of intron-containing viral mRNAs including the full-length, unspliced genomic RNAs (gRNAs) packaged into assembling virions. The HIV-1 Rev-response element (RRE) recruits the cellular nuclear export receptor CRM1 (also known as exportin-1/XPO1) using the viral protein Rev, while simple retroviruses encode constitutive transport elements (CTEs) that directly recruit components of the NXF1(Tap)/NXT1(p15) mRNA nuclear export machinery. How gRNA nuclear export is linked to trafficking machineries in the cytoplasm upstream of virus particle assembly is unknown. Here we used long-term (>24 h), multicolor live cell imaging to directly visualize HIV-1 gRNA nuclear export, translation, cytoplasmic trafficking, and virus particle production in single cells. We show that the HIV-1 RRE regulates unique, en masse, Rev- and CRM1-dependent "burst-like" transitions of mRNAs from the nucleus to flood the cytoplasm in a non-localized fashion. By contrast, the CTE derived from Mason-Pfizer monkey virus (M-PMV) links gRNAs to microtubules in the cytoplasm, driving them to cluster markedly to the centrosome that forms the pericentriolar core of the microtubule-organizing center (MTOC). Adding each export element to selected heterologous mRNAs was sufficient to confer each distinct export behavior, as was directing Rev/CRM1 or NXF1/NXT1 transport modules to mRNAs using a site-specific RNA tethering strategy. Moreover, multiple CTEs per transcript enhanced MTOC targeting, suggesting that a cooperative mechanism links NXF1/NXT1 to microtubules. Combined, these results reveal striking, unexpected features of retroviral gRNA nucleocytoplasmic transport and demonstrate roles for mRNA export elements that extend beyond nuclear pores to impact gRNA distribution in the cytoplasm.

  20. Mathematical programming (MP) model to determine optimal transportation infrastructure for geologic CO2 storage in the Illinois basin

    Science.gov (United States)

    Rehmer, Donald E.

    Analysis of results from a mathematical programming model were examined to 1) determine the least cost options for infrastructure development of geologic storage of CO2 in the Illinois Basin, and 2) perform an analysis of a number of CO2 emission tax and oil price scenarios in order to implement development of the least-cost pipeline networks for distribution of CO2. The model, using mixed integer programming, tested the hypothesis of whether viable EOR sequestration sites can serve as nodal points or hubs to expand the CO2 delivery infrastructure to more distal locations from the emissions sources. This is in contrast to previous model results based on a point-to- point model having direct pipeline segments from each CO2 capture site to each storage sink. There is literature on the spoke and hub problem that relates to airline scheduling as well as maritime shipping. A large-scale ship assignment problem that utilized integer linear programming was run on Excel Solver and described by Mourao et al., (2001). Other literature indicates that aircraft assignment in spoke and hub routes can also be achieved using integer linear programming (Daskin and Panayotopoulos, 1989; Hane et al., 1995). The distribution concept is basically the reverse of the "tree and branch" type (Rothfarb et al., 1970) gathering systems for oil and natural gas that industry has been developing for decades. Model results indicate that the inclusion of hubs as variables in the model yields lower transportation costs for geologic carbon dioxide storage over previous models of point-to-point infrastructure geometries. Tabular results and GIS maps of the selected scenarios illustrate that EOR sites can serve as nodal points or hubs for distribution of CO2 to distal oil field locations as well as deeper saline reservoirs. Revenue amounts and capture percentages both show an improvement over solutions when the hubs are not allowed to come into the solution. Other results indicate that geologic

  1. Optimal estimation of the surface fluxes of methyl chloride using a 3-D global chemical transport model

    Directory of Open Access Journals (Sweden)

    X. Xiao

    2010-06-01

    Full Text Available Methyl chloride (CH3Cl is a chlorine-containing trace gas in the atmosphere contributing significantly to stratospheric ozone depletion. Large uncertainties in estimates of its source and sink magnitudes and temporal and spatial variations currently exist. GEIA inventories and other bottom-up emission estimates are used to construct a priori maps of the surface fluxes of CH3Cl. The Model of Atmospheric Transport and Chemistry (MATCH, driven by NCEP interannually varying meteorological data, is then used to simulate CH3Cl mole fractions and quantify the time series of sensitivities of the mole fractions at each measurement site to the surface fluxes of various regional and global sources and sinks. We then implement the Kalman filter (with the unit pulse response method to estimate the surface fluxes on regional/global scales with monthly resolution from January 2000 to December 2004. High frequency observations from the AGAGE, SOGE, NIES, and NOAA/ESRL HATS in situ networks and low frequency observations from the NOAA/ESRL HATS flask network are used to constrain the source and sink magnitudes. The inversion results indicate global total emissions around 4100 ± 470 Gg yr−1 with very large emissions of 2200 ± 390 Gg yr−1 from tropical plants, which turn out to be the largest single source in the CH3Cl budget. Relative to their a priori annual estimates, the inversion increases global annual fungal and tropical emissions, and reduces the global oceanic source. The inversion implies greater seasonal and interannual oscillations of the natural sources and sink of CH3Cl compared to the a priori. The inversion also reflects the strong effects of the 2002/2003 globally widespread heat waves and droughts on global emissions from tropical plants, biomass burning and salt marshes, and on the soil sink.

  2. Optimal estimation of the surface fluxes of methyl chloride using a 3-D global chemical transport model

    Directory of Open Access Journals (Sweden)

    X. Xiao

    2009-12-01

    Full Text Available Methyl chloride (CH3Cl is a chlorine-containing trace gas in the atmosphere contributing significantly to stratospheric ozone depletion. Large uncertainties in estimates of its source and sink magnitudes and temporal and spatial variations currently exist. GEIA inventories and other bottom-up emission estimates are used to construct a priori maps of the surface fluxes of CH3Cl. The Model of Atmospheric Transport and Chemistry (MATCH, driven by NCEP interannually varying meteorological data, is then used to simulate CH3Cl mole fractions and quantify the time series of sensitivities of the mole fractions at each measurement site to the surface fluxes of various regional and global sources and sinks. We then implement the Kalman filter (with the unit pulse response method to estimate the surface fluxes on regional/global scales with monthly resolution from January 2000 to December 2004. High frequency observations from the AGAGE, SOGE, NIES, and NOAA/ESRL HATS in situ networks and low frequency observations from the NOAA/ESRL HATS flask network are used to constrain the source and sink magnitudes. The inversion results indicate global total emissions around 4100±470 Gg yr−1 with very large emissions of 2200±390 Gg yr−1 from tropical plants, which turn out to be the largest single source in the CH3Cl budget. Relative to their a priori annual estimates, the inversion increases global annual fungal and tropical emissions, and reduces the global oceanic source. The inversion implies greater seasonal and interannual oscillations of the natural sources and sink of CH3Cl compared to the a priori. The inversion also reflects the strong effects of the 2002/2003 globally widespread heat waves and droughts on global emissions from tropical plants, biomass burning and salt marshes, and on the soil sink.

  3. Intrinsic and extrinsic negative regulators of nuclear protein transport processes

    OpenAIRE

    Sekimoto, Toshihiro; Yoneda, Yoshihiro

    2012-01-01

    The nuclear–cytoplasmic protein transport is a critical process in cellular events. The identification of transport signals (nuclear localization signal and nuclear export signal) and their receptors has facilitated our understanding of this expanding field. Nuclear transport must be appropriately regulated to deliver proteins through the nuclear pore when their functions are required in the nucleus, and to export them into the cytoplasm when they are not needed in the nucleus. Altered nuclea...

  4. In vivo evidence of TonB shuttling between the cytoplasmic and outer membrane in Escherichia coli.

    Science.gov (United States)

    Larsen, Ray A; Letain, Tracy E; Postle, Kathleen

    2003-07-01

    Gram-negative bacteria are able to convert potential energy inherent in the proton gradient of the cytoplasmic membrane into active nutrient transport across the outer membrane. The transduction of energy is mediated by TonB protein. Previous studies suggest a model in which TonB makes sequential and cyclic contact with proteins in each membrane, a process called shuttling. A key feature of shuttling is that the amino-terminal signal anchor must quit its association with the cytoplasmic membrane, and TonB becomes associated solely with the outer membrane. However, the initial studies did not exclude the possibility that TonB was artifactually pulled from the cytoplasmic membrane by the fractionation process. To resolve this ambiguity, we devised a method to test whether the extreme TonB amino-terminus, located in the cytoplasm, ever became accessible to the cys-specific, cytoplasmic membrane-impermeant molecule, Oregon Green(R) 488 maleimide (OGM) in vivo. A full-length TonB and a truncated TonB were modified to carry a sole cysteine at position 3. Both full-length TonB and truncated TonB (consisting of the amino-terminal two-thirds) achieved identical conformations in the cytoplasmic membrane, as determined by their abilities to cross-link to the cytoplasmic membrane protein ExbB and their abilities to respond conformationally to the presence or absence of proton motive force. Full-length TonB could be amino-terminally labelled in vivo, suggesting that it was periplasmically exposed. In contrast, truncated TonB, which did not associate with the outer membrane, was not specifically labelled in vivo. The truncated TonB also acted as a control for leakage of OGM across the cytoplasmic membrane. Further, the extent of labelling for full-length TonB correlated roughly with the proportion of TonB found at the outer membrane. These findings suggest that TonB does indeed disengage from the cytoplasmic membrane during energy transduction and shuttle to the outer membrane.

  5. Charge transport in polycrystalline alumina materials: application to the optimization of dielectric breakdown strength; Transport de charges dans les alumines polycristallines: application a l'optimisation de la rigidite dielectrique

    Energy Technology Data Exchange (ETDEWEB)

    Touzin, M.

    2005-12-15

    Dielectric breakdown constitutes an important limitation in the use of insulating materials under high-tension since it leads to the local fusion and the sublimation of material. The microstructure (average grain size, intergranular phase) has a great influence on the ability of material to resist this catastrophic phenomenon. Indeed, the interfaces between the various phases constitute potential sites of trapping for the charges. The optimization of the dielectric breakdown strength of a polycrystalline alumina sintered with a liquid phase passes necessarily through the control of the microstructural parameters. Thus, it is shown that by controlling the conditions of the process (rate of sintering aids, powder grain size and thermal cycle), it is possible to control the density (by the average grain size) but also the nature (by the crystallization or not of anorthite) of the grain boundaries. The study of the influence of these two parameters as well temperature on the properties of charge transport and storage was carried out by methods ICM and SEMME. The results, interpreted in light of the numerical simulation of the charge transport in bulk alumina sample during electron beam irradiation, allowed to highlight behaviors, and the corresponding microstructures, favourable to the dielectric breakdown resistance according to the considered temperature. Thus, at room temperature a high density of interfaces (low grain size and crystallized intergranular phase) makes it possible material to durably trap a great amount of charges, which leads to a high dielectric strength. On the other hand, at higher temperature, the presence of shallow traps (vitreous intergranular phase) supports the charge diffusion and makes it possible to delay breakdown. (author)

  6. Evidence for a cytoplasmic microprocessor of pri-miRNAs.

    Science.gov (United States)

    Shapiro, Jillian S; Langlois, Ryan A; Pham, Alissa M; Tenoever, Benjamin R

    2012-07-01

    microRNAs (miRNAs) represent a class of noncoding RNAs that fine-tune gene expression through post-transcriptional silencing. While miRNA biogenesis occurs in a stepwise fashion, initiated by the nuclear microprocessor, rare noncanonical miRNAs have also been identified. Here we characterize the molecular components and unique attributes associated with the processing of virus-derived cytoplasmic primary miRNAs (c-pri-miRNAs). RNA in situ hybridization and inhibition of cellular division demonstrated a complete lack of nuclear involvement in c-pri-miRNA cleavage while genetic studies revealed that maturation still relied on the canonical nuclear RNase III enzyme, Drosha. The involvement of Drosha was mediated by a dramatic relocalization to the cytoplasm following virus infection. Deep sequencing analyses revealed that the cytoplasmic localization of Drosha does not impact the endogenous miRNA landscape during infection, despite allowing for robust synthesis of virus-derived miRNAs in the cytoplasm. Taken together, this research describes a unique function for Drosha in the processing of highly structured cytoplasmic RNAs in the context of virus infection.

  7. Gravity-dependent polarity of cytoplasmic streaming in Nitellopsis

    Science.gov (United States)

    Wayne, R.; Staves, M. P.; Leopold, A. C.

    1990-01-01

    The internodal cells of the characean alga Nitellopsis obtusa were chosen to investigate the effect of gravity on cytoplasmic streaming. Horizontal cells exhibit streaming with equal velocities in both directions, whereas in vertically oriented cells, the downward-streaming cytoplasm flows ca. 10% faster than the upward-streaming cytoplasm. These results are independent of the orientation of the morphological top and bottom of the cell. We define the ratio of the velocity of the downward- to the upward-streaming cytoplasm as the polar ratio (PR). The normal polarity of a cell can be reversed (PR polarity of cytoplasmic streaming. Less than 1 micromole Ca2+ resulted in a PR < 1 while greater than 1 micromole Ca2+ resulted in the normal gravity response. The voltage-dependent Ca(2+)-channel blocker, nifedipine, inhibited the gravity response in a reversible manner, while treatment with LaCl3 resulted in a PR < 1, indicating the presence of two types of Ca2+ channels. A new model for graviperception is presented in which the whole cell acts as the gravity sensor, and the plasma membrane acts as the gravireceptor. This is supported by ligation and UV irradiation experiments which indicate that the membranes at both ends of the cell are required for graviperception. The density of the external medium also affects the PR of Nitellopsis. Calculations are presented that indicate that the weight of the protoplasm may provide enough potential energy to open ion channels.

  8. Cytoplasmic streaming in Drosophila oocytes varies with kinesin activity and correlates with the microtubule cytoskeleton architecture.

    Science.gov (United States)

    Ganguly, Sujoy; Williams, Lucy S; Palacios, Isabel M; Goldstein, Raymond E

    2012-09-18

    Cells can localize molecules asymmetrically through the combined action of cytoplasmic streaming, which circulates their fluid contents, and specific anchoring mechanisms. Streaming also contributes to the distribution of nutrients and organelles such as chloroplasts in plants, the asymmetric position of the meiotic spindle in mammalian embryos, and the developmental potential of the zygote, yet little is known quantitatively about the relationship between streaming and the motor activity which drives it. Here we use Particle Image Velocimetry to quantify the statistical properties of Kinesin-dependent streaming during mid-oogenesis in Drosophila. We find that streaming can be used to detect subtle changes in Kinesin activity and that the flows reflect the architecture of the microtubule cytoskeleton. Furthermore, based on characterization of the rheology of the cytoplasm in vivo, we establish estimates of the number of Kinesins required to drive the observed streaming. Using this in vivo data as the basis of a model for transport, we suggest that the disordered character of transport at mid-oogenesis, as revealed by streaming, is an important component of the localization dynamics of the body plan determinant oskar mRNA.

  9. Advising and Optimizing the Deployment of Sustainability-Oriented Technologies in the Integrated Electricity, Light-Duty Transportation, and Water Supply System

    Science.gov (United States)

    Tarroja, Brian

    The convergence of increasing populations, decreasing primary resource availability, and uncertain climates have drawn attention to the challenge of shifting the operations of key resource sectors towards a sustainable paradigm. This is prevalent in California, which has set sustainability-oriented policies such as the Renewable Portfolio Standards and Zero-Emission Vehicle mandates. To meet these goals, many options have been identified to potentially carry out these shifts. The electricity sector is focusing on accommodating renewable power generation, the transportation sector on alternative fuel drivetrains and infrastructure, and the water supply sector on conservation, reuse, and unconventional supplies. Historical performance evaluations of these options, however, have not adequately taken into account the impacts on and constraints of co-dependent infrastructures that must accommodate them and their interactions with other simultaneously deployed options. These aspects are critical for optimally choosing options to meet sustainability goals, since the combined system of all resource sectors must satisfy them. Certain operations should not be made sustainable at the expense of rendering others as unsustainable, and certain resource sectors should not meet their individual goals in a way that hinders the ability of the entire system to do so. Therefore, this work develops and utilizes an integrated platform of the electricity, transportation, and water supply sectors to characterize the performance of emerging technology and management options while taking into account their impacts on co-dependent infrastructures and identify synergistic or detrimental interactions between the deployment of different options. This is carried out by first evaluating the performance of each option in the context of individual resource sectors to determine infrastructure impacts, then again in the context of paired resource sectors (electricity-transportation, electricity

  10. Astrocytic exportin-7 responds to ischemia through mediating LKB1 translocation from the nucleus to the cytoplasm.

    Science.gov (United States)

    Liang, Hai Jie; Chai, Rui Chao; Li, Xi; Kong, Jin Ge; Jiang, Jiao Hua; Ma, Ju; Vatcher, Greg; Yu, Albert Cheung Hoi

    2015-02-01

    The superfamily of importin-β-related proteins is the largest class of nuclear transport receptors and can be generally divided into importins and exportins according to their transport directions. Eleven importins and seven exportins have been identified, and the expression patterns of both classes are important for their functions in nucleocytoplasmic transport activities. This study demonstrates that all of the importins (importin-β; transportin-1, -2, and -3; and importin-4, -5, -7, -8, -9, -11, and -13) and all the exportins (exportin-1, -2, -4, -5, -6, -7, and -t) are differentially expressed in the cerebral cortex, cerebellum, hippocampus, and brainstem and in primary cultures of cerebral cortical astrocytes and neurons. For astrocytes, we observed that different importins and exportins displayed different expression changes during 0-6 hr of ischemia treatment, especially an increase of both the mRNA and the protein of exportin-7. Immunostaining showed that exportin-7 accumulated inside the nucleus and around the nuclear envelope. In addition, we noticed an increased cytoplasmic distribution of one of the cargo proteins of exportin-7, LKB1, an important element in maintaining energy homeostasis. This increased cytoplasmic distribution was accompanied by an increased expression of exportin-7 under ischemia in astrocytes. We demonstrate that exportin-7 responds to ischemia in astrocytes and that this response involves translocation of LKB1, a protein that plays important roles during metabolic stress, from the nucleus to the cytoplasm.

  11. Intracellular organelles mediate cytoplasmic pulling force for centrosome centration in the Caenorhabditis elegans early embryo

    Science.gov (United States)

    Kimura, Akatsuki

    2010-01-01

    The centrosome is generally maintained at the center of the cell. In animal cells, centrosome centration is powered by the pulling force of microtubules, which is dependent on cytoplasmic dynein. However, it is unclear how dynein brings the centrosome to the cell center, i.e., which structure inside the cell functions as a substrate to anchor dynein. Here, we provide evidence that a population of dynein, which is located on intracellular organelles and is responsible for organelle transport toward the centrosome, generates the force required for centrosome centration in Caenorhabditis elegans embryos. By using the database of full-genome RNAi in C. elegans, we identified dyrb-1, a dynein light chain subunit, as a potential subunit involved in dynein anchoring for centrosome centration. DYRB-1 is required for organelle movement toward the minus end of the microtubules. The temporal correlation between centrosome centration and the net movement of organelle transport was found to be significant. Centrosome centration was impaired when Rab7 and RILP, which mediate the association between organelles and dynein in mammalian cells, were knocked down. These results indicate that minus end-directed transport of intracellular organelles along the microtubules is required for centrosome centration in C. elegans embryos. On the basis of this finding, we propose a model in which the reaction forces of organelle transport generated along microtubules act as a driving force that pulls the centrosomes toward the cell center. This is the first model, to our knowledge, providing a mechanical basis for cytoplasmic pulling force for centrosome centration. PMID:21173218

  12. Regulation of embryonic cell adhesion by the cadherin cytoplasmic domain.

    Science.gov (United States)

    Kintner, C

    1992-04-17

    Differential adhesion between embryonic cells has been proposed to be mediated by a family of closely related glycoproteins called the cadherins. The cadherins mediate adhesion in part through an interaction between the cadherin cytoplasmic domain and intracellular proteins, called the catenins. To determine whether these interactions could regulate cadherin function in embryos, a form of N-cadherin was generated that lacks an extracellular domain. Expression of this mutant in Xenopus embryos causes a dramatic inhibition of cell adhesion. Analysis of the mutant phenotype shows that at least two regions of the N-cadherin cytoplasmic domain can inhibit adhesion and that the mutant cadherin can inhibit catenin binding to E-cadherin. These results suggest that cadherin-mediated adhesion can be regulated by cytoplasmic interactions and that this regulation may contribute to morphogenesis when emerging tissues coexpress several cadherin types.

  13. Evolutionary conservation of sequence elements controlling cytoplasmic polyadenylylation.

    Science.gov (United States)

    Verrotti, A C; Thompson, S R; Wreden, C; Strickland, S; Wickens, M

    1996-08-20

    Cytoplasmic polyadenylylation is an evolutionarily conserved mechanism involved in the translational activation of a set of maternal messenger RNAs (mRNAs) during early development. In this report, we show by interspecies injections that Xenopus and mouse use the same regulatory sequences to control cytoplasmic poly(A) addition during meiotic maturation. Similarly, Xenopus and Drosophila embryos exploit functionally conserved signals to regulate polyadenylylation during early post-fertilization development. These experiments demonstrate that the sequence elements that govern cytoplasmic polyadenylylation, and hence one form of translational activation, function across species. We infer that the requisite regulatory sequence elements, and likely the trans-acting components with which they interact, have been conserved since the divergence of vertebrates and arthropods.

  14. Cytoplasmic RNA: a case of the tail wagging the dog.

    Science.gov (United States)

    Norbury, Chris J

    2013-10-01

    The addition of poly(A) tails to eukaryotic nuclear mRNAs promotes their stability, export to the cytoplasm and translation. Subsequently, the balance between exonucleolytic deadenylation and selective re-establishment of translation-competent poly(A) tails by cytoplasmic poly(A) polymerases is essential for the appropriate regulation of gene expression from oocytes to neurons. In recent years, surprising roles for cytoplasmic poly(A) polymerase-related enzymes that add uridylyl, rather than adenylyl, residues to RNA 3' ends have also emerged. These terminal uridylyl transferases promote the turnover of certain mRNAs but also modify microRNAs, their precursors and other small RNAs to modulate their stability or biological functions.

  15. Bidirectional transmembrane signaling by cytoplasmic domain separation in integrins.

    Science.gov (United States)

    Kim, Minsoo; Carman, Christopher V; Springer, Timothy A

    2003-09-19

    Although critical for development, immunity, wound healing, and metastasis, integrins represent one of the few classes of plasma membrane receptors for which the basic signaling mechanism remains a mystery. We investigated cytoplasmic conformational changes in the integrin LFA-1 (alphaLbeta2) in living cells by measuring fluorescence resonance energy transfer between cyan fluorescent protein-fused and yellow fluorescent protein-fused alphaL and beta2 cytoplasmic domains. In the resting state these domains were close to each other, but underwent significant spatial separation upon either intracellular activation of integrin adhesiveness (inside-out signaling) or ligand binding (outside-in signaling). Thus, bidirectional integrin signaling is accomplished by coupling extracellular conformational changes to an unclasping and separation of the alpha and beta cytoplasmic domains, a distinctive mechanism for transmitting information across the plasma membrane.

  16. Colicin S8 export: extracellular and cytoplasmic colicin are different.

    Science.gov (United States)

    Garcia Diaz, Maria-Elena; Concepción Curbelo, Juan Luis

    2003-12-01

    The properties of colicin S8 are different for the cytoplasmic, periplasmic and extracellular protein. Interactions with its specific receptors reflect this. Active cell extracts separate into a non-anionic along with an anionic fraction by DEAE-Sephacell chromatography. Previously, we have purified cell-associated colicin S8 as an aggregation of highly related polypeptides; cytoplasmic colicin S8 seems to be post-translationally processed into an aggregation of polypeptides of molecular mass ranging from 45,000 Da to 60,000 Da. We suggest that a conformational change to colicin S8 may occur related to the export process.

  17. Doppler OCT imaging of cytoplasm shuttle flow in Physarum polycephalum.

    Science.gov (United States)

    Bykov, Alexander V; Priezzhev, Alexander V; Lauri, Janne; Myllylä, Risto

    2009-09-01

    The Doppler optical coherence tomography technique was applied to image the oscillatory dynamics of protoplasm in the strands of the plasmodium of slime mould Physarum polycephalum. Radial contractions of the gel-like walls of the strands and the velocity distributions in the sol-like endoplasm streaming along the plasmodial strands are imaged. The motility inhibitor effect of carbon dioxide on the cytoplasm shuttle flow and strand-wall contraction is shown. The optical attenuation coefficient of cytoplasm is estimated. 2009 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim

  18. Methods and Algorithm Research for Motor Vehicle Loading and Transportation Route Optimizing%汽车整车配载与运输路线优化方案及算法研究

    Institute of Scientific and Technical Information of China (English)

    张磊; 袁建清; 郑磊

    2011-01-01

    对于运输车辆的调度与运输路线优化问题,借鉴成熟启发式算法的思想,将汽车整车的合理装载和运输路线优化问题结合到一起考虑,确定整车配载和运输路线优化模型并给出模型求解算法,设计出一个有效的求解方案,即把运输任务进行分解,对满载运输采用经典的Dijkstra算法;对于非满载运输,借鉴改进的C-W节约算法的基本思想等.实验表明,此方案及算法对于编制汽车整车运输计划、求解整车配板与运输车辆路线问题达到了比较理想的效果.%For the scheduling of transport vehicle and the optimizing of transportation mute,draw on mature elicitation method, which combines the motor vehicle loading problem and the optimization of transport routes, and work out an effective solution,which decomposes transportation tasks.It adopts classical Dijkstra algorithm for the transportation of full-load.Draw on improved C-W saving algorithm for non-full load transportation.The experiment finds that the proposal and the algorithm achieve the ideal effect for establishing motor vehicle transportation plan and solving vehicle matching board and the transportation route of vehicle problem.

  19. Protein transport into the human endoplasmic reticulum

    NARCIS (Netherlands)

    Dudek, Johanna; Pfeffer, Stefan; Lee, Po-Hsien; Jung, Martin; Cavalié, Adolfo; Helms, Volkhard; Förster, Friedrich; Zimmermann, Richard

    2015-01-01

    Protein transport into the endoplasmic reticulum (ER) is essential for all eukaryotic cells and evolutionary related to protein transport into and across the cytoplasmic membrane of eubacteria and archaea. It is based on amino-terminal signal peptides in the precursor polypeptides plus various trans

  20. The transmission of cytoplasmic genes in Aspergillus nidulans.

    NARCIS (Netherlands)

    Coenen, A.

    1997-01-01

    IntroductionThis manuscript concerns the spread of selfish cytoplasmic genes in the fungus Aspergillus nidulans. A.nidulans is a common soil fungus that grows vegetatively by forming a network (mycelium) of hyphae and reproduces via sexual ascospores and asexual conidiospores. Cytop

  1. Optomechatronic System For Automated Intra Cytoplasmic Sperm Injection*

    Directory of Open Access Journals (Sweden)

    Shulev Assen

    2015-12-01

    Full Text Available This paper presents a complex optomechatronic system for In-Vitro Fertilization (IVF, offering almost complete automation of the Intra Cytoplasmic Sperm Injection (ICSI procedure. The compound parts and sub-systems, as well as some of the computer vision algorithms, are described below. System capabilities for ICSI have been demonstrated on infertile oocyte cells.

  2. The transmission of cytoplasmic genes in Aspergillus nidulans

    NARCIS (Netherlands)

    Coenen, A.

    1997-01-01


    Introduction

    This manuscript concerns the spread of selfish cytoplasmic genes in the fungus Aspergillus nidulans. A.nidulans is a common soil fungus that grows vegetatively by forming a network (mycelium) of hyphae and reproduces

  3. Endoplasmic-reticulum-mediated microtubule alignment governs cytoplasmic streaming.

    Science.gov (United States)

    Kimura, Kenji; Mamane, Alexandre; Sasaki, Tohru; Sato, Kohta; Takagi, Jun; Niwayama, Ritsuya; Hufnagel, Lars; Shimamoto, Yuta; Joanny, Jean-François; Uchida, Seiichi; Kimura, Akatsuki

    2017-04-01

    Cytoplasmic streaming refers to a collective movement of cytoplasm observed in many cell types. The mechanism of meiotic cytoplasmic streaming (MeiCS) in Caenorhabditis elegans zygotes is puzzling as the direction of the flow is not predefined by cell polarity and occasionally reverses. Here, we demonstrate that the endoplasmic reticulum (ER) network structure is required for the collective flow. Using a combination of RNAi, microscopy and image processing of C. elegans zygotes, we devise a theoretical model, which reproduces and predicts the emergence and reversal of the flow. We propose a positive-feedback mechanism, where a local flow generated along a microtubule is transmitted to neighbouring regions through the ER. This, in turn, aligns microtubules over a broader area to self-organize the collective flow. The proposed model could be applicable to various cytoplasmic streaming phenomena in the absence of predefined polarity. The increased mobility of cortical granules by MeiCS correlates with the efficient exocytosis of the granules to protect the zygotes from osmotic and mechanical stresses.

  4. Animal models of antineutrophil cytoplasm antibody-associated vasculitis.

    LENUS (Irish Health Repository)

    Salama, Alan D

    2012-01-01

    To provide an update on the experimental models that have been developed recapitulating clinical antineutrophil cytoplasm antibody (ANCA) associated vasculitis. The application of the models in the study of pathogenesis, and the therapeutic implications of this, are covered in the article by van Timmeren and Heeringa in this issue.

  5. Nuclear proteins hijacked by mammalian cytoplasmic plus strand RNA viruses

    Energy Technology Data Exchange (ETDEWEB)

    Lloyd, Richard E., E-mail: rlloyd@bcm.edu

    2015-05-15

    Plus strand RNA viruses that replicate in the cytoplasm face challenges in supporting the numerous biosynthetic functions required for replication and propagation. Most of these viruses are genetically simple and rely heavily on co-opting cellular proteins, particularly cellular RNA-binding proteins, into new roles for support of virus infection at the level of virus-specific translation, and building RNA replication complexes. In the course of infectious cycles many nuclear-cytoplasmic shuttling proteins of mostly nuclear distribution are detained in the cytoplasm by viruses and re-purposed for their own gain. Many mammalian viruses hijack a common group of the same factors. This review summarizes recent gains in our knowledge of how cytoplasmic RNA viruses use these co-opted host nuclear factors in new functional roles supporting virus translation and virus RNA replication and common themes employed between different virus groups. - Highlights: • Nuclear shuttling host proteins are commonly hijacked by RNA viruses to support replication. • A limited group of ubiquitous RNA binding proteins are commonly hijacked by a broad range of viruses. • Key virus proteins alter roles of RNA binding proteins in different stages of virus replication.

  6. Method for Confirming Cytoplasmic Delivery of RNA Aptamers

    Science.gov (United States)

    Dickey, David D; Dassie, Justin P; Giangrande, Paloma H

    2016-01-01

    RNA aptamers are single-stranded RNA oligos that represent a powerful emerging technology with potential for treating numerous diseases. More recently, cell-targeted RNA aptamers have been developed for delivering RNA interference (RNAi) modulators (siRNAs and miRNAs) to specific diseased cells (e.g., cancer cells or HIV infected cells) in vitro and in vivo. However, despite initial promising reports, the broad application of this aptamer delivery technology awaits the development of methods that can verify and confirm delivery of aptamers to the cytoplasm of target cells where the RNAi machinery resides. We recently developed a functional assay (RIP assay) to confirm cellular uptake and subsequent cytoplasmic release of an RNA aptamer which binds to a cell surface receptor expressed on prostate cancer cells (PSMA). To assess cytoplasmic delivery, the aptamer was chemically conjugated to saporin, a ribosome inactivating protein toxin that is toxic to cells only when delivered to the cytoplasm (where it inhibits the ribosome) by a cell-targeting ligand (e.g., aptamer). Here, we describe the chemistry used to conjugate the aptamer to saporin and discuss a gel-based method to verify conjugation efficiency. We also detail an in vitro functional assay to confirm that the aptamer retains function following conjugation to saporin and describe a cellular assay to measure aptamer-mediated saporin-induced cytotoxicity. PMID:26472453

  7. The Tale of Protein Lysine Acetylation in the Cytoplasm

    Directory of Open Access Journals (Sweden)

    Karin Sadoul

    2011-01-01

    Full Text Available Reversible posttranslational modification of internal lysines in many cellular or viral proteins is now emerging as part of critical signalling processes controlling a variety of cellular functions beyond chromatin and transcription. This paper aims at demonstrating the role of lysine acetylation in the cytoplasm driving and coordinating key events such as cytoskeleton dynamics, intracellular trafficking, vesicle fusion, metabolism, and stress response.

  8. [Sexual reproduction of insects is regulated by cytoplasmic bacteria].

    Science.gov (United States)

    Markov, A V; Zakharov, I A

    2005-01-01

    The effects have been considered that the intracellular symbiotic alpha-proteobacteria Wolbachia pipientis induces in its hosts, such as insects and other arthropods: cytoplasmic incompatibility upon mating, feminization, parthenogenesis, and androcide. Specific features of the bacterium genome and possible mechanisms of its action on hosts are discussed.

  9. Experimental Analysis of Cell Function Using Cytoplasmic Streaming

    Science.gov (United States)

    Janssens, Peter; Waldhuber, Megan

    2012-01-01

    This laboratory exercise investigates the phenomenon of cytoplasmic streaming in the fresh water alga "Nitella". Students use the fungal toxin cytochalasin D, an inhibitor of actin polymerization, to investigate the mechanism of streaming. Students use simple statistical methods to analyze their data. Typical student data are provided. (Contains 3…

  10. Serine phosphorylation of syndecan-2 proteoglycan cytoplasmic domain

    DEFF Research Database (Denmark)

    Oh, E S; Couchman, J R; Woods, A

    1997-01-01

    Protein kinase C (PKC) is involved in cell-matrix and cell-cell adhesion, and the cytoplasmic domain of syndecan-2 contains two serines (residues 197 and 198) which lie in a consensus sequence for phosphorylation by PKC. Other serine and threonine residues are present but not in a consensus seque...

  11. Stochastic inventory-transportation integrated optimization with time windows%带时间窗的随机库存—运输整合优化研究

    Institute of Scientific and Technical Information of China (English)

    段凤华; 何小年

    2012-01-01

    针对单配送中心—多客户配送系统,建立带时间窗约束的单周期随机需求库存—运输整合优化( ITIO)问题模型.运用禁忌搜索算法,求解无时间窗约束的算例,结果表明库存—运输整合优化策略在总成本和车辆数上都优于全选最佳和全选次优策略,证明ITIO问题的研究具有理论意义和实际价值.同时,与遗传算法求解结果的比较表明,禁忌搜索算法求解此类问题具有优势.求解引入时间窗约束的算例,结果显示既满足时限要求,又比其他两种策略节省了库存—运输总成本,使得本模型及其求解算法更贴近实际应用要求.%The model of single-cycle inventory-transportation integrated optimization(ITIO) with time windows was constructed for one-center & multi-client distribution system. The results of the example without time windows by tabu search algorithm show that TTTO is superior to best-select and suboptimal-select strategy on total cost and total number of vehicles used, and therefore prove the theoretical and practical values of ITIO. Meanwhile, a comparison with results by genetic algorithm shows that the tabu search algorithm has an advantage while solving this kind problem. Furthermore, the time windows was added into the ITIO and the problem was solved. The results obtained not only meet clients' time limits, but save the total cost of inventory-transportation compared with best -select and suboptimal-select strategy, which promotes the ITIO model and its algorithm to be more closely applicable.

  12. Building complexity: an in vitro study of cytoplasmic dynein with in vivo implications.

    Science.gov (United States)

    Mallik, Roop; Petrov, Dmitri; Lex, S A; King, S J; Gross, S P

    2005-12-06

    Cytoplasmic dynein is the molecular motor responsible for most retrograde microtubule-based vesicular transport. In vitro single-molecule experiments suggest that dynein function is not as robust as that of kinesin-1 or myosin-V because dynein moves only a limited distance (approximately 800 nm) before detaching and can exert a modest (approximately 1 pN) force. However, dynein-driven cargos in vivo move robustly over many microns and exert forces of multiple pN. To determine how to go from limited single-molecule function to robust in vivo transport, we began to build complexity in a controlled manner by using in vitro experiments. We show that a single cytoplasmic dynein motor frequently transitions into an off-pathway unproductive state that impairs net transport. Addition of a second (and/or third) dynein motor, so that cargos are moved by two (or three) motors rather than one, is sufficient to recover several properties of in vivo motion; such properties include long cargo travels, robust motion, and increased forces. Part of this improvement appears to arise from selective suppression of the unproductive state of dynein rather than from a fundamental change in dynein's mechanochemical cycle. Multiple dyneins working together suppress shortcomings of a single motor and generate robust motion under in vitro conditions. There appears to be no need for additional cofactors (e.g., dynactin) for this improvement. Because cargos are often driven by multiple dyneins in vivo, our results show that changing the number of dynein motors could allow modulation of dynein function from the mediocre single-dynein limit to robust in vivo-like dynein-driven motion.

  13. Mathematical model of optimizing the arrival of fire units with the use of information systems for monitoring transport logistics of Voronezh city

    Directory of Open Access Journals (Sweden)

    A. V. Kochegarov

    2016-01-01

    Full Text Available In recent years, the strong pace of construction is increasing in big cities. With their growth becomes a question of the deployment of firefighters and the number of fire stations. The most effective solution is the problem of finding the optimum route of fire departments, taking into account the information transport logistics systems within the city that will allow us to arrive at the scene at any time, regardless of the degree of congestion of city roads. Prompt arrival of fire units provides the most successful fire fighting. The main objective of the study is to develop a preliminary route and the route in case of unforeseen factors affecting the time fire engine arrived. To construct the routes used to develop actively in the current methods of machine learning artificial neural networks. To construct the optimal route requires a correct prediction of the future behavior of a complex system of urban traffic based on its past behavior. Within the framework of statistical machine learning theory considered the problem of classification and regression. The learning process is to select a classification or a regression function of a predetermined broad class of such functions. After determining the prediction scheme, it is necessary to evaluate the quality of its forecasts, which are measured not on the basis of observations, and on the basis of an improved stochastic process, the result of the construction of the prediction rules. The model is verified on the basis of data collected in real departures real fire brigades, which made it possible to obtain a minimum time of arrival of fire units.

  14. The antifungal eugenol perturbs dual aromatic and branched-chain amino acid permeases in the cytoplasmic membrane of yeast.

    Science.gov (United States)

    Darvishi, Emad; Omidi, Mansoor; Bushehri, Ali Akbar Shahnejat; Golshani, Ashkan; Smith, Myron L

    2013-01-01

    Eugenol is an aromatic component of clove oil that has therapeutic potential as an antifungal drug, although its mode of action and precise cellular target(s) remain ambiguous. To address this knowledge gap, a chemical-genetic profile analysis of eugenol was done using ∼4700 haploid Saccharomyces cerevisiae gene deletion mutants to reveal 21 deletion mutants with the greatest degree of susceptibility. Cellular roles of deleted genes in the most susceptible mutants indicate that the main targets for eugenol include pathways involved in biosynthesis and transport of aromatic and branched-chain amino acids. Follow-up analyses showed inhibitory effects of eugenol on amino acid permeases in the yeast cytoplasmic membrane. Furthermore, phenotypic suppression analysis revealed that eugenol interferes with two permeases, Tat1p and Gap1p, which are both involved in dual transport of aromatic and branched-chain amino acids through the yeast cytoplasmic membrane. Perturbation of cytoplasmic permeases represents a novel antifungal target and may explain previous observations that exposure to eugenol results in leakage of cell contents. Eugenol exposure may also contribute to amino acid starvation and thus holds promise as an anticancer therapeutic drug. Finally, this study provides further evidence of the usefulness of the yeast Gene Deletion Array approach in uncovering the mode of action of natural health products.

  15. Signaling from the cytoplasm to the nucleus in striatal medium-sized spiny neurons

    Directory of Open Access Journals (Sweden)

    Miriam eMatamales

    2011-07-01

    Full Text Available Striatal medium-sized spiny neurons (MSNs receive massive glutamate inputs from the cerebral cortex and thalamus and are a major target of dopamine projections. Interaction between glutamate and dopamine signaling is crucial for the control of movement and reward-driven learning, and its alterations are implicated in several neuropsychiatric disorders including Parkinson’s disease and drug addiction. Long-lasting forms of synaptic plasticity are thought to depend on transcription of gene products that alter the structure and/or function of neurons. Although multiple signal transduction pathways regulate transcription, little is known about signal transmission between the cytoplasm and the nucleus of striatal neurons and its regulation. Here we review the current knowledge of the signaling cascades that target the nucleus of MSNs, most of which are activated by cAMP and/or Ca2+. We outline the mechanisms by which signals originating at the plasma membrane and amplified in the cytoplasm are relayed to the nucleus, through the regulation of several protein kinases and phosphatases and transport through the nuclear pore. We also summarize the identified mechanisms of transcription regulation and chromatin remodeling in MSNs that appear to be important for behavioral adaptations, and discuss their relationships with epigenetic regulation.

  16. No influence of Indy on lifespan in Drosophila after correction for genetic and cytoplasmic background effects.

    Directory of Open Access Journals (Sweden)

    Janne M Toivonen

    2007-06-01

    Full Text Available To investigate whether alterations in mitochondrial metabolism affect longevity in Drosophila melanogaster, we studied lifespan in various single gene mutants, using inbred and outbred genetic backgrounds. As positive controls we included the two most intensively studied mutants of Indy, which encodes a Drosophila Krebs cycle intermediate transporter. It has been reported that flies heterozygous for these Indy mutations, which lie outside the coding region, show almost a doubling of lifespan. We report that only one of the two mutants lowers mRNA levels, implying that the lifespan extension observed is not attributable to the Indy mutations themselves. Moreover, neither Indy mutation extended lifespan in female flies in any genetic background tested. In the original genetic background, only the Indy mutation associated with altered RNA expression extended lifespan in male flies. However, this effect was abolished by backcrossing into standard outbred genetic backgrounds, and was associated with an unidentified locus on the X chromosome. The original Indy line with long-lived males is infected by the cytoplasmic symbiont Wolbachia, and the longevity of Indy males disappeared after tetracycline clearance of this endosymbiont. These findings underscore the critical importance of standardisation of genetic background and of cytoplasm in genetic studies of lifespan, and show that the lifespan extension previously claimed for Indy mutants was entirely attributable to confounding variation from these two sources. In addition, we saw no effects on lifespan of expression knockdown of the Indy orthologues nac-2 and nac-3 in the nematode Caenorhabditis elegans.

  17. Mechanodelivery of nanoparticles to the cytoplasm of living cells

    Science.gov (United States)

    Emerson, Nyssa T.; Hsia, Chih-Hao; Rafalska-Metcalf, Ilona U.; Yang, Haw

    2014-04-01

    Nanotechnology has opened up the opportunity to probe, sense, and manipulate the chemical environment of biological systems with an unprecedented level of spatiotemporal control. A major obstacle to the full realization of these novel technologies is the lack of a general, robust, and simple method for the delivery of arbitrary nanostructures to the cytoplasm of intact live cells. Here, we identify a new delivery modality, based on mechanical disruption of the plasma membrane, which efficiently mediates the delivery of nanoparticles to the cytoplasm of mammalian cells. We use two distinct execution modes, two adherent cell lines, and three sizes of semiconducting nanocrystals, or quantum dots, to demonstrate its applicability and effectiveness. As the underlying mechanism is purely physical, we anticipate that such ``mechanodelivery'' can be generalized to other modes of execution as well as to the cytoplasmic introduction of a structurally diverse array of functional nanomaterials.Nanotechnology has opened up the opportunity to probe, sense, and manipulate the chemical environment of biological systems with an unprecedented level of spatiotemporal control. A major obstacle to the full realization of these novel technologies is the lack of a general, robust, and simple method for the delivery of arbitrary nanostructures to the cytoplasm of intact live cells. Here, we identify a new delivery modality, based on mechanical disruption of the plasma membrane, which efficiently mediates the delivery of nanoparticles to the cytoplasm of mammalian cells. We use two distinct execution modes, two adherent cell lines, and three sizes of semiconducting nanocrystals, or quantum dots, to demonstrate its applicability and effectiveness. As the underlying mechanism is purely physical, we anticipate that such ``mechanodelivery'' can be generalized to other modes of execution as well as to the cytoplasmic introduction of a structurally diverse array of functional nanomaterials

  18. Multi-depot Emergency Vehicle Routing and Transportation Optimization with Fuzzy Variables%模糊环境下多出救点应急救援车辆路径与物资运输优化研究

    Institute of Scientific and Technical Information of China (English)

    汪传旭; 邓先明

    2011-01-01

    为研究灾害发生后应急救援车辆的运输路径和救援物资的运输问题,考虑受灾点对救援物资的需求量为模糊变量,将多出救点到多个受灾点的应急救援运输优化问题视为两阶段决策问题.第1阶段建立救援车辆的路径优化模型,实现运输时间最短;在满足第1阶段最优的情况下,第2阶段建立模糊线性规划模型,在运输成本最小前提下,确定出救点与受灾点之间的救援物资调运以及受灾点与受灾点之间救援物资的转运量.最后,利用具体算例来验证该模型的有效性.%In order to study the emergency vehicle routing and transportation problem in the post-disaster, the demand of the disaster spots for the rescue items is considered as a fuzzy variable, and the optimization problem of relief transportation from multiple supply spots to multiple disaster spots is regarded as a two-stage decision-making problem. In the first stage, the relief vehicle routing optimization model is developed to minimize transportation time; With optimal solution of the first stage, in the second stage, a fuzzy linear programming model is developed to determine the relief item transportation quantity between supply spots and disaster spots as well as among disaster spots, to achieve the transportation cost minimization. A numerical example is given to show the validity of proposed models.

  19. Optimal learning

    CERN Document Server

    Powell, Warren B

    2012-01-01

    Learn the science of collecting information to make effective decisions Everyday decisions are made without the benefit of accurate information. Optimal Learning develops the needed principles for gathering information to make decisions, especially when collecting information is time-consuming and expensive. Designed for readers with an elementary background in probability and statistics, the book presents effective and practical policies illustrated in a wide range of applications, from energy, homeland security, and transportation to engineering, health, and business. This book covers the

  20. Imaging of calcium dynamics in pollen tube cytoplasm.

    Science.gov (United States)

    Barberini, María Laura; Muschietti, Jorge

    2015-01-01

    Cytoplasmic calcium [(Ca(2+))cyt] is a central component of cellular signal transduction pathways. In plants, many external and internal stimuli transiently elevate (Ca(2+))cyt, initiating downstream responses that control different features of plant development. In pollen tubes the establishment of an oscillatory gradient of calcium at the tip is essential for polarized growth. Disruption of the cytosolic Ca(2+) gradient by chelators or channel blockers inhibits pollen tube growth. To quantify the physiological role of (Ca(2+))cyt in cellular systems, genetically encoded Ca(2+) indicators such as Yellow Cameleons (YCs) have been developed. The Cameleons are based on a fluorescence resonance energy transfer (FRET) process. Here, we describe a method for imaging cytoplasmic Ca(2+) dynamics in growing pollen tubes that express the fluorescent calcium indicator Yellow Cameleon 3.6 (YC 3.6), using laser-scanning confocal microscopy.

  1. Genetic analysis of the cytoplasmic dynein subunit families.

    Directory of Open Access Journals (Sweden)

    K Kevin Pfister

    2006-01-01

    Full Text Available Cytoplasmic dyneins, the principal microtubule minus-end-directed motor proteins of the cell, are involved in many essential cellular processes. The major form of this enzyme is a complex of at least six protein subunits, and in mammals all but one of the subunits are encoded by at least two genes. Here we review current knowledge concerning the subunits, their interactions, and their functional roles as derived from biochemical and genetic analyses. We also carried out extensive database searches to look for new genes and to clarify anomalies in the databases. Our analysis documents evolutionary relationships among the dynein subunits of mammals and other model organisms, and sheds new light on the role of this diverse group of proteins, highlighting the existence of two cytoplasmic dynein complexes with distinct cellular roles.

  2. Cytoplasmic streaming in plant cells: the role of wall slip.

    Science.gov (United States)

    Wolff, K; Marenduzzo, D; Cates, M E

    2012-06-01

    We present a computer simulation study, via lattice Boltzmann simulations, of a microscopic model for cytoplasmic streaming in algal cells such as those of Chara corallina. We modelled myosin motors tracking along actin lanes as spheres undergoing directed motion along fixed lines. The sphere dimension takes into account the fact that motors drag vesicles or other organelles, and, unlike previous work, we model the boundary close to which the motors move as walls with a finite slip layer. By using realistic parameter values for actin lane and myosin density, as well as for endoplasmic and vacuole viscosity and the slip layer close to the wall, we find that this simplified view, which does not rely on any coupling between motors, cytoplasm and vacuole other than that provided by viscous Stokes flow, is enough to account for the observed magnitude of streaming velocities in intracellular fluid in living plant cells.

  3. CD248 facilitates tumor growth via its cytoplasmic domain

    Directory of Open Access Journals (Sweden)

    Janssens Tom

    2011-05-01

    Full Text Available Abstract Background Stromal fibroblasts participate in the development of a permissive environment for tumor growth, yet molecular pathways to therapeutically target fibroblasts are poorly defined. CD248, also known as endosialin or tumor endothelial marker 1 (TEM1, is a transmembrane glycoprotein expressed on activated fibroblasts. We recently showed that the cytoplasmic domain of CD248 is important in facilitating an inflammatory response in a mouse model of arthritis. Others have reported that CD248 gene inactivation in mice results in dampened tumor growth. We hypothesized that the conserved cytoplasmic domain of CD248 is important in regulating tumor growth. Methods Mice lacking the cytoplasmic domain of CD248 (CD248CyD/CyD were generated and evaluated in tumor models, comparing the findings with wild-type mice (CD248WT/WT. Results As compared to the response in CD248WT/WT mice, growth of T241 fibrosarcomas and Lewis lung carcinomas was significantly reduced in CD248CyD/CyD mice. Tumor size was similar to that seen with CD248-deficient mice. Conditioned media from CD248CyD/CyD fibroblasts were less effective at supporting T241 fibrosarcoma cell survival. In addition to our previous observation of reduced release of activated matrix metalloproteinase (MMP-9, CD248CyD/CyD fibroblasts also had impaired PDGF-BB-induced migration and expressed higher transcripts of tumor suppressor factors, transgelin (SM22α, Hes and Hey1. Conclusions The multiple pathways regulated by the cytoplasmic domain of CD248 highlight its potential as a therapeutic target to treat cancer.

  4. Cell surface expression of glycosylated, nonglycosylated, and truncated forms of a cytoplasmic protein pyruvate kinase.

    Science.gov (United States)

    Hiebert, S W; Lamb, R A

    1988-09-01

    The soluble cytoplasmic protein pyruvate kinase (PK) has been expressed at the cell surface in a membrane-anchored form (APK). The hybrid protein contains the NH2-terminal signal/anchor domain of a class II integral membrane protein (hemagglutinin/neuraminidase, of the paramyxovirus SV5) fused to the PK NH2 terminus. APK contains a cryptic site that is used for N-linked glycosylation but elimination of this site by site-specific mutagenesis does not prevent cell surface localization. Truncated forms of the APK molecule, with up to 80% of the PK region of APK removed, can also be expressed at the cell surface. These data suggest that neither the complete PK molecule nor its glycosylation are necessary for intracellular transport of PK to the cell surface, and it is possible that specific signals may not be needed in the ectodomain of this hybrid protein to specify cell surface localization.

  5. Superdiffusion dominates intracellular particle motion in the supercrowded cytoplasm of pathogenic Acanthamoeba castellanii

    Science.gov (United States)

    Reverey, Julia F.; Jeon, Jae-Hyung; Bao, Han; Leippe, Matthias; Metzler, Ralf; Selhuber-Unkel, Christine

    2015-06-01

    Acanthamoebae are free-living protists and human pathogens, whose cellular functions and pathogenicity strongly depend on the transport of intracellular vesicles and granules through the cytosol. Using high-speed live cell imaging in combination with single-particle tracking analysis, we show here that the motion of endogenous intracellular particles in the size range from a few hundred nanometers to several micrometers in Acanthamoeba castellanii is strongly superdiffusive and influenced by cell locomotion, cytoskeletal elements, and myosin II. We demonstrate that cell locomotion significantly contributes to intracellular particle motion, but is clearly not the only origin of superdiffusivity. By analyzing the contribution of microtubules, actin, and myosin II motors we show that myosin II is a major driving force of intracellular motion in A. castellanii. The cytoplasm of A. castellanii is supercrowded with intracellular vesicles and granules, such that significant intracellular motion can only be achieved by actively driven motion, while purely thermally driven diffusion is negligible.

  6. Cytoplasmic Dynein Is Required for the Spatial Organization of Protein Aggregates in Filamentous Fungi

    Directory of Open Access Journals (Sweden)

    Martin J. Egan

    2015-04-01

    Full Text Available Eukaryotes have evolved multiple strategies for maintaining cellular protein homeostasis. One such mechanism involves neutralization of deleterious protein aggregates via their defined spatial segregation. Here, using the molecular disaggregase Hsp104 as a marker for protein aggregation, we describe the spatial and temporal dynamics of protein aggregates in the filamentous fungus Aspergillus nidulans. Filamentous fungi, such as A. nidulans, are a diverse group of species of major health and economic importance and also serve as model systems for studying highly polarized eukaryotic cells. We find that microtubules promote the formation of Hsp104-positive aggregates, which coalesce into discrete subcellular structures in a process dependent on the microtubule-based motor cytoplasmic dynein. Finally, we find that impaired clearance of these inclusions negatively impacts retrograde trafficking of endosomes, a conventional dynein cargo, indicating that microtubule-based transport can be overwhelmed by chronic cellular stress.

  7. THE KINETICS OF CYTOPLASMIC GRANULE SECRETION IN NATURAL KILLER CYTOTOXICITY

    Institute of Scientific and Technical Information of China (English)

    龚伊红; R.R.Hcrberman; C.W.Reynolds

    1994-01-01

    Antisexum against purified cytoplasmic granules from rat LGL tumor cells, and protein A-gold inmmnoelec-tron microscopy were used to study the secretory events in lysis of YAC-1 tumor cells by rat LGL tumor cells or by isolated LGL from normal rats. After 30 min incubation of effector and target cells together, gold-labeled cyto-plasmic granules were often seen concentrated in the area of the LGL adjacent to the ~ YAC-1 Within 60min,the grantees were observed to move to the cell border near the conjugazed site. At this point, fine granules were fused with file cell membrane, and subsequently released file gold-labeled contents into the junction between the LGL and the target cell. Gold particles could be seen at the B-T interface, on the surface,or sometimes on the target cell surface.These data provide direct evidence for the hypothesis that under conditions of active cytotoxicity,natural killer cells secrete their cytoplasmic granule contents leading to the deposition of granule material on the target cell surface and the eventual lysis of the cell.

  8. Genetic studies on cytoplasmic male sterility in maize

    Energy Technology Data Exchange (ETDEWEB)

    Laughnan, J.R.

    1992-01-01

    Our research concerns the basic mechanisms of cytoplasmic male sterility (CMS) and fertility restoration in maize. The molecular determination of CMS is in the DNA of the mitochondria (mtDNA) but specific nuclear restorer-of-fertility (Rf) genes can overrule the male-sterile effect of the cytoplasm. Our approach to the study of the Rf genes is threefold. We are attempting to tag the cms-S Rf genes and the cms-T Rf2 gene with controlling elements (CEs). Since we have identified a number of spontaneous Rf genes for cms-S and have demonstrated that they are themselves transposable, we are also searching for cases in which an Rf gene is inserted into a wild-type gene. The other aspect of our research involves the nuclear control over the organization of the mitochondrial genome. We found that the changes in mtDNA organization upon cytoplasmic reversion to fertility were characteristic of the nuclear background in which the reversion event occurred. We have investigated whether these differences are a reflection of differences in the organization of the mtDNA genome before reversion.

  9. Mutant p53 protein localized in the cytoplasm inhibits autophagy.

    Science.gov (United States)

    Morselli, Eugenia; Tasdemir, Ezgi; Maiuri, Maria Chiara; Galluzzi, Lorenzo; Kepp, Oliver; Criollo, Alfredo; Vicencio, José Miguel; Soussi, Thierry; Kroemer, Guido

    2008-10-01

    The knockout, knockdown or chemical inhibition of p53 stimulates autophagy. Moreover, autophagy-inducing stimuli such as nutrient depletion, rapamycin or lithium cause the depletion of cytoplasmic p53, which in turn is required for the induction of autophagy. Here, we show that retransfection of p53(-/-) HCT 116 colon carcinoma cells with wild type p53 decreases autophagy down to baseline levels. Surprisingly, one third among a panel of 22 cancer-associated p53 single amino acid mutants also inhibited autophagy when transfected into p53(-/-) cells. Those variants of p53 that preferentially localize to the cytoplasm effectively repressed autophagy, whereas p53 mutants that display a prominently nuclear distribution failed to inhibit autophagy. The investigation of a series of deletion mutants revealed that removal of the DNA-binding domain from p53 fails to interfere with its role in the regulation of autophagy. Altogether, these results identify the cytoplasmic localization of p53 as the most important feature for p53-mediated autophagy inhibition. Moreover, the structural requirements for the two biological activities of extranuclear p53, namely induction of apoptosis and inhibition of autophagy, are manifestly different.

  10. Ionizing Radiation Induces HMGB1 Cytoplasmic Translocation and Extracellular Release

    Institute of Scientific and Technical Information of China (English)

    Lili Wang; Li He; Guoqiang Bao; Xin He; Saijun Fan; Haichao Wang

    2016-01-01

    Objective A nucleosomal protein,HMGBI,can be secreted by activated immune cells or passively released by dying cells,thereby amplifying rigorous inflammatory responses.In this study we aimed to test the possibility that radiation similarly induces cytoplasmic HMGB1 translocation and release.Methods Human skin fibroblast (GM0639) and bronchial epithelial (16HBE) cells and rats were exposed to X-ray radiation,and HMGB1 translocation and release were then assessed by immunocytochemistry and immunoassay,respectively.Results At a wide dose range(4.0-12.0 Gy),X-ray radiation induced a dramatic cytoplasmic HMGB1 translocation,and triggered a time-and dose-dependent HMGB1 release both in vitro and in vivo.The radiation-mediated HMGB1 release was also associated with noticeable chromosomal DNA damage and loss of cell viability.Conclusions Radiation induces HMGB1 cytoplasmic translocation and extracellular release through active secretion and passive leakage processes.

  11. Sequences determining the cytoplasmic localization of a chemoreceptor domain.

    Science.gov (United States)

    Seligman, L; Bailey, J; Manoil, C

    1995-01-01

    The Escherichia coli serine chemoreceptor (Tsr) is a protein with a simple topology consisting of two membrane-spanning sequences (TM1 and TM2) separating a large periplasmic domain from N-terminal and C-terminal cytoplasmic regions. We analyzed the contributions of several sequence elements to the cytoplasmic localization of the C-terminal domain by using chemoreceptor-alkaline phosphatase gene fusions. The principal findings were as follows. (i) The cytoplasmic localization of the C-terminal domain depended on TM2 but was quite tolerant of mutations partially deleting or introducing charged residues into the sequence. (ii) The basal level of C-terminal domain export was significantly higher in proteins with the wild-type periplasmic domain than in derivatives with a shortened periplasmic domain, suggesting that the large size of the wild-type domain promotes partial membrane misinsertion. (iii) The membrane insertion of deletion derivatives with a single spanning segment (TM1 or TM2) could be controlled by either an adjacent positively charged sequence or an adjacent amphipathic sequence. The results provide evidence that the generation of the Tsr membrane topology is an overdetermined process directed by an interplay of sequences promoting and opposing establishment of the normal structure. PMID:7730259

  12. Transport phenomena in the close-spaced sublimation deposition process for manufacture of large-area cadmium telluride photovoltaic panels: Modeling and optimization

    Science.gov (United States)

    Malhotra, C. P.

    With increasing national and global demand for energy and concerns about the effect of fossil fuels on global climate change, there is an increasing emphasis on the development and use of renewable sources of energy. Solar cells or photovoltaics constitute an important renewable energy technology but the major impediment to their widespread adoption has been their high initial cost. Although thin-film photovoltaic semiconductors such as cadmium sulfide-cadmium telluride (CdS/CdTe) can potentially be inexpensively manufactured using large area deposition techniques such as close-spaced sublimation (CSS), their low stability has prevented them from becoming an alternative to traditional polycrystalline silicon solar cells. A key factor affecting the stability of CdS/CdTe cells is the uniformity of deposition of the thin films. Currently no models exist that can relate the processing parameters in a CSS setup with the film deposition uniformity. Central to the development of these models is a fundamental understanding of the complex transport phenomena which constitute the deposition process which include coupled conduction and radiation as well as transition regime rarefied gas flow. This thesis is aimed at filling these knowledge gaps and thereby leading to the development of the relevant models. The specific process under consideration is the CSS setup developed by the Materials Engineering Group at the Colorado State University (CSU). Initially, a 3-D radiation-conduction model of a single processing station was developed using the commercial finite-element software ABAQUS and validated against data from steady-state experiments carried out at CSU. A simplified model was then optimized for maximizing the steady-state thermal uniformity within the substrate. It was inferred that contrary to traditional top and bottom infrared lamp heating, a lamp configuration that directs heat from the periphery of the sources towards the center results in the minimum temperature

  13. On a novel rate theory for transport in narrow ion channels and its application to the study of flux optimization via geometric effects.

    Science.gov (United States)

    Abad, E; Reingruber, J; Sansom, M S P

    2009-02-28

    We present a novel rate theory based on the notions of splitting probability and mean first passage time to describe single-ion conduction in narrow, effectively one-dimensional membrane channels. In contrast to traditional approaches such as transition state theory or Kramers theory, transitions between different conduction states in our model are governed by rates which depend on the full geometry of the potential of mean force (PMF) resulting from the superposition of an equilibrium free energy profile and a transmembrane potential induced by a nonequilibrium constraint. If a detailed theoretical PMF is available (e.g., from atomistic molecular dynamics simulations), it can be used to compute characteristic conductance curves in the framework of our model, thereby bridging the gap between the atomistic and the mesoscopic level of description. Explicit analytic solutions for the rates, the ion flux, and the associated electric current can be obtained by approximating the actual PMF by a piecewise linear potential. As illustrative examples, we consider both a theoretical and an experimental application of the model. The theoretical example is based on a hypothetical channel with a fully symmetric sawtooth equilibrium PMF. For this system, we explore how changes in the spatial extent of the binding sites affect the rate of transport when a linear voltage ramp is applied. Already for the case of a single binding site, we find that there is an optimum size of the site which maximizes the current through the channel provided that the applied voltage exceeds a threshold value given by the binding energy of the site. The above optimization effect is shown to arise from the complex interplay between the channel structure and the applied electric field, expressed by a nonlinear dependence of the rates with respect to the linear size of the binding site. In studying the properties of current-voltage curves, we find a double crossover between sublinear and superlinear

  14. Increases in cytoplasmic dopamine compromise the normal resistance of the nucleus accumbens to methamphetamine neurotoxicity.

    Science.gov (United States)

    Thomas, David M; Francescutti-Verbeem, Dina M; Kuhn, Donald M

    2009-06-01

    Methamphetamine (METH) is a neurotoxic drug of abuse that damages the dopamine (DA) neuronal system in a highly delimited manner. The brain structure most affected by METH is the caudate-putamen (CPu) where long-term DA depletion and microglial activation are most evident. Even damage within the CPu is remarkably heterogenous with lateral and ventral aspects showing the greatest deficits. The nucleus accumbens (NAc) is largely spared of the damage that accompanies binge METH intoxication. Increases in cytoplasmic DA produced by reserpine, L-DOPA or clorgyline prior to METH uncover damage in the NAc as evidenced by microglial activation and depletion of DA, tyrosine hydroxylase (TH), and the DA transporter. These effects do not occur in the NAc after treatment with METH alone. In contrast to the CPu where DA, TH, and DA transporter levels remain depleted chronically, DA nerve ending alterations in the NAc show a partial recovery over time. None of the treatments that enhance METH toxicity in the NAc and CPu lead to losses of TH protein or DA cell bodies in the substantia nigra or the ventral tegmentum. These data show that increases in cytoplasmic DA dramatically broaden the neurotoxic profile of METH to include brain structures not normally targeted for damage by METH alone. The resistance of the NAc to METH-induced neurotoxicity and its ability to recover reveal a fundamentally different neuroplasticity by comparison to the CPu. Recruitment of the NAc as a target of METH neurotoxicity by alterations in DA homeostasis is significant in light of the important roles played by this brain structure.

  15. Secretion of bacterial lipoproteins: through the cytoplasmic membrane, the periplasm and beyond.

    Science.gov (United States)

    Zückert, Wolfram R

    2014-08-01

    Bacterial lipoproteins are peripherally anchored membrane proteins that play a variety of roles in bacterial physiology and virulence in monoderm (single membrane-enveloped, e.g., gram-positive) and diderm (double membrane-enveloped, e.g., gram-negative) bacteria. After export of prolipoproteins through the cytoplasmic membrane, which occurs predominantly but not exclusively via the general secretory or Sec pathway, the proteins are lipid-modified at the cytoplasmic membrane in a multistep process that involves sequential modification of a cysteine residue and cleavage of the signal peptide by the signal II peptidase Lsp. In both monoderms and diderms, signal peptide processing is preceded by acylation with a diacylglycerol through preprolipoprotein diacylglycerol transferase (Lgt). In diderms but also some monoderms, lipoproteins are further modified with a third acyl chain through lipoprotein N-acyl transferase (Lnt). Fully modified lipoproteins that are destined to be anchored in the inner leaflet of the outer membrane (OM) are selected, transported and inserted by the Lol (lipoprotein outer membrane localization) pathway machinery, which consists of the inner-membrane (IM) ABC transporter-like LolCDE complex, the periplasmic LolA chaperone and the OM LolB lipoprotein receptor. Retention of lipoproteins in the cytoplasmic membrane results from Lol avoidance signals that were originally described as the "+2 rule". Surface localization of lipoproteins in diderms is rare in most bacteria, with the exception of several spirochetal species. Type 2 (T2SS) and type 5 (T5SS) secretion systems are involved in secretion of specific surface lipoproteins of γ-proteobacteria. In the model spirochete Borrelia burgdorferi, surface lipoprotein secretion does not follow established sorting rules, but remains dependent on N-terminal peptide sequences. Secretion through the outer membrane requires maintenance of lipoproteins in a translocation-competent unfolded conformation

  16. 城市生活垃圾收运线路优化模型研究%An optimized model for the municipal solid waste collection and transportation system

    Institute of Scientific and Technical Information of China (English)

    王芳芳; 刘伟; 秦侠

    2011-01-01

    在分析目前城市生活垃圾的产生及管理现状后,建立了垃圾收运线路的基本优化模型,并得出了模型实现方法,验证了模型的正确性.在模型的算法实现过程中,采用了目前被广泛应用于解决组合优化问题上的蚁群算法.通过分析算法的特点和相关参数对算法性能的影响,结合垃圾收运具体问题,对算法进行改进,得到了适合垃圾收运的优化算法.%This paper is aimed to present an optimized model for the municipal solid waste (MSW) collection and transportation. As is seen, with the economic growth and population expansion, more and more municipal solid wastes (MSW) are to be moved away and treated properly every day, which calls for the enhancement of more efficient Solid Waste Management (IMSWM) , including the work of all the sections and departments in charge of the waste disposal. As a part of MSW management system, MSW collection and transportation system plays an important role and take the charge of a substantial percentage of the total waste management and disposal. In order to heighten the efficiency of waste collection and transportation, it is of principal importance to choose proper routes to transfer and transport the solid waste to the nearest spots or sites available. Analyzing the current municipal solid waste generation and management status, we can find that it has remained a problem to choose the optimal route for the municipal garbage removal vehicles to choose. This paper, however, has been trying to answer the problem in the following steps: first of all, studying the status quo of the actual problem size; then, establishing an Optimization Model for the Waste Collection and Transportation starting from the basic line and deriving an effective implementation method to verify the appropriateness of the model so as to provide a brand-new solution to such waste collection and transportation route. A highly intensive comparative analysis of the optimal

  17. Molecular morphology and toxicity of cytoplasmic prion protein aggregates in neuronal and non‐neuronal cells

    National Research Council Canada - National Science Library

    Grenier, Catherine; Bissonnette, Cyntia; Volkov, Leonid; Roucou, Xavier

    2006-01-01

    .... The mechanism of cytoplasmic PrP neurotoxicity is not known. In this report, we determined the molecular morphology of cytoplasmic PrP aggregates by immunofluorescence and electron microscopy, in neuronal and non‐neuronal cells...

  18. Optimization study of solid waste collection and transportation system of Binhu New District in Hefei City%合肥市滨湖新区固体垃圾收运系统优化研究

    Institute of Scientific and Technical Information of China (English)

    江浔; 张睿; 徐得潜

    2016-01-01

    As a part of the integrated urban waste management system ,the waste collection and trans‐portation system is of importance .The cost of urban solid waste collection and transportation ac‐counts for a large proportion in the total waste treatment cost .It can effectively save cost to deal well with the waste collection and transportation problems .In this paper ,taking the waste collection and transportation system of Binhu New District in Hefei City as an example ,the optimization models of the vehicle collection and transportation route and transfer station location are established ,w hich can provide a decision‐making basis for actual waste collection and transportation operations .%作为城市垃圾综合管理系统的一个组成部分,垃圾收运系统占据着重要位置。城市固体垃圾收运费用在垃圾总处理费用中占有较大的比例,研究垃圾收运问题,能有效地节约成本。文章以合肥市滨湖新区垃圾收运系统为例,建立了车辆收运路线、转运站选址优化模型,为实际垃圾收运作业提供决策依据。

  19. Fiscal 1997 for the upgrading of the Asia/Pacific coal development. Survey of the optimization of the coal transportation system in Indonesia; 1997 nendo Asia Taiheiyo sekitan kaihatsu kodoka chosa. Indonesia ni okeru sekitan yuso system saitekika chosa

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1998-03-01

    The paper summarized the results of Phase 1 and Phase 2 surveys conducted based on `Agreement on the comprehensive survey of a coal transportation system in South Sumatra` concluded between NEDO and the Ministry of Mine and Energy in Indonesia. In addition to the data collection and site surveys made in Phase 1, conducted in Phase 2 were determination of sites for harbors, determination of a scenario on coal transportation from coal mines to harbors, optimization of the coal transportation system, social/economic assessment, and proposal on the optimum transportation system. The results of the simulation were as follows: It is the most advantageous to transport coal from coal deposit area to harbor by rail and from harbor to Paiton by barge weighed over 10,000 tons. Tanjung Api Api is the most advantageous as harbor. The production scale which is profitable became more than 15 million tons. The present coal price of PTBA is $25/t arriving Suralaya. The coal in this case is said to be 5500kcal/kg in quality, and the coal of the same quality to this is only profitable. 8 refs., 68 figs., 104 tabs.

  20. On Making Scientific and Reasonable Operating Campaign Troops for Air Transportation Plan Optimization%战役部队航空输送总方案编制优化研究

    Institute of Scientific and Technical Information of China (English)

    葛同民; 李庆辉; 徐通; 任云飞; 水忠明

    2012-01-01

    着眼未来战争特点,空中投送能力已成为衡量军队战斗力的重要指标,制订科学合理的战役部队航空输送总方案,是战役条件下组织多支部队顺利实施航空输送的有效保证。结合战役部队航空输送总方案的特点,建立战役部队航空输送总方案编制优化模型,并进行案例分析。%Looking forward to the future war characteristic, the strategic ability of air transportation has already been an important standard to measure the fighting capacity, and delivering campaign troops from strategic backside into strategic forward by plane will be an important subject of Chinese army's logistical modernization. Making scientific and reasonable operating campaign troops air transportation plan is the available guarantee of campaign troops air transportation. This dissertation analyzed the characteristic of operate campaign troops air transportation plan, established the organizing optimization model of operate campaign troops air transportation plan and made the instance analyzing.

  1. Using multi-channel level sets to measure the cytoplasmic localization of HCMV pUL97 in GFP-B-gal fusion constructs.

    Science.gov (United States)

    Held, Christian; Webel, Rike; Palmisano, Ralf; Hutterer, Corina; Marschall, Manfred; Wittenberg, Thomas

    2014-04-01

    Human cytomegalovirus UL97-encoded protein kinase (pUL97) phosphorylates cellular and viral proteins and is critical for viral replication. To quantify the efficiency of nuclear translocation and to elucidate the role of putative nuclear localization signal (NLS) elements, immunofluorescence analysis of different pUL97 expression constructs was performed. Since manual quantitation of respective expression levels lacks objectivity and reproducibility, and is time-consuming as well, a computer-based model is established. This model enables objective quantitation of the degree of cytoplasmic localization λ. To determine the degree of cytoplasmic localization of different pUL97-GFP-β-gal fusion proteins automatically, a multi-channel segmentation of the nucleus and cytoplasm of transfected HeLa cells is performed in DAPI and GFP micrographs. A watershed transform-based segmentation scheme is used for the segmentation of the cell nuclei. Subsequently, the cytoplasm is segmented using a fast marching level set method. Based on the segmentation of cell nuclei and cytoplasm, λ can be determined for each HeLa cell by quantitation of the ratio of average signal intensity outside and inside the nucleus. The degree of cytoplasmic localization of an individual construct is then determined by evaluating the average and standard deviation of λ for the corresponding HeLa cells. Evaluation demonstrates that nuclear transport of pUL97 is a multilayered mechanism resulting in different efficiencies of nuclear translocation between a small and a large isoform and objective quantitation of the cytoplasmic localization is possible with a high accuracy (96.7% and 94.3%). Copyright © 2013 Elsevier B.V. All rights reserved.

  2. Mutations in the ExbB Cytoplasmic Carboxy Terminus Prevent Energy-Dependent Interaction between the TonB and ExbD Periplasmic Domains▿

    Science.gov (United States)

    Jana, Bimal; Manning, Marta; Postle, Kathleen

    2011-01-01

    The TonB system of Gram-negative bacteria provides passage across the outer membrane (OM) diffusion barrier that otherwise limits access to large, scarce, or important nutrients. In Escherichia coli, the integral cytoplasmic membrane (CM) proteins TonB, ExbB, and ExbD couple the CM proton motive force (PMF) to active transport of iron-siderophore complexes and vitamin B12 across the OM through high-affinity transporters. ExbB is an integral CM protein with three transmembrane domains. The majority of ExbB occupies the cytoplasm. Here, the importance of the cytoplasmic ExbB carboxy terminus (residues 195 to 244) was evaluated by cysteine scanning mutagenesis. D211C and some of the substitutions nearest the carboxy terminus spontaneously formed disulfide cross-links, even though the cytoplasm is a reducing environment. ExbB N196C and D211C substitutions were converted to Ala substitutions to stabilize them. Only N196A, D211A, A228C, and G244C substitutions significantly decreased ExbB activity. With the exception of ExbB(G244C), all of the substituted forms were dominant. Like wild-type ExbB, they all formed a formaldehyde cross-linked tetramer, as well as a tetramer cross-linked to an unidentified protein(s). In addition, they could be formaldehyde cross-linked to ExbD and TonB. Taken together, the data suggested that they assembled normally. Three of four ExbB mutants were defective in supporting both the PMF-dependent formaldehyde cross-link between the periplasmic domains of TonB and ExbD and the proteinase K-resistant conformation of TonB. Thus, mutations in a cytoplasmic region of ExbB prevented a periplasmic event and constituted evidence for signal transduction from cytoplasm to periplasm in the TonB system. PMID:21840979

  3. Mutations in the ExbB cytoplasmic carboxy terminus prevent energy-dependent interaction between the TonB and ExbD periplasmic domains.

    Science.gov (United States)

    Jana, Bimal; Manning, Marta; Postle, Kathleen

    2011-10-01

    The TonB system of Gram-negative bacteria provides passage across the outer membrane (OM) diffusion barrier that otherwise limits access to large, scarce, or important nutrients. In Escherichia coli, the integral cytoplasmic membrane (CM) proteins TonB, ExbB, and ExbD couple the CM proton motive force (PMF) to active transport of iron-siderophore complexes and vitamin B(12) across the OM through high-affinity transporters. ExbB is an integral CM protein with three transmembrane domains. The majority of ExbB occupies the cytoplasm. Here, the importance of the cytoplasmic ExbB carboxy terminus (residues 195 to 244) was evaluated by cysteine scanning mutagenesis. D211C and some of the substitutions nearest the carboxy terminus spontaneously formed disulfide cross-links, even though the cytoplasm is a reducing environment. ExbB N196C and D211C substitutions were converted to Ala substitutions to stabilize them. Only N196A, D211A, A228C, and G244C substitutions significantly decreased ExbB activity. With the exception of ExbB(G244C), all of the substituted forms were dominant. Like wild-type ExbB, they all formed a formaldehyde cross-linked tetramer, as well as a tetramer cross-linked to an unidentified protein(s). In addition, they could be formaldehyde cross-linked to ExbD and TonB. Taken together, the data suggested that they assembled normally. Three of four ExbB mutants were defective in supporting both the PMF-dependent formaldehyde cross-link between the periplasmic domains of TonB and ExbD and the proteinase K-resistant conformation of TonB. Thus, mutations in a cytoplasmic region of ExbB prevented a periplasmic event and constituted evidence for signal transduction from cytoplasm to periplasm in the TonB system.

  4. DMPD: Negative regulation of cytoplasmic RNA-mediated antiviral signaling. [Dynamic Macrophage Pathway CSML Database

    Lifescience Database Archive (English)

    Full Text Available 18703349 Negative regulation of cytoplasmic RNA-mediated antiviral signaling. Komur...Show Negative regulation of cytoplasmic RNA-mediated antiviral signaling. PubmedID 18703349 Title Negative r...egulation of cytoplasmic RNA-mediated antiviral signaling. Authors Komuro A, Bamm

  5. The SPF27 homologue Num1 connects splicing and kinesin 1-dependent cytoplasmic trafficking in Ustilago maydis.

    Science.gov (United States)

    Kellner, Nikola; Heimel, Kai; Obhof, Theresa; Finkernagel, Florian; Kämper, Jörg

    2014-01-01

    The conserved NineTeen protein complex (NTC) is an integral subunit of the spliceosome and required for intron removal during pre-mRNA splicing. The complex associates with the spliceosome and participates in the regulation of conformational changes of core spliceosomal components, stabilizing RNA-RNA- as well as RNA-protein interactions. In addition, the NTC is involved in cell cycle checkpoint control, response to DNA damage, as well as formation and export of mRNP-particles. We have identified the Num1 protein as the homologue of SPF27, one of NTC core components, in the basidiomycetous fungus Ustilago maydis. Num1 is required for polarized growth of the fungal hyphae, and, in line with the described NTC functions, the num1 mutation affects the cell cycle and cell division. The num1 deletion influences splicing in U. maydis on a global scale, as RNA-Seq analysis revealed increased intron retention rates. Surprisingly, we identified in a screen for Num1 interacting proteins not only NTC core components as Prp19 and Cef1, but several proteins with putative functions during vesicle-mediated transport processes. Among others, Num1 interacts with the motor protein Kin1 in the cytoplasm. Similar phenotypes with respect to filamentous and polar growth, vacuolar morphology, as well as the motility of early endosomes corroborate the genetic interaction between Num1 and Kin1. Our data implicate a previously unidentified connection between a component of the splicing machinery and cytoplasmic transport processes. As the num1 deletion also affects cytoplasmic mRNA transport, the protein may constitute a novel functional interconnection between the two disparate processes of splicing and trafficking.

  6. The SPF27 homologue Num1 connects splicing and kinesin 1-dependent cytoplasmic trafficking in Ustilago maydis.

    Directory of Open Access Journals (Sweden)

    Nikola Kellner

    2014-01-01

    Full Text Available The conserved NineTeen protein complex (NTC is an integral subunit of the spliceosome and required for intron removal during pre-mRNA splicing. The complex associates with the spliceosome and participates in the regulation of conformational changes of core spliceosomal components, stabilizing RNA-RNA- as well as RNA-protein interactions. In addition, the NTC is involved in cell cycle checkpoint control, response to DNA damage, as well as formation and export of mRNP-particles. We have identified the Num1 protein as the homologue of SPF27, one of NTC core components, in the basidiomycetous fungus Ustilago maydis. Num1 is required for polarized growth of the fungal hyphae, and, in line with the described NTC functions, the num1 mutation affects the cell cycle and cell division. The num1 deletion influences splicing in U. maydis on a global scale, as RNA-Seq analysis revealed increased intron retention rates. Surprisingly, we identified in a screen for Num1 interacting proteins not only NTC core components as Prp19 and Cef1, but several proteins with putative functions during vesicle-mediated transport processes. Among others, Num1 interacts with the motor protein Kin1 in the cytoplasm. Similar phenotypes with respect to filamentous and polar growth, vacuolar morphology, as well as the motility of early endosomes corroborate the genetic interaction between Num1 and Kin1. Our data implicate a previously unidentified connection between a component of the splicing machinery and cytoplasmic transport processes. As the num1 deletion also affects cytoplasmic mRNA transport, the protein may constitute a novel functional interconnection between the two disparate processes of splicing and trafficking.

  7. Low cytoplasmic pH reduces ER-Golgi trafficking and induces disassembly of the Golgi apparatus.

    Science.gov (United States)

    Soonthornsit, Jeerawat; Yamaguchi, Yoko; Tamura, Daisuke; Ishida, Ryuichi; Nakakoji, Yoko; Osako, Shiho; Yamamoto, Akitsugu; Nakamura, Nobuhiro

    2014-11-01

    The Golgi apparatus was dramatically disassembled when cells were incubated in a low pH medium. The cis-Golgi disassembled quickly, extended tubules and spread to the periphery of cells within 30 min. In contrast, medial- and trans-Golgi were fragmented in significantly larger structures of smaller numbers at a slower rate and remained largely in structures distinct from the cis-Golgi. Electron microscopy revealed the complete disassembly of the Golgi stack in low pH treated cells. The effect of low pH was reversible; the Golgi apparatus reassembled to form a normal ribbon-like structure within 1-2h after the addition of a control medium. The anterograde ER to Golgi transport and retrograde Golgi to ER transport were both reduced under low pH. Phospholipase A2 inhibitors (ONO, BEL) effectively suppressed the Golgi disassembly, suggesting that the phospholipase A2 was involved in the Golgi disassembly. Over-expression of Rab1, 2, 30, 33 and 41 also suppressed the Golgi disassembly under low pH, suggesting that they have protective role against Golgi disassembly. Low pH treatment reduced cytoplasmic pH, but not the luminal pH of the Golgi apparatus, strongly suggesting that reduction of the cytoplasmic pH triggered the Golgi disassembly. Because a lower cytoplasmic pH is induced in physiological or pathological conditions, disassembly of the Golgi apparatus and reduction of vesicular transport through the Golgi apparatus may play important roles in cell physiology and pathology. Furthermore, our findings indicated that low pH treatment can serve as an important tool to analyze the molecular mechanisms that support the structure and function of the Golgi apparatus.

  8. Highway transportation route selection optimization based on improved genetic annealing algorithm%基于遗传模拟退火算法的大件公路运输路径选择优化

    Institute of Scientific and Technical Information of China (English)

    程博; 杨育; 刘爱军; 陈伟; 邢青松

    2013-01-01

    Aiming at the highway transportation route selection optimization problem, the minimum transportation costs was taken as the goal to construct the highway transportation route selection optimization model based on considerations of delivery time window, customer service time, overload punishment, vehicle load and traffic volume limits. The improved genetic simulated annealing algorithm was also proposed to optimize the problem. Based on the two-layer coding method which satisfied vehicle volume and carrying capacity, multiple initial populations were generated. The migration and sharing of outstanding individual were achieved by competing with each other among all populations, and eventually the optimal solution was found. The effectiveness of the improved algorithm to solve these kind of special transportation problems was verified through the simulation experiment, and compared with other algorithms, the method provided a new solution to highway transportation routing problem.%针对大件公路运输路径选择优化难题,以最小化运输成本为目标,在考虑带配送时间窗、客户服务时限、车辆超载惩罚、车辆载重限制、车辆容积限制的基础上,构建了大件公路运输路径选择优化模型,并提出改进遗传模拟退火算法对此类问题进行优化.该算法首先基于满足车辆容积和承载量的两层编码方式产生多个初始种群,然后各种群之间通过相互竞争实现优秀个体的迁移共享,最终搜索到最优解.最后,通过实例仿真验证了该算法解决此类特殊运输问题的有效性,并通过与其他算法进行比较,证明了该算法的先进性,为大件公路运输路径选择问题提供了新的解决思路.

  9. Optimized Model of Passenger Structure Based on Urban Transportation Sustainability%基于城市交通可持续性的客运结构优化模型

    Institute of Scientific and Technical Information of China (English)

    沈嘉曦; 王培恒

    2014-01-01

    Based on the social sustainability , economical sustainability and environmental sustainability , the optimized model of the urban passenger transportation structure is established by maximizing the social efficiency and minimizing the internal cost of transportation system and its environmental influence .In addition, the model is calculated by using the ideal point of the multiple plans .In the article, the city of Chengdu is used as an example to verify the practicability and correctness of the model and the optimized passenger structure reflects the sustainable development goal of the urban transportation .%基于社会可持续性、经济可持续性和环境可持续性3个方面的交通可持续性,以交通系统的社会效率最大化和交通系统内部成本以及环境影响最小化为约束,构建城市客运交通结构优化模型并进行优化,并利用多目标规划中的理想点法求解模型。以成都市为例,验证了模型的可行性与正确性,优化后的客运结构体现了城市可持续交通的发展目标。

  10. A Cytoplasmic Protein Ssl3829 Is Important for NDH-1 Hydrophilic Arm Assembly in Synechocystis sp. Strain PCC 6803.

    Science.gov (United States)

    Wang, Xiaozhuo; Gao, Fudan; Zhang, Jingsong; Zhao, Jiaohong; Ogawa, Teruo; Ma, Weimin

    2016-06-01

    Despite significant progress in clarifying the subunit compositions and functions of the multiple NDH-1 complexes in cyanobacteria, the assembly factors and their roles in assembling these NDH-1 complexes remain elusive. Two mutants sensitive to high light for growth and impaired in NDH-1-dependent cyclic electron transport around photosystem I were isolated from Synechocystis sp. strain PCC 6803 transformed with a transposon-tagged library. Both mutants were tagged in the ssl3829 gene encoding an unknown protein, which shares significant similarity with Arabidopsis (Arabidopsis thaliana) CHLORORESPIRATORY REDUCTION7. The ssl3829 product was localized in the cytoplasm and associates with an NDH-1 hydrophilic arm assembly intermediate (NAI) of about 300 kD (NAI300) and an NdhI maturation factor, Slr1097. Upon deletion of Ssl3829, the NAI300 complex was no longer visible on gels, thereby impeding the assembly of the NDH-1 hydrophilic arm. The deletion also abolished Slr1097 and consequently reduced the amount of mature NdhI in the cytoplasm, which repressed the dynamic assembly process of the NDH-1 hydrophilic arm because mature NdhI was essential to stabilize all functional NAIs. Therefore, Ssl3829 plays an important role in the assembly of the NDH-1 hydrophilic arm by accumulating the NAI300 complex and Slr1097 protein in the cytoplasm.

  11. Insulin-dependent cytoplasmic distribution of Rab4a in mouse adipocytes is inhibited by interleukin-6, -8, and -15.

    Science.gov (United States)

    Błaszczyk, Maciej; Gajewska, Małgorzata; Milewska, Marta; Grzelkowska-Kowalczyk, Katarzyna

    2017-04-01

    The purpose of the study was to examine the effect of interleukins, IL-6, IL-8, and IL-15, on insulin-mediated redistribution of Rab4a, an early endosome marker, in mouse 3T3-L1 adipocytes. The interleukins did not affect cell viability; however, cell number was slightly but significantly higher in cultures exposed to IL-8 and IL-15. IL-8 and IL-15 decreased lipid storage in adipocytes, whereas IL-6 had no effect. Rab4A showed cytoplasmic localization, and in control unstimulated adipocytes it was found primarily nearby nucleus, that was supported by cellular fluorescence distribution profile, and by calculated indices, that is, high percentage of near-nuclear area fluorescence and a low mean peripheral cytoplasmic fluorescence/mean near-nuclear fluorescence ratio. Insulin stimulation (100 nmol/l, 30 min) altered the cytoplasmic localization of Rab4a in control adipocytes, which was manifested by its redistribution towards plasma membrane. This effect of insulin was prevented in adipocytes exposed to IL-6, IL-8, or IL-15. We concluded that insulin-dependent Rab4a redistribution, probably reflecting stimulation of vesicle-mediated transport, is inhibited in adipocytes subjected to differentiation in the presence of IL-6, IL-8, or IL-15. Such alterations may be involved in the mechanisms contributing to development of insulin resistance associated with inflammation; however, further studies in this field are required. © 2017 International Federation for Cell Biology.

  12. TonB-dependent maltose transport by Caulobacter crescentus.

    Science.gov (United States)

    Lohmiller, S; Hantke, K; Patzer, S I; Braun, V

    2008-06-01

    We have shown previously that Caulobacter crescentus grows on maltodextrins which are actively transported across the outer membrane by the MalA protein. Evidence for energy-coupled transport was obtained by deletion of the exbB exbD genes which abolished transport. However, removal of the TonB protein, which together with the ExbB ExbD proteins is predicted to form an energy-coupling device between the cytoplasmic membrane and the outer membrane, left transport unaffected. Here we identify an additional tonB gene encoded by the cc2334a ORF, which when deleted abolished maltose transport. MalA contains a TonB box that reads EEVVIT and is predicted to interact with TonB. Replacement of valine number 15 in the TonB box by proline abolished maltose transport. Maltose was transported across the cytoplasmic membrane by the MalY protein (CC2283). Maltose transport was induced by maltose and repressed by the MalI protein (CC2284). In addition to MalA, MalY and MalI, the mal locus encodes two predicted cytoplasmic alpha-amylases (CC2285 and CC2286) and a periplasmic glucoamylase (CC2282). The TonB dependence together with the previously described ExbB ExbD dependence demonstrates energy-coupled maltose transport across the outer membrane. MalY is involved in maltose transport across the cytoplasmic membrane by a presumably ion-coupled mechanism.

  13. Cytoplasmic TRADD Confers a Worse Prognosis in Glioblastoma

    Directory of Open Access Journals (Sweden)

    Sharmistha Chakraborty

    2013-08-01

    Full Text Available Tumor necrosis factor receptor 1 (TNFR1-associated death domain protein (TRADD is an important adaptor in TNFR1 signaling and has an essential role in nuclear factor kappa-light-chain-enhancer of activated B cells (NF-κB activation and survival signaling. Increased expression of TRADD is sufficient to activate NF-κB. Recent studies have highlighted the importance of NF-κB activation as a key pathogenic mechanism in glioblastoma multiforme (GBM, the most common primary malignant brain tumor in adults.We examined the expression of TRADD by immunohistochemistry (IHC and find that TRADD is commonly expressed at high levels in GBM and is detected in both cytoplasmic and nuclear distribution. Cytoplasmic IHC TRADD scoring is significantly associated with worse progression-free survival (PFS both in univariate and multivariate analysis but is not associated with overall survival (n = 43 GBMs. PFS is a marker for responsiveness to treatment. We propose that TRADD-mediated NF-κB activation confers chemoresistance and thus a worse PFS in GBM. Consistent with the effect on PFS, silencing TRADD in glioma cells results in decreased NF-κB activity, decreased proliferation of cells, and increased sensitivity to temozolomide. TRADD expression is common in glioma-initiating cells. Importantly, silencing TRADD in GBM-initiating stem cell cultures results in decreased viability of stem cells, suggesting that TRADD may be required for maintenance of GBM stem cell populations. Thus, our study suggests that increased expression of cytoplasmic TRADD is both an important biomarker and a key driver of NF-κB activation in GBM and supports an oncogenic role for TRADD in GBM.

  14. Comparison of the contributions of the nuclear and cytoplasmic compartments to global gene expression in human cells

    Directory of Open Access Journals (Sweden)

    Lynch Ronald M

    2007-09-01

    steps in these pathways. Many miRNA precursors were also enriched in the nuclear samples, with significantly fewer being enriched in the cytoplasm. Studies of mRNA localization will help to clarify the roles RNA processing and transport play in the regulation of cellular function.

  15. Symmetrical infantile thalamic degeneration with focal cytoplasmic calcification.

    Science.gov (United States)

    Ambler, M; O'Neil, W

    1975-10-27

    Infantile thalamic degeneration is a rare clinico-pathological entity. Restricted location of the lesion and peculiar cytopathological changes serve to distinguish this disorder from other common encephalopathies. Optical and ultrastructural studies demonstrate cytoplasmic calcopherules in previously viable cells. According to current concepts of acute cellular reactions to injury and mechanism of intracellular calcification, the cytological changes cannot be attributed to either hypoxic ischemic cell change or dystrophic calcification. By analogy to other human and pathological material, the most likely basis for nondystrophic calcopherule formation is toxic or infectious injury with local synthesis, or autophagic or phagolysosomal degradation of cellular debris of specific chemical composition favoring calcium deposition.

  16. The Role of MUC1 Cytoplasmic Domain in Tumorigenesis

    Science.gov (United States)

    2005-05-01

    5 AD Award Number: DAMD17-02-1-0476 TITLE: The Role of MUCI Cytoplasmic Domain in Tumorigenesis PRINCIPAL INVESTIGATOR: Assah Al-Masri CONTRACTING ...The overall aim of the research is to develop a better understanding of the role of MUCI in breast cancer. Loss of Mucl (mouse homologue of MUC1...significant delay in tumor progression that is observed in the absence of Mucl . We suggest that the interaction of Mucl with c-Src, a key player in PyV MT

  17. Histone H2B-IFI16 Recognition of Nuclear Herpesviral Genome Induces Cytoplasmic Interferon-β Responses

    Science.gov (United States)

    Iqbal, Jawed; Ansari, Mairaj Ahmed; Kumar, Binod; Dutta, Dipanjan; Roy, Arunava; Chikoti, Leela; Pisano, Gina; Dutta, Sujoy; Veettil, Mohanan Valiya; Chandran, Bala

    2016-01-01

    transportation, and the association of STING with IFI16 and H2B during KSHV infection. Absence of H2B didn’t affect IFI16-ASC association and cytoplasmic distribution and thus demonstrating that IFI16-H2B complex is independent of IFI16-ASC-procaspase-1-inflammasome complex formed during infection. The H2B-IFI16-BRCA1 complex interacted with cGAS and STING in the cytoplasm leading to TBK1 and IRF3 phosphorylation, nuclear translocation of pIRF3 and IFN-β production. Silencing of H2B, cGAS and STING inhibited IFN-β induction but not IL-1β secretion, and cGAMP activity is significantly reduced by H2B and IFI16 knockdown during infection. Silencing of ASC inhibited IL-1β secretion but not IFN-β secretion during de novo KSHV and HSV-1 infection. These studies identify H2B as an innate nuclear sensor mediating a novel extra chromosomal function, and reveal that two IFI16 complexes mediate KSHV and HSV-1 genome recognition responses, with recognition by the IFI16-BRCA1-H2B complex resulting in IFN-β responses and recognition by IFI16-BRCA1 resulting in inflammasome responses. PMID:27764250

  18. On the Ramified Optimal Allocation Problem

    CERN Document Server

    Xia, Qinglan

    2011-01-01

    This paper proposes an optimal allocation problem with ramified transport technology in a spatial economy. Ramified transportation is used to model the transport economy of scale in group transportation observed widely in both nature and efficiently designed transport systems of branching structures. The ramified allocation problem aims at finding an optimal allocation plan as well as an associated optimal allocation path to minimize overall cost of transporting commodity from factories to households. This problem differentiates itself from existing ramified transportation literature in that the distribution of production among factories is not fixed but endogenously determined as observed in many allocation practices. It's shown that due to the transport economy of scale in ramified transportation, each optimal allocation plan corresponds equivalently to an optimal assignment map from households to factories. This optimal assignment map provides a natural partition of both households and allocation paths. We...

  19. Drug Transport Microdevice Mimicking an Idealized Nanoscale Bio-molecular Motor

    Institute of Scientific and Technical Information of China (English)

    Jae Hwan Lee; Ramana M. Pidaparti

    2011-01-01

    Molecular motors are nature's nano-devices and the essential agents of movement that are an integral part of many living organisms.The supramolecular motor,called Nuclear Pore Complex (NPC),controls the transport of all cellular material between the cytoplasm and the nucleus that occurs naturally in biological cells of many organisms.In order to understand the design characteristics of the NPC,we developed a microdevice for drug/fluidic transport mimicking the coarse-grained representation of the NPC geometry through computational fluid dynamic analysis and optimization.Specifically,the role of the central plug in active fluidic/particle transport and passive transport (without central plug) was investigated.Results of flow rate,pressure and velocity profiles obtained from the models indicate that the central plug plays a major role in transport through this biomolecular machine.The results of this investigation show that fluidic transport and flow passages are important factors in designing NPC based nano- and micro-devices for drug delivery.

  20. Discussion On Railway Logistics Optimization and Management to Reduce Railway Transportation Cost%降低铁路运输成本的铁路物流优化管理探讨

    Institute of Scientific and Technical Information of China (English)

    王建军

    2012-01-01

    In this paper, we first analyzed the status of the railway transportation resources in China and the development situation of railway logistics and, in view of the existing problems and taking advantage of the latest logistics management mode, proposed the optimization and management method aimed at reducing the transportation cost. Finally, we analyzed the influence factors o the cost competitivity of railway logistics.%首先分析了我国铁路运输资源状况和铁路物流现状,针对存在问题,结合最新的物流管理模式,提出具体的以降低成本为目的的创新铁路物流优化管理方法.最后分析了影响以铁路物流成本竞争力的因素.