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Sample records for intraflagellar transport particle

  1. Isolation of intraflagellar transport particle proteins from Chlamydomonas reinhardtii.

    PubMed

    Richey, Elizabeth; Qin, Hongmin

    2013-01-01

    Cilia, the hair-like protrusions found on most eukaryotic cells, were once considered vestigial organelles. The recent renaissance of research in cilia arose from the discoveries of intraflagellar transport (IFT) and the involvement of IFT particle proteins in human diseases. Many IFT particle proteins have since been identified, and research on IFT particle complexes and their protein components continues to provide insight into the mechanism of IFT and the etiology of ciliopathies. In this chapter, we describe the methods of isolating IFT particles from the flagella of Chlamydomonas reinhardtii. Two methods, sucrose density gradient fractionation and immunoprecipitation, are explained in detail. Troubleshooting information is presented to illustrate the critical steps of the procedure to ensure successful implementation of these methods in individual labs.

  2. Purification and Localization of Intraflagellar Transport Particles and Polypeptides.

    PubMed

    Sloboda, Roger D

    2016-01-01

    The growth and maintenance of almost all cilia and flagella are dependent on the proper functioning of the process of intraflagellar transport (IFT). This includes the primary cilia of most human cells that are in the Go phase of the cell cycle. The model system for the study of IFT is the flagella of the biflagellate green alga Chlamydomonas. It is in this organism that IFT was first discovered, and genetic data from a Chlamydomonas mutant first linked the process of IFT to polycystic kidney disease in humans. The information provided in this chapter addresses procedures to purify IFT particles from flagella and localize these particles, and their associated motor proteins, in flagella using light and electron microscopic approaches. PMID:26498782

  3. Dissecting the Sequential Assembly and Localization of Intraflagellar Transport Particle Complex B in Chlamydomonas

    PubMed Central

    Richey, Elizabeth A.; Qin, Hongmin

    2012-01-01

    Intraflagellar transport (IFT), the key mechanism for ciliogenesis, involves large protein particles moving bi-directionally along the entire ciliary length. IFT particles contain two large protein complexes, A and B, which are constructed with proteins in a core and several peripheral proteins. Prior studies have shown that in Chlamydomonas reinhardtii, IFT46, IFT52, and IFT88 directly interact with each other and are in a subcomplex of the IFT B core. However, ift46, bld1, and ift88 mutants differ in phenotype as ift46 mutants are able to form short flagella, while the other two lack flagella completely. In this study, we investigated the functional differences of these individual IFT proteins contributing to complex B assembly, stability, and basal body localization. We found that complex B is completely disrupted in bld1 mutant, indicating an essential role of IFT52 for complex B core assembly. Ift46 mutant cells are capable of assembling a relatively intact complex B, but such complex is highly unstable and prone to degradation. In contrast, in ift88 mutant cells the complex B core still assembles and remains stable, but the peripheral proteins no longer attach to the B core. Moreover, in ift88 mutant cells, while complex A and the anterograde IFT motor FLA10 are localized normally to the transition fibers, complex B proteins instead are accumulated at the proximal ends of the basal bodies. In addition, in bld2 mutant, the IFT complex B proteins still localize to the proximal ends of defective centrioles which completely lack transition fibers. Taken together, these results revealed a step-wise assembly process for complex B, and showed that the complex first localizes to the proximal end of the centrioles and then translocates onto the transition fibers via an IFT88-dependent mechanism. PMID:22900094

  4. Imaging intraflagellar transport in trypanosomes.

    PubMed

    Santi-Rocca, Julien; Chenouard, Nicolas; Fort, Cécile; Lagache, Thibault; Olivo-Marin, Jean-Christophe; Bastin, Philippe

    2015-01-01

    Trypanosoma brucei is a flagellated eukaryotic pathogen responsible for sleeping sickness in central Africa. Because of the presence of a long motile flagellum (>20 μm) and its amenity to genetic manipulation, it is becoming an attractive model to study the assembly and the functions of cilia and flagella. In recent years, several aspects have been investigated, especially intraflagellar transport (IFT) that has been exhaustively characterized at the light microscopy level. In this manuscript, we review various methods to express fluorescent fusion proteins and to record IFT in living trypanosomes in normal or mutant contexts. We present an approach for separating anterograde and retrograde IFT, hence facilitating quantification of train speed, frequency, and size. A statistical analysis to discriminate different subpopulations of IFT trains is also summarized. These methods have proven their efficiency for the study of IFT in trypanosomes and could be applied to any other organism.

  5. Single-particle imaging reveals intraflagellar transport–independent transport and accumulation of EB1 in Chlamydomonas flagella

    PubMed Central

    Harris, J. Aaron; Liu, Yi; Yang, Pinfen; Kner, Peter; Lechtreck, Karl F.

    2016-01-01

    The microtubule (MT) plus-end tracking protein EB1 is present at the tips of cilia and flagella; end-binding protein 1 (EB1) remains at the tip during flagellar shortening and in the absence of intraflagellar transport (IFT), the predominant protein transport system in flagella. To investigate how EB1 accumulates at the flagellar tip, we used in vivo imaging of fluorescent protein–tagged EB1 (EB1-FP) in Chlamydomonas reinhardtii. After photobleaching, the EB1 signal at the flagellar tip recovered within minutes, indicating an exchange with unbleached EB1 entering the flagella from the cell body. EB1 moved independent of IFT trains, and EB1-FP recovery did not require the IFT pathway. Single-particle imaging showed that EB1-FP is highly mobile along the flagellar shaft and displays a markedly reduced mobility near the flagellar tip. Individual EB1-FP particles dwelled for several seconds near the flagellar tip, suggesting the presence of stable EB1 binding sites. In simulations, the two distinct phases of EB1 mobility are sufficient to explain its accumulation at the tip. We propose that proteins uniformly distributed throughout the cytoplasm like EB1 accumulate locally by diffusion and capture; IFT, in contrast, might be required to transport proteins against cellular concentration gradients into or out of cilia. PMID:26631555

  6. Intraflagellar transport particle size scales inversely with flagellar length: revisiting the balance-point length control model

    PubMed Central

    Engel, Benjamin D.; Ludington, William B.

    2009-01-01

    The assembly and maintenance of eukaryotic flagella are regulated by intraflagellar transport (IFT), the bidirectional traffic of IFT particles (recently renamed IFT trains) within the flagellum. We previously proposed the balance-point length control model, which predicted that the frequency of train transport should decrease as a function of flagellar length, thus modulating the length-dependent flagellar assembly rate. However, this model was challenged by the differential interference contrast microscopy observation that IFT frequency is length independent. Using total internal reflection fluorescence microscopy to quantify protein traffic during the regeneration of Chlamydomonas reinhardtii flagella, we determined that anterograde IFT trains in short flagella are composed of more kinesin-associated protein and IFT27 proteins than trains in long flagella. This length-dependent remodeling of train size is consistent with the kinetics of flagellar regeneration and supports a revised balance-point model of flagellar length control in which the size of anterograde IFT trains tunes the rate of flagellar assembly. PMID:19805630

  7. Chlamydomonas Kinesin-II–dependent Intraflagellar Transport (IFT): IFT Particles Contain Proteins Required for Ciliary Assembly in Caenorhabditis elegans Sensory Neurons

    PubMed Central

    Cole, Douglas G.; Diener, Dennis R.; Himelblau, Amy L.; Beech, Peter L.; Fuster, Jason C.; Rosenbaum, Joel L.

    1998-01-01

    We previously described a kinesin-dependent movement of particles in the flagella of Chlamydomonas reinhardtii called intraflagellar transport (IFT) (Kozminski, K.G., K.A. Johnson, P. Forscher, and J.L. Rosenbaum. 1993. Proc. Natl. Acad. Sci. USA. 90:5519–5523). When IFT is inhibited by inactivation of a kinesin, FLA10, in the temperature-sensitive mutant, fla10, existing flagella resorb and new flagella cannot be assembled. We report here that: (a) the IFT-associated FLA10 protein is a subunit of a heterotrimeric kinesin; (b) IFT particles are composed of 15 polypeptides comprising two large complexes; (c) the FLA10 kinesin-II and IFT particle polypeptides, in addition to being found in flagella, are highly concentrated around the flagellar basal bodies; and, (d) mutations affecting homologs of two of the IFT particle polypeptides in Caenorhabditis elegans result in defects in the sensory cilia located on the dendritic processes of sensory neurons. In the accompanying report by Pazour, G.J., C.G. Wilkerson, and G.B. Witman (1998. J. Cell Biol. 141:979–992), a Chlamydomonas mutant (fla14) is described in which only the retrograde transport of IFT particles is disrupted, resulting in assembly-defective flagella filled with an excess of IFT particles. This microtubule- dependent transport process, IFT, defined by mutants in both the anterograde (fla10) and retrograde (fla14) transport of isolable particles, is probably essential for the maintenance and assembly of all eukaryotic motile flagella and nonmotile sensory cilia. PMID:9585417

  8. Intraflagellar transport (IFT) during assembly and disassembly of Chlamydomonas flagella.

    PubMed

    Dentler, William

    2005-08-15

    Intraflagellar transport (IFT) of particles along flagellar microtubules is required for the assembly and maintenance of eukaryotic flagella and cilia. In Chlamydomonas, anterograde and retrograde particles viewed by light microscopy average 0.12-microm and 0.06-microm diameter, respectively. Examination of IFT particle structure in growing flagella by electron microscopy revealed similar size aggregates composed of small particles linked to each other and to the membrane and microtubules. To determine the relationship between the number of particles and flagellar length, the rate and frequency of IFT particle movement was measured in nongrowing, growing, and shortening flagella. In all flagella, anterograde and retrograde IFT averaged 1.9 microm/s and 2.7 microm/s, respectively, but retrograde IFT was significantly slower in flagella shorter than 4 mum. The number of flagellar IFT particles was not fixed, but depended on flagellar length. Pauses in IFT particle entry into flagella suggest the presence of a periodic "gate" that permits up to 4 particles/s to enter a flagellum. PMID:16103230

  9. [Elongation of the axoneme and dynamics of intraflagellar transport].

    PubMed

    Fort, Cécile; Bastin, Philippe

    2014-11-01

    Cilia and flagella are essential organelles in most eukaryotes including human beings. In this review, we will discuss the mode of assembly of these complex organelles that depends on a dynamic process called intraflagellar transport or IFT. IFT delivers structural elements at the distal end of the cilium where assembly takes place, thereby allowing the growth of the organelle. We next discuss the different models for control of cilium length and their alterations in ciliopathies, genetic diseases associated to ciliary defects.

  10. The Role of Intraflagellar Transport in the Photoreceptor Sensory Cilium.

    PubMed

    Taub, Daniel G; Liu, Qin

    2016-01-01

    The photoreceptor is a complex specialized cell in which a major component responsible for visual transduction is the photoreceptor sensory cilium (PSC). Building and maintenance of the PSC requires the transport of large proteins along microtubules that extend from the inner segments to the outer segments. A key process, termed intraflagellar transport (IFT), has been recognized as an essential phenomenon for photoreceptor development and maintenance, and exciting new studies have highlighted its importance in retinal and cilia related diseases. This review focuses on the important roles of IFT players, including motor proteins, IFT proteins, and photoreceptor-specific cargos in photoreceptor sensory cilium. In addition, specific IFT components that are involved in inherited human diseases are discussed.

  11. Canonical and noncanonical intraflagellar transport regulates craniofacial skeletal development.

    PubMed

    Noda, Kazuo; Kitami, Megumi; Kitami, Kohei; Kaku, Masaru; Komatsu, Yoshihiro

    2016-05-10

    The primary cilium is a cellular organelle that coordinates signaling pathways critical for cell proliferation, differentiation, survival, and homeostasis. Intraflagellar transport (IFT) plays a pivotal role in assembling primary cilia. Disruption and/or dysfunction of IFT components can cause multiple diseases, including skeletal dysplasia. However, the mechanism by which IFT regulates skeletogenesis remains elusive. Here, we show that a neural crest-specific deletion of intraflagellar transport 20 (Ift20) in mice compromises ciliogenesis and intracellular transport of collagen, which leads to osteopenia in the facial region. Whereas platelet-derived growth factor receptor alpha (PDGFRα) was present on the surface of primary cilia in wild-type osteoblasts, disruption of Ift20 down-regulated PDGFRα production, which caused suppression of PDGF-Akt signaling, resulting in decreased osteogenic proliferation and increased cell death. Although osteogenic differentiation in cranial neural crest (CNC)-derived cells occurred normally in Ift20-mutant cells, the process of mineralization was severely attenuated due to delayed secretion of type I collagen. In control osteoblasts, procollagen was easily transported from the endoplasmic reticulum (ER) to the Golgi apparatus. By contrast, despite having similar levels of collagen type 1 alpha 1 (Col1a1) expression, Ift20 mutants did not secrete procollagen because of dysfunctional ER-to-Golgi trafficking. These data suggest that in the multipotent stem cells of CNCs, IFT20 is indispensable for regulating not only ciliogenesis but also collagen intracellular trafficking. Our study introduces a unique perspective on the canonical and noncanonical functions of IFT20 in craniofacial skeletal development. PMID:27118846

  12. Intraflagellar transport balances continuous turnover of outer doublet microtubules

    PubMed Central

    Marshall, Wallace F.; Rosenbaum, Joel L.

    2001-01-01

    A central question in cell biology is how cells determine the size of their organelles. Flagellar length control is a convenient system for studying organelle size regulation. Mechanistic models proposed for flagellar length regulation have been constrained by the assumption that flagella are static structures once they are assembled. However, recent work has shown that flagella are dynamic and are constantly turning over. We have determined that this turnover occurs at the flagellar tips, and that the assembly portion of the turnover is mediated by intraflagellar transport (IFT). Blocking IFT inhibits the incorporation of tubulin at the flagellar tips and causes the flagella to resorb. These results lead to a simple steady-state model for flagellar length regulation by which a balance of assembly and disassembly can effectively regulate flagellar length. PMID:11684707

  13. Hedgehog signalling in the mouse requires intraflagellar transport proteins.

    PubMed

    Huangfu, Danwei; Liu, Aimin; Rakeman, Andrew S; Murcia, Noel S; Niswander, Lee; Anderson, Kathryn V

    2003-11-01

    Intraflagellar transport (IFT) proteins were first identified as essential factors for the growth and maintenance of flagella in the single-celled alga Chlamydomonas reinhardtii. In a screen for embryonic patterning mutations induced by ethylnitrosourea, here we identify two mouse mutants, wimple (wim) and flexo (fxo), that lack ventral neural cell types and show other phenotypes characteristic of defects in Sonic hedgehog signalling. Both mutations disrupt IFT proteins: the wim mutation is an allele of the previously uncharacterized mouse homologue of IFT172; and fxo is a new hypomorphic allele of polaris, the mouse homologue of IFT88. Genetic analysis shows that Wim, Polaris and the IFT motor protein Kif3a are required for Hedgehog signalling at a step downstream of Patched1 (the Hedgehog receptor) and upstream of direct targets of Hedgehog signalling. Our data show that IFT machinery has an essential and vertebrate-specific role in Hedgehog signal transduction. PMID:14603322

  14. Intraflagellar Transport and Functional Analysis of Genes Required for Flagellum Formation in Trypanosomes

    PubMed Central

    Absalon, Sabrina; Blisnick, Thierry; Kohl, Linda; Toutirais, Géraldine; Doré, Gwénola; Julkowska, Daria; Tavenet, Arounie

    2008-01-01

    Intraflagellar transport (IFT) is the bidirectional movement of protein complexes required for cilia and flagella formation. We investigated IFT by analyzing nine conventional IFT genes and five novel putative IFT genes (PIFT) in Trypanosoma brucei that maintain its existing flagellum while assembling a new flagellum. Immunostaining against IFT172 or expression of tagged IFT20 or green fluorescent protein GFP::IFT52 revealed the presence of IFT proteins along the axoneme and at the basal body and probasal body regions of both old and new flagella. IFT particles were detected by electron microscopy and exhibited a strict localization to axonemal microtubules 3–4 and 7–8, suggesting the existence of specific IFT tracks. Rapid (>3 μm/s) bidirectional intraflagellar movement of GFP::IFT52 was observed in old and new flagella. RNA interference silencing demonstrated that all individual IFT and PIFT genes are essential for new flagellum construction but the old flagellum remained present. Inhibition of IFTB proteins completely blocked axoneme construction. Absence of IFTA proteins (IFT122 and IFT140) led to formation of short flagella filled with IFT172, indicative of defects in retrograde transport. Two PIFT proteins turned out to be required for retrograde transport and three for anterograde transport. Finally, flagellum membrane elongation continues despite the absence of axonemal microtubules in all IFT/PIFT mutant. PMID:18094047

  15. Electron microscopy of flagella, primary cilia, and intraflagellar transport in flat-embedded cells.

    PubMed

    Rogowski, Michaela; Scholz, Dirk; Geimer, Stefan

    2013-01-01

    Intraflagellar transport (IFT) is an evolutionarily highly conserved, microtubule-based, bidirectional transport system found in eukaryotic cilia/flagella and is indispensable for their assembly, maintenance, and sensory functions. Powered by two different motor complexes, linear arrays of protein particles, called IFT trains, are transported from the base to the tip of the cilium/flagellum and back, carrying axonemal precursors to the tip for assembly and turnover products back to the cell body for recycling. The dynamics of IFT can be visualized using various types of live-cell microscopy techniques, but for analyzing the ultrastructure of IFT trains, transmission electron microscopy is indispensable. The focus of this chapter is to describe the application of the flat embedding technique to Chlamydomonas reinhardtii and monolayers of mammalian culture cells. Such flat embeddings are well suited for the analysis of the ultrastructure of the IFT system by standard electron microscopy and electron tomography.

  16. Different Effects of Tetrahymena IFT172 Domains on Anterograde and Retrograde Intraflagellar Transport

    PubMed Central

    Tsao, Che-Chia

    2008-01-01

    Intraflagellar transport (IFT) particles are multiprotein complexes that move bidirectionally along the cilium/flagellum. The Tetrahymena IFT172 gene encodes a protein with an N-terminal WD domain (WDD) and a C-terminal repeat domain (RPD). Epitope-tagged Ift172p localized to the basal body and in cilia along the axoneme, and IFT172 knockout cells lost cilia and motility. Using serial deletion constructs to rescue the knockout cells, we found that neither the WDD nor the RPD alone is sufficient to assemble cilia. Ift172p containing only the WDD or the RPD failed to enter cilia. Constructs with a partial truncation of the RPD still rescued although cilia were assembled less efficiently, indicating that the WDD and a part of the RPD are sufficient for anterograde transport. Partial truncation of the RPD caused the accumulation of truncated Ift172p itself and of Ift88p at ciliary tips, suggesting that IFT turnaround or retrograde transport was affected. These results implicate different regions of Ift172p in different steps of the IFT process. PMID:18199688

  17. The ciliopathy-associated CPLANE proteins direct basal body recruitment of intraflagellar transport machinery.

    PubMed

    Toriyama, Michinori; Lee, Chanjae; Taylor, S Paige; Duran, Ivan; Cohn, Daniel H; Bruel, Ange-Line; Tabler, Jacqueline M; Drew, Kevin; Kelly, Marcus R; Kim, Sukyoung; Park, Tae Joo; Braun, Daniela A; Pierquin, Ghislaine; Biver, Armand; Wagner, Kerstin; Malfroot, Anne; Panigrahi, Inusha; Franco, Brunella; Al-Lami, Hadeel Adel; Yeung, Yvonne; Choi, Yeon Ja; Duffourd, Yannis; Faivre, Laurence; Rivière, Jean-Baptiste; Chen, Jiang; Liu, Karen J; Marcotte, Edward M; Hildebrandt, Friedhelm; Thauvin-Robinet, Christel; Krakow, Deborah; Jackson, Peter K; Wallingford, John B

    2016-06-01

    Cilia use microtubule-based intraflagellar transport (IFT) to organize intercellular signaling. Ciliopathies are a spectrum of human diseases resulting from defects in cilia structure or function. The mechanisms regulating the assembly of ciliary multiprotein complexes and the transport of these complexes to the base of cilia remain largely unknown. Combining proteomics, in vivo imaging and genetic analysis of proteins linked to planar cell polarity (Inturned, Fuzzy and Wdpcp), we identified and characterized a new genetic module, which we term CPLANE (ciliogenesis and planar polarity effector), and an extensive associated protein network. CPLANE proteins physically and functionally interact with the poorly understood ciliopathy-associated protein Jbts17 at basal bodies, where they act to recruit a specific subset of IFT-A proteins. In the absence of CPLANE, defective IFT-A particles enter the axoneme and IFT-B trafficking is severely perturbed. Accordingly, mutation of CPLANE genes elicits specific ciliopathy phenotypes in mouse models and is associated with ciliopathies in human patients. PMID:27158779

  18. Flagellar Length Control System: Testing a Simple Model Based on Intraflagellar Transport and Turnover

    PubMed Central

    Marshall, Wallace F.; Qin, Hongmin; Brenni, Mónica Rodrigo; Rosenbaum, Joel L.

    2005-01-01

    Flagellar length regulation provides a simple model system for addressing the general problem of organelle size control. Based on a systems-level analysis of flagellar dynamics, we have proposed a mechanism for flagellar length control in which length is set by the balance of continuous flagellar assembly and disassembly. The model proposes that the assembly rate is length dependent due to the inherent length dependence of intraflagellar transport, whereas disassembly is length independent, such that the two rates can only reach a balance point at a single length. In this report, we test this theoretical model by using three different measurements: 1) the quantity of intraflagellar transport machinery as a function of length, 2) the variation of flagellar length as a function of flagellar number, and 3) the rate of flagellar growth as a function of length. We find that the quantity of intraflagellar transport machinery is independent of length, that flagellar length is a decreasing function of flagellar number, and that flagellar growth rate in regenerating flagella depends on length and not on the time since regeneration began. These results are consistent with the balance-point model for length control. The three strategies used here are not limited to flagella and can in principle be adapted to probe size control systems for any organelle. PMID:15496456

  19. WD60/FAP163 is a dynein intermediate chain required for retrograde intraflagellar transport in cilia.

    PubMed

    Patel-King, Ramila S; Gilberti, Renée M; Hom, Erik F Y; King, Stephen M

    2013-09-01

    Retrograde intraflagellar transport (IFT) is required for assembly of cilia. We identify a Chlamydomonas flagellar protein (flagellar-associated protein 163 [FAP163]) as being closely related to the D1bIC(FAP133) intermediate chain (IC) of the dynein that powers this movement. Biochemical analysis revealed that FAP163 is present in the flagellar matrix and is actively trafficked by IFT. Furthermore, FAP163 copurified with D1bIC(FAP133) and the LC8 dynein light chain, indicating that it is an integral component of the retrograde IFT dynein. To assess the functional role of FAP163, we generated an RNA interference knockdown of the orthologous protein (WD60) in planaria. The Smed-wd60(RNAi) animals had a severe ciliary assembly defect that dramatically compromised whole-organism motility. Most cilia were present as short stubs that had accumulated large quantities of IFT particle-like material between the doublet microtubules and the membrane. The few remaining approximately full-length cilia had a chaotic beat with a frequency reduced from 24 to ∼10 Hz. Thus WD60/FAP163 is a dynein IC that is absolutely required for retrograde IFT and ciliary assembly.

  20. Subunit Interactions and Organization of the Chlamydomonas reinhardtii Intraflagellar Transport Complex A Proteins*

    PubMed Central

    Behal, Robert H.; Miller, Mark S.; Qin, Hongmin; Lucker, Ben F.; Jones, Alexis; Cole, Douglas G.

    2012-01-01

    Chlamydomonas reinhardtii intraflagellar transport (IFT) particles can be biochemically resolved into two smaller assemblies, complexes A and B, that contain up to six and 15 protein subunits, respectively. We provide here the proteomic and immunological analyses that verify the identity of all six Chlamydomonas A proteins. Using sucrose density gradient centrifugation and antibody pulldowns, we show that all six A subunits are associated in a 16 S complex in both the cell bodies and flagella. A significant fraction of the cell body IFT43, however, exhibits a much slower sedimentation of ∼2 S and is not associated with the IFT A complex. To identify interactions between the six A proteins, we combined exhaustive yeast-based two-hybrid analysis, heterologous recombinant protein expression in Escherichia coli, and analysis of the newly identified complex A mutants, ift121 and ift122. We show that IFT121 and IFT43 interact directly and provide evidence for additional interactions between IFT121 and IFT139, IFT121 and IFT122, IFT140 and IFT122, and IFT140 and IFT144. The mutant analysis further allows us to propose that a subset of complex A proteins, IFT144/140/122, can form a stable 12 S subcomplex that we refer to as the IFT A core. Based on these results, we propose a model for the spatial arrangement of the six IFT A components. PMID:22170070

  1. Intraflagellar transport is essential for mammalian spermiogenesis but is absent in mature sperm

    PubMed Central

    San Agustin, Jovenal T.; Pazour, Gregory J.; Witman, George B.

    2015-01-01

    Drosophila sperm are unusual in that they do not require the intraflagellar transport (IFT) system for assembly of their flagella. In the mouse, the IFT proteins are very abundant in testis, but we here show that mature sperm are completely devoid of them, making the importance of IFT to mammalian sperm development unclear. To address this question, we characterized spermiogenesis and fertility in the Ift88Tg737Rpw mouse. This mouse has a hypomorphic mutation in the gene encoding the IFT88 subunit of the IFT particle. This mutation is highly disruptive to ciliary assembly in other organs. Ift88−/− mice are completely sterile. They produce ∼350-fold fewer sperm than wild-type mice, and the remaining sperm completely lack or have very short flagella. The short flagella rarely have axonemes but assemble ectopic microtubules and outer dense fibers and accumulate improperly assembled fibrous sheath proteins. Thus IFT is essential for the formation but not the maintenance of mammalian sperm flagella. PMID:26424803

  2. Efficient live fluorescence imaging of intraflagellar transport in mammalian primary cilia

    PubMed Central

    Ishikawa, Hiroaki; Marshall, Wallace F.

    2016-01-01

    Intraflagellar transport (IFT) is a motile process critical for building most cilia, including those of mammalian cells. Defects in IFT lead to short or missing cilia, and in animals can cause defects in development, for example in hedgehog mediated signaling, as well as disease symptoms such as polycystic kidney disease or retinal degeneration. Understanding how IFT works is thus a high priority in ciliary biology. Imaging of living cells has played a key role in understanding the mechanism of IFT, and this is particularly the case in mammalian cells where biochemical analysis of IFT is extremely difficult, due to the difficulty of isolating cilia away from the rest of the cell. Imaging IFT in living mammalian cells requires solution to several problems: constructing cell lines that express fluorescent protein tagged IFT proteins, obtaining cell populations with a high degree of ciliation, confocal or TIRF imaging with sufficient time resolution and signal to noise ratio to observe the majority of IFT particles as they travel back and forth inside the cilium, and analyzing the image data to extract quantitative measurements of IFT. We describe optimized solutions to each of these technical challenges. Using the approaches described here, mammalian cultured cells become powerful platforms for quantitative analysis of IFT dynamics. PMID:25837392

  3. Total internal reflection fluorescence microscopy of intraflagellar transport in Tetrahymena thermophila.

    PubMed

    Jiang, Yu-Yang; Lechtreck, Karl; Gaertig, Jacek

    2015-01-01

    Live imaging has become a powerful tool in studies of ciliary proteins. Tetrahymena thermophila is an established ciliated model with well-developed genetic and biochemical approaches, but its large size, complex shape, and the large number of short and overlapping cilia, have made live imaging of ciliary proteins challenging. Here we describe a method that combines paralysis of cilia by nickel ions and total internal reflection microscopy for live imaging of fluorescent proteins inside cilia of Tetrahymena. Using this method, we quantitatively documented the intraflagellar transport in Tetrahymena.

  4. TCTEX1D2 mutations underlie Jeune asphyxiating thoracic dystrophy with impaired retrograde intraflagellar transport.

    PubMed

    Schmidts, Miriam; Hou, Yuqing; Cortés, Claudio R; Mans, Dorus A; Huber, Celine; Boldt, Karsten; Patel, Mitali; van Reeuwijk, Jeroen; Plaza, Jean-Marc; van Beersum, Sylvia E C; Yap, Zhi Min; Letteboer, Stef J F; Taylor, S Paige; Herridge, Warren; Johnson, Colin A; Scambler, Peter J; Ueffing, Marius; Kayserili, Hulya; Krakow, Deborah; King, Stephen M; Beales, Philip L; Al-Gazali, Lihadh; Wicking, Carol; Cormier-Daire, Valerie; Roepman, Ronald; Mitchison, Hannah M; Witman, George B

    2015-01-01

    The analysis of individuals with ciliary chondrodysplasias can shed light on sensitive mechanisms controlling ciliogenesis and cell signalling that are essential to embryonic development and survival. Here we identify TCTEX1D2 mutations causing Jeune asphyxiating thoracic dystrophy with partially penetrant inheritance. Loss of TCTEX1D2 impairs retrograde intraflagellar transport (IFT) in humans and the protist Chlamydomonas, accompanied by destabilization of the retrograde IFT dynein motor. We thus define TCTEX1D2 as an integral component of the evolutionarily conserved retrograde IFT machinery. In complex with several IFT dynein light chains, it is required for correct vertebrate skeletal formation but may be functionally redundant under certain conditions. PMID:26044572

  5. TCTEX1D2 mutations underlie Jeune asphyxiating thoracic dystrophy with impaired retrograde intraflagellar transport

    PubMed Central

    Schmidts, Miriam; Hou, Yuqing; Cortés, Claudio R.; Mans, Dorus A.; Huber, Celine; Boldt, Karsten; Patel, Mitali; van Reeuwijk, Jeroen; Plaza, Jean-Marc; van Beersum, Sylvia E. C.; Yap, Zhi Min; Letteboer, Stef J. F.; Taylor, S. Paige; Herridge, Warren; Johnson, Colin A.; Scambler, Peter J.; Ueffing, Marius; Kayserili, Hulya; Krakow, Deborah; King, Stephen M.; Beales, Philip L.; Al-Gazali, Lihadh; Wicking, Carol; Cormier-Daire, Valerie; Roepman, Ronald; Mitchison, Hannah M.; Witman, George B.; Al-Turki, Saeed; Anderson, Carl; Anney, Richard; Antony, Dinu; Asimit, Jennifer; Ayub, Mohammad; Barrett, Jeff; Barroso, Inês; Bentham, Jamie; Bhattacharya, Shoumo; Blackwood, Douglas; Bobrow, Martin; Bochukova, Elena; Bolton, Patrick; Boustred, Chris; Breen, Gerome; Brion, Marie-Jo; Brown, Andrew; Calissano, Mattia; Carss, Keren; Chatterjee, Krishna; Chen, Lu; Cirak, Sebhattin; Clapham, Peter; Clement, Gail; Coates, Guy; Collier, David; Cosgrove, Catherine; Cox, Tony; Craddock, Nick; Crooks, Lucy; Curran, Sarah; Daly, Allan; Danecek, Petr; Smith, George Davey; Day-Williams, Aaron; Day, Ian; Durbin, Richard; Edkins, Sarah; Ellis, Peter; Evans, David; Farooqi, I. Sadaf; Fatemifar, Ghazaleh; Fitzpatrick, David; Flicek, Paul; Floyd, Jamie; Foley, A. Reghan; Franklin, Chris; Futema, Marta; Gallagher, Louise; Gaunt, Tom; Geschwind, Daniel; Greenwood, Celia; Grozeva, Detelina; Guo, Xiaosen; Gurling, Hugh; Hart, Deborah; Hendricks, Audrey; Holmans, Peter; Huang, Jie; Humphries, Steve E.; Hurles, Matt; Hysi, Pirro; Jackson, David; Jamshidi, Yalda; Jewell, David; Chris, Joyce; Kaye, Jane; Keane, Thomas; Kemp, John; Kennedy, Karen; Kent, Alastair; Kolb-Kokocinski, Anja; Lachance, Genevieve; Langford, Cordelia; Lee, Irene; Li, Rui; Li, Yingrui; Ryan, Liu; Lönnqvist, Jouko; Lopes, Margarida; MacArthur, Daniel G.; Massimo, Mangino; Marchini, Jonathan; Maslen, John; McCarthy, Shane; McGuffin, Peter; McIntosh, Andrew; McKechanie, Andrew; McQuillin, Andrew; Memari, Yasin; Metrustry, Sarah; Min, Josine; Moayyeri, Alireza; Morris, James; Muddyman, Dawn; Muntoni, Francesco; Northstone, Kate; O'Donovan, Michael; O'Rahilly, Stephen; Onoufriadis, Alexandros; Oualkacha, Karim; Owen, Michael; Palotie, Aarno; Panoutsopoulou, Kalliope; Parker, Victoria; Parr, Jeremy; Paternoster, Lavinia; Paunio, Tiina; Payne, Felicity; Perry, John; Pietilainen, Olli; Plagnol, Vincent; Quail, Michael A.; Quaye, Lydia; Raymond, Lucy; Rehnström, Karola; Brent Richards, J.; Ring, Sue; Ritchie, Graham R S; Savage, David B.; Schoenmakers, Nadia; Semple, Robert K.; Serra, Eva; Shihab, Hashem; Shin, So-Youn; Skuse, David; Small, Kerrin; Smee, Carol; Soler, Artigas María; Soranzo, Nicole; Southam, Lorraine; Spector, Tim; St Pourcain, Beate; St. Clair, David; Stalker, Jim; Surdulescu, Gabriela; Suvisaari, Jaana; Tachmazidou, Ioanna; Tian, Jing; Timpson, Nic; Tobin, Martin; Valdes, Ana; van Kogelenberg, Margriet; Vijayarangakannan, Parthiban; Wain, Louise; Walter, Klaudia; Wang, Jun; Ward, Kirsten; Wheeler, Ellie; Whittall, Ros; Williams, Hywel; Williamson, Kathy; Wilson, Scott G.; Wong, Kim; Whyte, Tamieka; ChangJiang, Xu; Zeggini, Eleftheria; Zhang, Feng; Zheng, Hou-Feng

    2015-01-01

    The analysis of individuals with ciliary chondrodysplasias can shed light on sensitive mechanisms controlling ciliogenesis and cell signalling that are essential to embryonic development and survival. Here we identify TCTEX1D2 mutations causing Jeune asphyxiating thoracic dystrophy with partially penetrant inheritance. Loss of TCTEX1D2 impairs retrograde intraflagellar transport (IFT) in humans and the protist Chlamydomonas, accompanied by destabilization of the retrograde IFT dynein motor. We thus define TCTEX1D2 as an integral component of the evolutionarily conserved retrograde IFT machinery. In complex with several IFT dynein light chains, it is required for correct vertebrate skeletal formation but may be functionally redundant under certain conditions. PMID:26044572

  6. TTC26/DYF13 is an intraflagellar transport protein required for transport of motility-related proteins into flagella

    PubMed Central

    Ishikawa, Hiroaki; Ide, Takahiro; Yagi, Toshiki; Jiang, Xue; Hirono, Masafumi; Sasaki, Hiroyuki; Yanagisawa, Haruaki; Wemmer, Kimberly A; Stainier, Didier YR; Qin, Hongmin; Kamiya, Ritsu; Marshall, Wallace F

    2014-01-01

    Cilia/flagella are assembled and maintained by the process of intraflagellar transport (IFT), a highly conserved mechanism involving more than 20 IFT proteins. However, the functions of individual IFT proteins are mostly unclear. To help address this issue, we focused on a putative IFT protein TTC26/DYF13. Using live imaging and biochemical approaches we show that TTC26/DYF13 is an IFT complex B protein in mammalian cells and Chlamydomonas reinhardtii. Knockdown of TTC26/DYF13 in zebrafish embryos or mutation of TTC26/DYF13 in C. reinhardtii, produced short cilia with abnormal motility. Surprisingly, IFT particle assembly and speed were normal in dyf13 mutant flagella, unlike in other IFT complex B mutants. Proteomic and biochemical analyses indicated a particular set of proteins involved in motility was specifically depleted in the dyf13 mutant. These results support the concept that different IFT proteins are responsible for different cargo subsets, providing a possible explanation for the complexity of the IFT machinery. DOI: http://dx.doi.org/10.7554/eLife.01566.001 PMID:24596149

  7. Intraflagellar Transport/Hedgehog-Related Signaling Components Couple Sensory Cilium Morphology and Serotonin Biosynthesis in Caenorhabditis elegans

    PubMed Central

    Moussaif, Mustapha; Sze, Ji Ying

    2009-01-01

    Intraflagellar transport in cilia has been proposed as a crucial mediator of Hedgehog signal transduction during embryonic pattern formation in both vertebrates and invertebrates. Here, we show that the Hh receptor Patched-related factor DAF-6 and intraflagellar transport modulate serotonin production in Caenorhabditis elegans animals, by remodeling the architecture of dendritic cilia of a pair of ADF serotonergic chemosensory neurons. Wild-type animals under aversive environment drastically reduce DAF-6 expression in glia-like cells surrounding the cilia of chemosensory neurons, resulting in cilium structural remodeling and upregulation of the serotonin-biosynthesis enzyme tryptophan hydroxylase tph-1 in the ADF neurons. These cellular and molecular modifications are reversed when the environment improves. Mutants of daf-6 or intraflagellar transport constitutively upregulate tph-1 expression. Epistasis analyses indicate that DAF-6/intraflagellar transport and the OCR-2/OSM-9 TRPV channel act in concert, regulating two layers of activation of tph-1 in the ADF neurons. The TRPV signaling turns on tph-1 expression under favorable and aversive conditions, whereas inactivation of DAF-6 by stress results in further upregulation of tph-1 independently of OCR-2/OSM-9 activity. Behavioral analyses suggest that serotonin facilitates larval animals resuming development when the environment improves. Our study revealed the cilium structure of serotonergic neurons as a trigger of regulated serotonin production, and demonstrated that a Hedgehog-related signaling component is dynamically regulated by environment and underscores neuroplasticity of serotonergic neurons in C. elegans under stress and stress recovery. PMID:19339602

  8. Microtubule doublets are double-track railways for intraflagellar transport trains.

    PubMed

    Stepanek, Ludek; Pigino, Gaia

    2016-05-01

    The cilium is a large macromolecular machine that is vital for motility, signaling, and sensing in most eukaryotic cells. Its conserved core structure, the axoneme, contains nine microtubule doublets, each comprising a full A-microtubule and an incomplete B-microtubule. However, thus far, the function of this doublet geometry has not been understood. We developed a time-resolved correlative fluorescence and three-dimensional electron microscopy approach to investigate the dynamics of intraflagellar transport (IFT) trains, which carry ciliary building blocks along microtubules during the assembly and disassembly of the cilium. Using this method, we showed that each microtubule doublet is used as a bidirectional double-track railway: Anterograde IFT trains move along B-microtubules, and retrograde trains move along A-microtubules. Thus, the microtubule doublet geometry provides direction-specific rails to coordinate bidirectional transport of ciliary components. PMID:27151870

  9. Microtubule doublets are double-track railways for intraflagellar transport trains.

    PubMed

    Stepanek, Ludek; Pigino, Gaia

    2016-05-01

    The cilium is a large macromolecular machine that is vital for motility, signaling, and sensing in most eukaryotic cells. Its conserved core structure, the axoneme, contains nine microtubule doublets, each comprising a full A-microtubule and an incomplete B-microtubule. However, thus far, the function of this doublet geometry has not been understood. We developed a time-resolved correlative fluorescence and three-dimensional electron microscopy approach to investigate the dynamics of intraflagellar transport (IFT) trains, which carry ciliary building blocks along microtubules during the assembly and disassembly of the cilium. Using this method, we showed that each microtubule doublet is used as a bidirectional double-track railway: Anterograde IFT trains move along B-microtubules, and retrograde trains move along A-microtubules. Thus, the microtubule doublet geometry provides direction-specific rails to coordinate bidirectional transport of ciliary components.

  10. Function and regulation of primary cilia and intraflagellar transport proteins in the skeleton

    PubMed Central

    Yuan, Xue; Serra, Rosa A.; Yang, Shuying

    2014-01-01

    Primary cilia are microtubule-based organelles that project from the cell surface to enable transduction of various developmental signaling pathways. The process of intraflagellar transport (IFT) is crucial for the building and maintenance of primary cilia. Ciliary dysfunction has been found in a range of disorders called ciliopathies, some of which display severe skeletal dysplasias. In recent years, interest has grown in uncovering the function of primary cilia/IFT proteins in bone development, mechanotransduction, and cellular regulation. We summarize recent advances in understanding the function of cilia and IFT proteins in the regulation of cell differentiation in osteoblasts, osteocytes, chondrocytes, and mesenchymal stem cells (MSCs). We also discuss the mechanosensory function of cilia and IFT proteins in bone cells, cilia orientation, and other functions of cilia in chondrocytes. PMID:24961486

  11. Two classes of short intraflagellar transport train with different 3D structures are present in Chlamydomonas flagella.

    PubMed

    Vannuccini, Elisa; Paccagnini, Eugenio; Cantele, Francesca; Gentile, Mariangela; Dini, Daniele; Fino, Federica; Diener, Dennis; Mencarelli, Caterina; Lupetti, Pietro

    2016-05-15

    Intraflagellar transport (IFT) is responsible for the bidirectional trafficking of molecular components required for the elongation and maintenance of eukaryotic cilia and flagella. Cargo is transported by IFT 'trains', linear rows of multiprotein particles moved by molecular motors along the axonemal doublets. We have previously described two structurally distinct categories of 'long' and 'short' trains. Here, we analyse the relative number of these trains throughout flagellar regeneration and show that long trains are most abundant at the beginning of flagellar growth whereas short trains gradually increase in number as flagella elongate. These observations are incompatible with the previous hypothesis that short trains are derived solely from the reorganization of long trains at the flagellar tip. We demonstrate with electron tomography the existence of two distinct ultrastructural organizations for the short trains, we name these 'narrow' and 'wide', and provide the first 3D model of the narrow short trains. These trains are characterized by tri-lobed units, which repeat longitudinally every 16 nm and contact protofilament 7 of the B-tubule. Functional implications of the new structural evidence are discussed.

  12. Intraflagellar transport is required for the maintenance of the trypanosome flagellum composition but not its length.

    PubMed

    Fort, Cécile; Bonnefoy, Serge; Kohl, Linda; Bastin, Philippe

    2016-08-01

    Intraflagellar transport (IFT) is required for construction of most cilia and flagella. Here, we used electron microscopy, immunofluorescence and live video microscopy to show that IFT is absent or arrested in the mature flagellum of Trypanosoma brucei upon RNA interference (RNAi)-mediated knockdown of IFT88 and IFT140, respectively. Flagella assembled prior to RNAi did not shorten, showing that IFT is not essential for the maintenance of flagella length. Although the ultrastructure of the axoneme was not visibly affected, flagellar beating was strongly reduced and the distribution of several flagellar components was drastically modified. The R subunit of the protein kinase A was no longer concentrated in the flagellum but was largely found in the cell body whereas the kinesin 9B motor was accumulating at the distal tip of the flagellum. In contrast, the distal tip protein FLAM8 was dispersed along the flagellum. This reveals that IFT also functions in maintaining the distribution of some flagellar proteins after construction of the organelle is completed. PMID:27343245

  13. The intraflagellar transport protein IFT80 is required for cilia formation and osteogenesis

    PubMed Central

    Yang, Shuying; Wang, Changdong

    2012-01-01

    Intraflagellar transport (IFT) proteins are essential for the assembly and maintenance of cilia, which play important roles in development and homeostasis. IFT80 is a newly defined IFT protein. Partial mutation of IFT80 in humans causes diseases such as Jeune asphyxiating thoracic dystrophy (JATD) and short rib polydactyly (SRP) type III with abnormal skeletal development. However, the role and mechanism of IFT80 in osteogenesis is unknown. Here, we first detected IFT80 expression pattern and found that IFT80 was highly expressed in mouse long bone, skull, and during osteoblast differentiation. By using lentivirus-mediated RNA interference (RNAi) technology to silence IFT80 in murine mesenchymal progenitor cell line-C3H10T1/2 and bone marrow derived stromal cells, we found that silencing IFT80 led to either shortening or loss of cilia and the decrease of Arl13b expression - a small GTPase that is localized in cilia. Additionally, silencing IFT80 blocked the expression of osteoblast markers and significantly inhibited ALP activity and cell mineralization. We further found that IFT80 silencing inhibited the expression of Gli2, a critical transcriptional factor in the hedgehog signaling pathway. Overexpression of Gli2 rescued the deficiency of osteoblast differentiation from IFT80-silenced cells, and dramatically promoted osteoblast differentiation. Moreover, introduction of Smo agonist (SAG) promotes osteoblast differentiation, which was partially inhibited by IFT80 silencing. Thus, these results suggested that IFT80 plays an important role in osteogenesis through regulating Hedgehog/Gli signal pathways. PMID:22771375

  14. WD60/FAP163 is a dynein intermediate chain required for retrograde intraflagellar transport in cilia

    PubMed Central

    Patel-King, Ramila S.; Gilberti, Renée M.; Hom, Erik F. Y.; King, Stephen M.

    2013-01-01

    Retrograde intraflagellar transport (IFT) is required for assembly of cilia. We identify a Chlamydomonas flagellar protein (flagellar-associated protein 163 [FAP163]) as being closely related to the D1bIC(FAP133) intermediate chain (IC) of the dynein that powers this movement. Biochemical analysis revealed that FAP163 is present in the flagellar matrix and is actively trafficked by IFT. Furthermore, FAP163 copurified with D1bIC(FAP133) and the LC8 dynein light chain, indicating that it is an integral component of the retrograde IFT dynein. To assess the functional role of FAP163, we generated an RNA interference knockdown of the orthologous protein (WD60) in planaria. The Smed-wd60(RNAi) animals had a severe ciliary assembly defect that dramatically compromised whole-organism motility. Most cilia were present as short stubs that had accumulated large quantities of IFT particle–like material between the doublet microtubules and the membrane. The few remaining approximately full-length cilia had a chaotic beat with a frequency reduced from 24 to ∼10 Hz. Thus WD60/FAP163 is a dynein IC that is absolutely required for retrograde IFT and ciliary assembly. PMID:23864713

  15. Intraflagellar transport, cilia, and mammalian Hedgehog signaling: analysis in mouse embryonic fibroblasts.

    PubMed

    Ocbina, Polloneal Jymmiel R; Anderson, Kathryn V

    2008-08-01

    Genetic studies in the mouse have shown that Intraflagellar Transport (IFT) is essential for mammalian Hedgehog (Hh) signal transduction. In this study, we take advantage of wild type and IFT mutant mouse embryonic fibroblasts (MEFs) to characterize additional aspects of the relationship between IFT and Hh signaling. Exposure to Sonic hedgehog (Shh) ligand or expression of an activated allele of Smo, SmoA1, activates an Hh reporter in wild-type MEFs, but not in MEFs derived from embryos that lack IFT172 or the Dync2h1 subunit of the retrograde IFT motor. Similarly, decreased activity of either Sufu or PKA, two negative regulators of Hh signal transduction, activates the pathway in wild-type, but not IFT mutant, MEFs. In contrast to wild-type MEFs, Smo is constitutively present in the cilia of Dync2h1 mutant MEFs. This finding suggests that IFT-dependent trafficking of Hh pathway components through the cilium is essential for their function.

  16. Characterization of the intraflagellar transport complex B core: direct interaction of the IFT81 and IFT74/72 subunits.

    PubMed

    Lucker, Ben F; Behal, Robert H; Qin, Hongmin; Siron, Laura C; Taggart, W David; Rosenbaum, Joel L; Cole, Douglas G

    2005-07-29

    Required for the assembly and maintenance of eukaryotic cilia and flagella, intraflagellar transport (IFT) consists of the bidirectional movement of large protein particles between the base and the distal tip of the organelle. Anterograde movement of particles away from the cell body is mediated by kinesin-2, whereas retrograde movement away from the flagellar tip is powered by cytoplasmic dynein 1b/2. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits, respectively. In this study, we have used increased ionic strength to remove four peripheral subunits from the IFT complex B of Chlamydomonas reinhardtii, revealing a 500-kDa core that contains IFT88, IFT81, IFT74/72, IFT52, IFT46, and IFT27. This result demonstrates that the complex B subunits, IFT172, IFT80, IFT57, and IFT20 are not required for the core subunits to stay associated. Chemical cross-linking of the complex B core resulted in multiple IFT81-74/72 products. Yeast-based two-hybrid and three-hybrid analyses were then used to show that IFT81 and IFT74/72 directly interact to form a higher order oligomer consistent with a tetrameric complex. Similar analysis of the vertebrate IFT81 and IFT74/72 homologues revealed that this interaction has been evolutionarily conserved. We hypothesize that these proteins form a tetrameric complex, (IFT81)2(IFT74/72)2, which serves as a scaffold for the formation of the intact IFT complex B. PMID:15955805

  17. Why motor proteins team up - Intraflagellar transport in C. elegans cilia

    PubMed Central

    Mijalkovic, Jona; Prevo, Bram; Peterman, Erwin J. G.

    2016-01-01

    ABSTRACT Inside the cell, vital processes such as cell division and intracellular transport are driven by the concerted action of different molecular motor proteins. In C. elegans chemosensory cilia, 2 kinesin-2 family motor proteins, kinesin-II and OSM-3, team up to drive intraflagellar transport (IFT) in the anterograde direction, from base to tip, whereas IFT dynein hitchhikes toward the tip and subsequently drives IFT in the opposite, retrograde direction, thereby recycling both kinesins. While it is evident that at least a retrograde and an anterograde motor are necessary to drive IFT, it has remained puzzling why 2 same-polarity kinesins are employed. Recently, we addressed this question by combining advanced genome-engineering tools with ultrasensitive, quantitative fluorescence microscopy to study IFT with single-molecule sensitivity.1,2 Using this combination of approaches, we uncovered a differentiation in kinesin-2 function, in which the slower kinesin-II operates as an ‘importer’, loading IFT trains into the cilium before gradually handing them over to the faster OSM-3. OSM-3 subsequently acts as a long-range ‘transporter’, driving the IFT trains toward the tip. The two kinesin-2 motors combine their unique motility properties to achieve something neither motor can achieve on its own; that is to optimize the amount of cargo inside the cilium. In this commentary, we provide detailed insight into the rationale behind our research approach and comment on our recent findings. Moreover, we discuss the role of IFT dynein and provide an outlook on future studies. PMID:27384150

  18. Functional genomics of intraflagellar transport-associated proteins in C. elegans.

    PubMed

    Inglis, Peter N; Blacque, Oliver E; Leroux, Michel R

    2009-01-01

    The nematode Caenorhabditis elegans presents numerous advantages for the identification and molecular analysis of intraflagellar transport (IFT)-associated proteins, which play a critical role in the formation of cilia. Many proteins were first described as participating in IFT in this organism, including IFTA-1 (IFT121), DYF-1 (fleer/IFT70), DYF-2 (IFT144), DYF-3 (Qilin), DYF-11 (MIP-T3/IFT54), DYF-13, XBX-1 (dynein light intermediate chain), XBX-2 (dynein light chain), CHE-13 (IFT57/HIPPI), orthologs of Bardet-Biedl syndrome proteins, and potential regulatory protein, IFTA-2 (RABL5/IFT22). Transgenic animals bearing green fluorescent protein (GFP)-tagged proteins can be generated with ease, and in vivo imaging of IFT in both wild-type and cilia mutant strains can be performed quickly. The analyses permit detailed information on the localization and dynamic properties (velocities along the ciliary axoneme) of the relevant proteins, providing insights into their potential functions in processes such as anterograde and retrograde transport and cilium formation, as well as association with distinct modules of the IFT machinery (e.g., IFT subcomplexes A or B). Behavioral studies of the corresponding IFT-associated gene mutants further enable an understanding of the ciliary role of the proteins-e.g., in chemosensation, lipid homeostasis, lifespan control, and signaling-in a multicellular animal. In this chapter, we discuss how C. elegans can be used for the identification and characterization of IFT-associated proteins, focusing on methods for the generation of GFP-tagged IFT reporter strains, time-lapse microscopy, and IFT rate measurements. PMID:20409822

  19. Dysfunction of intraflagellar transport-A causes hyperphagia-induced obesity and metabolic syndrome

    PubMed Central

    Jacobs, Damon T.; Silva, Luciane M.; Allard, Bailey A.; Schonfeld, Michael P.; Chatterjee, Anindita; Talbott, George C.

    2016-01-01

    ABSTRACT Primary cilia extend from the plasma membrane of most vertebrate cells and mediate signaling pathways. Ciliary dysfunction underlies ciliopathies, which are genetic syndromes that manifest multiple clinical features, including renal cystic disease and obesity. THM1 (also termed TTC21B or IFT139) encodes a component of the intraflagellar transport-A complex and mutations in THM1 have been identified in 5% of individuals with ciliopathies. Consistent with this, deletion of murine Thm1 during late embryonic development results in cystic kidney disease. Here, we report that deletion of murine Thm1 during adulthood results in obesity, diabetes, hypertension and fatty liver disease, with gender differences in susceptibility to weight gain and metabolic dysfunction. Pair-feeding of Thm1 conditional knock-out mice relative to control littermates prevented the obesity and related disorders, indicating that hyperphagia caused the obese phenotype. Thm1 ablation resulted in increased localization of adenylyl cyclase III in primary cilia that were shortened, with bulbous distal tips on neurons of the hypothalamic arcuate nucleus, an integrative center for signals that regulate feeding and activity. In pre-obese Thm1 conditional knock-out mice, expression of anorexogenic pro-opiomelanocortin (Pomc) was decreased by 50% in the arcuate nucleus, which likely caused the hyperphagia. Fasting of Thm1 conditional knock-out mice did not alter Pomc nor orexogenic agouti-related neuropeptide (Agrp) expression, suggesting impaired sensing of changes in peripheral signals. Together, these data indicate that the Thm1-mutant ciliary defect diminishes sensitivity to feeding signals, which alters appetite regulation and leads to hyperphagia, obesity and metabolic disease. PMID:27482817

  20. Intraflagellar Transport Gene Expression Associated with Short Cilia in Smoking and COPD

    PubMed Central

    Hessel, Justina; Heldrich, Jonna; Fuller, Jennifer; Staudt, Michelle R.; Radisch, Sharon; Hollmann, Charleen; Harvey, Ben-Gary; Kaner, Robert J.; Salit, Jacqueline; Yee-Levin, Jenny; Sridhar, Sriram; Pillai, Sreekumar; Hilton, Holly; Wolff, Gerhard; Bitter, Hans; Visvanathan, Sudha; Fine, Jay; Stevenson, Christopher S.; Crystal, Ronald G.; Tilley, Ann E.

    2014-01-01

    Smoking and COPD are associated with decreased mucociliary clearance, and healthy smokers have shorter cilia in the large airway than nonsmokers. We hypothesized that changes in cilia length are consistent throughout the airway, and we further hypothesized that smokers with COPD have shorter cilia than healthy smokers. Because intraflagellar transport (IFT) is the process by which cilia of normal length are produced and maintained, and alterations in IFT lead to short cilia in model organisms, we also hypothesized that smoking induces changes in the expression of IFT-related genes in the airway epithelium of smokers and smokers with COPD. To assess these hypotheses, airway epithelium was obtained via bronchoscopic brushing. Cilia length was assessed by measuring 100 cilia (10 cilia on each of 10 cells) per subject and Affymetrix microarrays were used to evaluate IFT gene expression in nonsmokers and healthy smokers in 2 independent data sets from large and small airway as well as in COPD smokers in a data set from the small airway. In the large and small airway epithelium, cilia were significantly shorter in healthy smokers than nonsmokers, and significantly shorter in COPD smokers than in both healthy smokers and nonsmokers. The gene expression data confirmed that a set of 8 IFT genes were down-regulated in smokers in both data sets; however, no differences were seen in COPD smokers compared to healthy smokers. These results support the concept that loss of cilia length contributes to defective mucociliary clearance in COPD, and that smoking-induced changes in expression of IFT genes may be one mechanism of abnormally short cilia in smokers. Strategies to normalize cilia length may be an important avenue for novel COPD therapies. PMID:24465567

  1. SQL-1, homologue of the Golgi protein GMAP210, modulates intraflagellar transport in C. elegans.

    PubMed

    Broekhuis, Joost R; Rademakers, Suzanne; Burghoorn, Jan; Jansen, Gert

    2013-04-15

    Primary cilia are microtubule-based organelles that have important sensory functions. For their function, cilia rely on the delivery of specific proteins, both by intracellular trafficking and intraflagellar transport (IFT). In the cilia of Caenorhabditis elegans, anterograde IFT is mediated by kinesin-II and OSM-3. Previously, we have shown that expression of a dominant active G protein α subunit (GPA-3QL) in amphid channel neurons affects the coordination of kinesin-II and OSM-3 and also affects cilia length, suggesting that environmental signals can modulate these processes. Here, we show that loss-of-function of sql-1 (suppressor of gpa-3QL 1), which encodes the homologue of the mammalian Golgi protein GMAP210, suppresses the gpa-3QL cilia length phenotype. SQL-1 localizes to the Golgi apparatus, where it contributes to maintaining Golgi organization. Loss of sql-1 by itself does not affect cilia length, whereas overexpression of sql-1 results in longer cilia. Using live imaging of fluorescently tagged IFT proteins, we show that in sql-1 mutants OSM-3 moves faster, kinesin-II moves slower and that some complex A and B proteins move at an intermediate velocity, while others move at the same velocity as OSM-3. This indicates that mutation of sql-1 destabilizes the IFT complex. Finally, we show that simultaneous inactivation of sql-1 and activation of gpa-3QL affects the velocity of OSM-3. In summary, we show that in C. elegans the Golgin protein SQL-1 plays an important role in maintaining the stability of the IFT complex.

  2. Dysfunction of intraflagellar transport-A causes hyperphagia-induced obesity and metabolic syndrome.

    PubMed

    Jacobs, Damon T; Silva, Luciane M; Allard, Bailey A; Schonfeld, Michael P; Chatterjee, Anindita; Talbott, George C; Beier, David R; Tran, Pamela V

    2016-07-01

    Primary cilia extend from the plasma membrane of most vertebrate cells and mediate signaling pathways. Ciliary dysfunction underlies ciliopathies, which are genetic syndromes that manifest multiple clinical features, including renal cystic disease and obesity. THM1 (also termed TTC21B or IFT139) encodes a component of the intraflagellar transport-A complex and mutations in THM1 have been identified in 5% of individuals with ciliopathies. Consistent with this, deletion of murine Thm1 during late embryonic development results in cystic kidney disease. Here, we report that deletion of murine Thm1 during adulthood results in obesity, diabetes, hypertension and fatty liver disease, with gender differences in susceptibility to weight gain and metabolic dysfunction. Pair-feeding of Thm1 conditional knock-out mice relative to control littermates prevented the obesity and related disorders, indicating that hyperphagia caused the obese phenotype. Thm1 ablation resulted in increased localization of adenylyl cyclase III in primary cilia that were shortened, with bulbous distal tips on neurons of the hypothalamic arcuate nucleus, an integrative center for signals that regulate feeding and activity. In pre-obese Thm1 conditional knock-out mice, expression of anorexogenic pro-opiomelanocortin (Pomc) was decreased by 50% in the arcuate nucleus, which likely caused the hyperphagia. Fasting of Thm1 conditional knock-out mice did not alter Pomc nor orexogenic agouti-related neuropeptide (Agrp) expression, suggesting impaired sensing of changes in peripheral signals. Together, these data indicate that the Thm1-mutant ciliary defect diminishes sensitivity to feeding signals, which alters appetite regulation and leads to hyperphagia, obesity and metabolic disease. PMID:27482817

  3. Zebrafish ift57, ift88, and ift172 intraflagellar transport mutants disrupt cilia but do not affect hedgehog signaling.

    PubMed

    Lunt, Shannon C; Haynes, Tony; Perkins, Brian D

    2009-07-01

    Cilia formation requires intraflagellar transport (IFT) proteins. Recent studies indicate that mammalian Hedgehog (Hh) signaling requires cilia. It is unclear, however, if the requirement for cilia and IFT proteins in Hh signaling represents a general rule for all vertebrates. Here we examine zebrafish ift57, ift88, and ift172 mutants and morphants for defects in Hh signaling. Although ift57 and ift88 mutants and morphants contained residual maternal protein, the cilia were disrupted. In contrast to previous genetic studies in mouse, mutations in zebrafish IFT genes did not affect the expression of Hh target genes in the neural tube and forebrain and had no quantitative effect on Hh target gene expression. Zebrafish IFT mutants also exhibited no dramatic changes in the craniofacial skeleton, somite formation, or motor neuron patterning. Thus, our data indicate the requirement for cilia in the Hh signal transduction pathway may not represent a universal mechanism in vertebrates.

  4. The intraflagellar transport dynein complex of trypanosomes is made of a heterodimer of dynein heavy chains and of light and intermediate chains of distinct functions

    PubMed Central

    Blisnick, Thierry; Buisson, Johanna; Absalon, Sabrina; Marie, Alexandra; Cayet, Nadège; Bastin, Philippe

    2014-01-01

    Cilia and flagella are assembled by intraflagellar transport (IFT) of protein complexes that bring tubulin and other precursors to the incorporation site at their distal tip. Anterograde transport is driven by kinesin, whereas retrograde transport is ensured by a specific dynein. In the protist Trypanosoma brucei, two distinct genes encode fairly different dynein heavy chains (DHCs; ∼40% identity) termed DHC2.1 and DHC2.2, which form a heterodimer and are both essential for retrograde IFT. The stability of each heavy chain relies on the presence of a dynein light intermediate chain (DLI1; also known as XBX-1/D1bLIC). The presence of both heavy chains and of DLI1 at the base of the flagellum depends on the intermediate dynein chain DIC5 (FAP133/WDR34). In the IFT140RNAi mutant, an IFT-A protein essential for retrograde transport, the IFT dynein components are found at high concentration at the flagellar base but fail to penetrate the flagellar compartment. We propose a model by which the IFT dynein particle is assembled in the cytoplasm, reaches the base of the flagellum, and associates with the IFT machinery in a manner dependent on the IFT-A complex. PMID:24989795

  5. The intraflagellar transport dynein complex of trypanosomes is made of a heterodimer of dynein heavy chains and of light and intermediate chains of distinct functions.

    PubMed

    Blisnick, Thierry; Buisson, Johanna; Absalon, Sabrina; Marie, Alexandra; Cayet, Nadège; Bastin, Philippe

    2014-09-01

    Cilia and flagella are assembled by intraflagellar transport (IFT) of protein complexes that bring tubulin and other precursors to the incorporation site at their distal tip. Anterograde transport is driven by kinesin, whereas retrograde transport is ensured by a specific dynein. In the protist Trypanosoma brucei, two distinct genes encode fairly different dynein heavy chains (DHCs; ∼40% identity) termed DHC2.1 and DHC2.2, which form a heterodimer and are both essential for retrograde IFT. The stability of each heavy chain relies on the presence of a dynein light intermediate chain (DLI1; also known as XBX-1/D1bLIC). The presence of both heavy chains and of DLI1 at the base of the flagellum depends on the intermediate dynein chain DIC5 (FAP133/WDR34). In the IFT140(RNAi) mutant, an IFT-A protein essential for retrograde transport, the IFT dynein components are found at high concentration at the flagellar base but fail to penetrate the flagellar compartment. We propose a model by which the IFT dynein particle is assembled in the cytoplasm, reaches the base of the flagellum, and associates with the IFT machinery in a manner dependent on the IFT-A complex.

  6. Components of Intraflagellar Transport Complex A Function Independently of the Cilium to Regulate Canonical Wnt Signaling in Drosophila.

    PubMed

    Balmer, Sophie; Dussert, Aurore; Collu, Giovanna M; Benitez, Elvira; Iomini, Carlo; Mlodzik, Marek

    2015-09-28

    The development of multicellular organisms requires the precisely coordinated regulation of an evolutionarily conserved group of signaling pathways. Temporal and spatial control of these signaling cascades is achieved through networks of regulatory proteins, segregation of pathway components in specific subcellular compartments, or both. In vertebrates, dysregulation of primary cilia function has been strongly linked to developmental signaling defects, yet it remains unclear whether cilia sequester pathway components to regulate their activation or cilia-associated proteins directly modulate developmental signaling events. To elucidate this question, we conducted an RNAi-based screen in Drosophila non-ciliated cells to test for cilium-independent loss-of-function phenotypes of ciliary proteins in developmental signaling pathways. Our results show no effect on Hedgehog signaling. In contrast, our screen identified several cilia-associated proteins as functioning in canonical Wnt signaling. Further characterization of specific components of Intraflagellar Transport complex A uncovered a cilia-independent function in potentiating Wnt signals by promoting β-catenin/Armadillo activity. PMID:26364750

  7. Getting to the heart of intraflagellar transport using Trypanosoma and Chlamydomonas models: the strength is in their differences

    PubMed Central

    2013-01-01

    Cilia and flagella perform diverse roles in motility and sensory perception, and defects in their construction or their function are responsible for human genetic diseases termed ciliopathies. Cilia and flagella construction relies on intraflagellar transport (IFT), the bi-directional movement of ‘trains’ composed of protein complexes found between axoneme microtubules and the flagellum membrane. Although extensive information about IFT components and their mode of action were discovered in the green algae Chlamydomonas reinhardtii, other model organisms have revealed further insights about IFT. This is the case of Trypanosoma brucei, a flagellated protist responsible for sleeping sickness that is turning out to be an emerging model for studying IFT. In this article, we review different aspects of IFT, based on studies of Chlamydomonas and Trypanosoma. Data available from both models are examined to ask challenging questions about IFT such as the initiation of flagellum construction, the setting-up of IFT and the mode of formation of IFT trains, and their remodeling at the tip as well as their recycling at the base. Another outstanding question is the individual role played by the multiple IFT proteins. The use of different models, bringing their specific biological and experimental advantages, will be invaluable in order to obtain a global understanding of IFT. PMID:24289478

  8. Gli2 and Gli3 localize to cilia and require the intraflagellar transport protein polaris for processing and function.

    PubMed

    Haycraft, Courtney J; Banizs, Boglarka; Aydin-Son, Yesim; Zhang, Qihong; Michaud, Edward J; Yoder, Bradley K

    2005-10-01

    Intraflagellar transport (IFT) proteins are essential for cilia assembly and have recently been associated with a number of developmental processes, such as left-right axis specification and limb and neural tube patterning. Genetic studies indicate that IFT proteins are required for Sonic hedgehog (Shh) signaling downstream of the Smoothened and Patched membrane proteins but upstream of the Glioma (Gli) transcription factors. However, the role that IFT proteins play in transduction of Shh signaling and the importance of cilia in this process remain unknown. Here we provide insights into the mechanism by which defects in an IFT protein, Tg737/Polaris, affect Shh signaling in the murine limb bud. Our data show that loss of Tg737 results in altered Gli3 processing that abrogates Gli3-mediated repression of Gli1 transcriptional activity. In contrast to the conclusions drawn from genetic analysis, the activity of Gli1 and truncated forms of Gli3 (Gli3R) are unaffected in Tg737 mutants at the molecular level, indicating that Tg737/Polaris is differentially involved in specific activities of the Gli proteins. Most important, a negative regulator of Shh signaling, Suppressor of fused, and the three full-length Gli transcription factors localize to the distal tip of cilia in addition to the nucleus. Thus, our data support a model where cilia have a direct role in Gli processing and Shh signal transduction. PMID:16254602

  9. Combined NGS Approaches Identify Mutations in the Intraflagellar Transport Gene IFT140 in Skeletal Ciliopathies with Early Progressive Kidney Disease

    PubMed Central

    Schmidts, Miriam; Frank, Valeska; Eisenberger, Tobias; al Turki, Saeed; Bizet, Albane A.; Antony, Dinu; Rix, Suzanne; Decker, Christian; Bachmann, Nadine; Bald, Martin; Vinke, Tobias; Toenshoff, Burkhard; Donato, Natalia Di; Neuhann, Theresa; Hartley, Jane L.; Maher, Eamonn R.; Bogdanović, Radovan; Peco-Antić, Amira; Mache, Christoph; Hurles, Matthew E.; Joksić, Ivana; Guć-Šćekić, Marija; Dobricic, Jelena; Brankovic-Magic, Mirjana; Bolz, Hanno J.; Pazour, Gregory J.; Beales, Philip L.; Scambler, Peter J.; Saunier, Sophie; Mitchison, Hannah M.; Bergmann, Carsten

    2014-01-01

    Ciliopathies are genetically heterogeneous disorders characterized by variable expressivity and overlaps between different disease entities. This is exemplified by the short rib-polydactyly syndromes, Jeune, Sensenbrenner, and Mainzer-Saldino chondrodysplasia syndromes. These three syndromes are frequently caused by mutations in intraflagellar transport (IFT) genes affecting the primary cilia, which play a crucial role in skeletal and chondral development. Here, we identified mutations in IFT140, an IFT complex A gene, in five Jeune asphyxiating thoracic dystrophy (JATD) and two Mainzer-Saldino syndrome (MSS) families, by screening a cohort of 66 JATD/MSS patients using whole exome sequencing and targeted resequencing of a customized ciliopathy gene panel. We also found an enrichment of rare IFT140 alleles in JATD compared with nonciliopathy diseases, implying putative modifier effects for certain alleles. IFT140 patients presented with mild chest narrowing, but all had end-stage renal failure under 13 years of age and retinal dystrophy when examined for ocular dysfunction. This is consistent with the severe cystic phenotype of Ift140 conditional knockout mice, and the higher level of Ift140 expression in kidney and retina compared with the skeleton at E15.5 in the mouse. IFT140 is therefore a major cause of cono-renal syndromes (JATD and MSS). The present study strengthens the rationale for IFT140 screening in skeletal ciliopathy spectrum patients that have kidney disease and/or retinal dystrophy. PMID:23418020

  10. Gli2 and Gli3 Localize to Cilia and Require the Intraflagellar Transport Protein Polaris for Processing and Function

    SciTech Connect

    Michaud III, Edward J; Haycraft, Courtney J; Aydin Son, Yesim; Zhang, Qihong; Yoder, Bradley

    2005-01-01

    Intraflagellar transport (IFT) proteins are essential for cilia assembly and have recently been associated with a number of developmental processes, such as left-right axis specification and limb and neural tube patterning. Genetic studies indicate that IFT proteins are required for Sonic hedgehog (Shh)signaling downstream of the Smoothened and Patched membrane proteins but upstream of the Glioma (Gli) transcription factors. However, the role that IFT proteins play in transduction of Shh signaling and the importance of cilia in this process remain unknown. Here we provide insights into the mechanism by which defects in an IFT protein, Tg737/Polaris, affect Shh signaling in the murine limb bud. Our data show that loss of Tg737 results in altered Gli3 processing that abrogates Gli3-mediated repression of Gli1 transcriptional activity. In contrast to the conclusions drawn from genetic analysis, the activity of Gli1 and truncated forms of Gli3 (Gli3R) are unaffected in Tg737 mutants at the molecular level, indicating that Tg737/Polaris is differentially involved in specific activities of the Gli proteins. Most important, a negative regulator of Shh signaling, Suppressor of fused, and the three full-length Gli transcription factors localize to the distal tip of cilia in addition to the nucleus. Thus, our data support a model where cilia have a direct role in Gli processing and Shh signal transduction.

  11. Intraflagellar transport proteins 172, 80, 57, 54, 38, and 20 form a stable tubulin-binding IFT-B2 complex.

    PubMed

    Taschner, Michael; Weber, Kristina; Mourão, André; Vetter, Melanie; Awasthi, Mayanka; Stiegler, Marc; Bhogaraju, Sagar; Lorentzen, Esben

    2016-04-01

    Intraflagellar transport (IFT) relies on the IFT complex and is required for ciliogenesis. The IFT-B complex consists of 9-10 stably associated core subunits and six "peripheral" subunits that were shown to dissociate from the core structure at moderate salt concentration. We purified the six "peripheral"IFT-B subunits of Chlamydomonas reinhardtiias recombinant proteins and show that they form a stable complex independently of the IFT-B core. We suggest a nomenclature of IFT-B1 (core) and IFT-B2 (peripheral) for the two IFT-B subcomplexes. We demonstrate that IFT88, together with the N-terminal domain of IFT52, is necessary to bridge the interaction between IFT-B1 and B2. The crystal structure of IFT52N reveals highly conserved residues critical for IFT-B1/IFT-B2 complex formation. Furthermore, we show that of the three IFT-B2 subunits containing a calponin homology (CH) domain (IFT38, 54, and 57), only IFT54 binds αβ-tubulin as a potential IFT cargo, whereas the CH domains of IFT38 and IFT57 mediate the interaction with IFT80 and IFT172, respectively. Crystal structures of IFT54 CH domains reveal that tubulin binding is mediated by basic surface-exposed residues.

  12. Overall Architecture of the Intraflagellar Transport (IFT)-B Complex Containing Cluap1/IFT38 as an Essential Component of the IFT-B Peripheral Subcomplex.

    PubMed

    Katoh, Yohei; Terada, Masaya; Nishijima, Yuya; Takei, Ryota; Nozaki, Shohei; Hamada, Hiroshi; Nakayama, Kazuhisa

    2016-05-20

    Intraflagellar transport (IFT) is essential for assembly and maintenance of cilia and flagella as well as ciliary motility and signaling. IFT is mediated by multisubunit complexes, including IFT-A, IFT-B, and the BBSome, in concert with kinesin and dynein motors. Under high salt conditions, purified IFT-B complex dissociates into a core subcomplex composed of at least nine subunits and at least five peripherally associated proteins. Using the visible immunoprecipitation assay, which we recently developed as a convenient protein-protein interaction assay, we determined the overall architecture of the IFT-B complex, which can be divided into core and peripheral subcomplexes composed of 10 and 6 subunits, respectively. In particular, we identified TTC26/IFT56 and Cluap1/IFT38, neither of which was included with certainty in previous models of the IFT-B complex, as integral components of the core and peripheral subcomplexes, respectively. Consistent with this, a ciliogenesis defect of Cluap1-deficient mouse embryonic fibroblasts was rescued by exogenous expression of wild-type Cluap1 but not by mutant Cluap1 lacking the binding ability to other IFT-B components. The detailed interaction map as well as comparison of subcellular localization of IFT-B components between wild-type and Cluap1-deficient cells provides insights into the functional relevance of the architecture of the IFT-B complex. PMID:26980730

  13. Intraflagellar transport proteins 172, 80, 57, 54, 38, and 20 form a stable tubulin-binding IFT-B2 complex.

    PubMed

    Taschner, Michael; Weber, Kristina; Mourão, André; Vetter, Melanie; Awasthi, Mayanka; Stiegler, Marc; Bhogaraju, Sagar; Lorentzen, Esben

    2016-04-01

    Intraflagellar transport (IFT) relies on the IFT complex and is required for ciliogenesis. The IFT-B complex consists of 9-10 stably associated core subunits and six "peripheral" subunits that were shown to dissociate from the core structure at moderate salt concentration. We purified the six "peripheral"IFT-B subunits of Chlamydomonas reinhardtiias recombinant proteins and show that they form a stable complex independently of the IFT-B core. We suggest a nomenclature of IFT-B1 (core) and IFT-B2 (peripheral) for the two IFT-B subcomplexes. We demonstrate that IFT88, together with the N-terminal domain of IFT52, is necessary to bridge the interaction between IFT-B1 and B2. The crystal structure of IFT52N reveals highly conserved residues critical for IFT-B1/IFT-B2 complex formation. Furthermore, we show that of the three IFT-B2 subunits containing a calponin homology (CH) domain (IFT38, 54, and 57), only IFT54 binds αβ-tubulin as a potential IFT cargo, whereas the CH domains of IFT38 and IFT57 mediate the interaction with IFT80 and IFT172, respectively. Crystal structures of IFT54 CH domains reveal that tubulin binding is mediated by basic surface-exposed residues. PMID:26912722

  14. Components of Intraflagellar Transport complex A (IFT-A) function independently of the cilium to regulate canonical Wnt signaling in Drosophila

    PubMed Central

    Balmer, Sophie; Dussert, Aurore; Collu, Giovanna M.; Benitez, Elvira; Iomini, Carlo; Mlodzik, Marek

    2015-01-01

    SUMMARY The development of multicellular organisms requires the precisely coordinated regulation of an evolutionarily-conserved group of signaling pathways. Temporal and spatial control of these signaling cascades is achieved through networks of regulatory proteins and/or segregation of pathway components in specific subcellular compartments. In vertebrates, dysregulation of primary cilia function has been strongly linked to developmental signaling defects, yet it remains unclear whether cilia sequester pathway components to regulate their activation or whether cilia-associated proteins directly modulate developmental signaling events. To elucidate this question, we conducted an RNAi-based screen in Drosophila non-ciliated cells to test for cilium-independent loss-of-function phenotypes of ciliary proteins in developmental signaling pathways. Our results show no effect on Hedgehog signaling. In contrast, our screen identified several cilia-associated proteins as functioning in canonical Wnt signaling. Further characterization of specific components of Intraflagellar Transport complex A (IFT-A) uncovered a cilia-independent function in potentiating Wnt signals by promoting β-catenin/Armadillo activity. PMID:26364750

  15. Crystal structures of IFT70/52 and IFT52/46 provide insight into intraflagellar transport B core complex assembly

    PubMed Central

    Taschner, Michael; Kotsis, Fruzsina; Braeuer, Philipp; Kuehn, E. Wolfgang

    2014-01-01

    Cilia are microtubule-based organelles that assemble via intraflagellar transport (IFT) and function as signaling hubs on eukaryotic cells. IFT relies on molecular motors and IFT complexes that mediate the contacts with ciliary cargo. To elucidate the architecture of the IFT-B complex, we reconstituted and purified the nonameric IFT-B core from Chlamydomonas reinhardtii and determined the crystal structures of C. reinhardtii IFT70/52 and Tetrahymena IFT52/46 subcomplexes. The 2.5-Å resolution IFT70/52 structure shows that IFT52330–370 is buried deeply within the IFT70 tetratricopeptide repeat superhelix. Furthermore, the polycystic kidney disease protein IFT88 binds IFT52281–329 in a complex that interacts directly with IFT70/IFT52330–381 in trans. The structure of IFT52C/IFT46C was solved at 2.3 Å resolution, and we show that it is essential for IFT-B core integrity by mediating interaction between IFT88/70/52/46 and IFT81/74/27/25/22 subcomplexes. Consistent with this, overexpression of mammalian IFT52C in MDCK cells is dominant-negative and causes IFT protein mislocalization and disrupted ciliogenesis. These data further rationalize several ciliogenesis phenotypes of IFT mutant strains. PMID:25349261

  16. A novel dynein light intermediate chain colocalizes with the retrograde motor for intraflagellar transport at sites of axoneme assembly in chlamydomonas and Mammalian cells.

    PubMed

    Perrone, Catherine A; Tritschler, Douglas; Taulman, Patrick; Bower, Raqual; Yoder, Bradley K; Porter, Mary E

    2003-05-01

    The assembly of cilia and flagella depends on bidirectional intraflagellar transport (IFT). Anterograde IFT is driven by kinesin II, whereas retrograde IFT requires cytoplasmic dynein 1b (cDHC1b). Little is known about how cDHC1b interacts with its cargoes or how it is regulated. Recent work identified a novel dynein light intermediate chain (D2LIC) that colocalized with the mammalian cDHC1b homolog DHC2 in the centrosomal region of cultured cells. To see whether the LIC might play a role in IFT, we characterized the gene encoding the Chlamydomonas homolog of D2LIC and found its expression is up-regulated in response to deflagellation. We show that the LIC subunit copurifies with cDHC1b during flagellar isolation, dynein extraction, sucrose density centrifugation, and immunoprecipitation. Immunocytochemistry reveals that the LIC colocalizes with cDHC1b in the basal body region and along the length of flagella in wild-type cells. Localization of the complex is altered in a collection of retrograde IFT and length control mutants, which suggests that the affected gene products directly or indirectly regulate cDHC1b activity. The mammalian DHC2 and D2LIC also colocalize in the apical cytoplasm and axonemes of ciliated epithelia in the lung, brain, and efferent duct. These studies, together with the identification of an LIC mutation, xbx-1(ok279), which disrupts retrograde IFT in Caenorhabditis elegans, indicate that the novel LIC is a component of the cDHC1b/DHC2 retrograde IFT motor in a variety of organisms.

  17. Summary of Alpha Particle Transport

    SciTech Connect

    Medley, S.S.; White, R.B.; Zweben, S.J.

    1998-08-19

    This paper summarizes the talks on alpha particle transport which were presented at the 5th International Atomic Energy Agency's Technical Committee Meeting on "Alpha Particles in Fusion Research" held at the Joint European Torus, England in September 1997.

  18. Intraflagellar transport—the “new motility” 20 years later

    PubMed Central

    Kozminski, Keith G.

    2012-01-01

    Intraflagellar transport is the rapid, bidirectional movement of protein complexes along the length of most eukaryotic cilia and flagella. Discovery of this intracellular process in Chlamydomonas reinhardtii 20 years ago led to a rapid discovery of cellular mechanisms that underlie a large number of human ciliopathies. Described herein are the events that led to this discovery. PMID:22379118

  19. Particle transport in plasma reactors

    SciTech Connect

    Rader, D.J.; Geller, A.S.; Choi, Seung J.; Kushner, M.J.

    1995-01-01

    SEMATECH and the Department of Energy have established a Contamination Free Manufacturing Research Center (CFMRC) located at Sandia National Laboratories. One of the programs underway at the CFMRC is directed towards defect reduction in semiconductor process reactors by the application of computational modeling. The goal is to use fluid, thermal, plasma, and particle transport models to identify process conditions and tool designs that reduce the deposition rate of particles on wafers. The program is directed toward defect reduction in specific manufacturing tools, although some model development is undertaken when needed. The need to produce quantifiable improvements in tool defect performance requires the close cooperation among Sandia, universities, SEMATECH, SEMATECH member companies, and equipment manufacturers. Currently, both plasma (e.g., etch, PECVD) and nonplasma tools (e.g., LPCVD, rinse tanks) are being worked on under this program. In this paper the authors summarize their recent efforts to reduce particle deposition on wafers during plasma-based semiconductor manufacturing.

  20. Ordered transport and identification of particles

    DOEpatents

    Shera, E. Brooks

    1993-01-01

    A method and apparatus are provided for application of electrical field gradients to induce particle velocities to enable particle sequence and identification information to be obtained. Particle sequence is maintained by providing electroosmotic flow for an electrolytic solution in a particle transport tube. The transport tube and electrolytic solution are selected to provide an electroosmotic radius of >100 so that a plug flow profile is obtained for the electrolytic solution in the transport tube. Thus, particles are maintained in the same order in which they are introduced in the transport tube. When the particles also have known electrophoretic velocities, the field gradients introduce an electrophoretic velocity component onto the electroosmotic velocity. The time that the particles pass selected locations along the transport tube may then be detected and the electrophoretic velocity component calculated for particle identification. One particular application is the ordered transport and identification of labeled nucleotides sequentially cleaved from a strand of DNA.

  1. Ordered transport and identification of particles

    DOEpatents

    Shera, E.B.

    1993-05-11

    A method and apparatus are provided for application of electrical field gradients to induce particle velocities to enable particle sequence and identification information to be obtained. Particle sequence is maintained by providing electroosmotic flow for an electrolytic solution in a particle transport tube. The transport tube and electrolytic solution are selected to provide an electroosmotic radius of >100 so that a plug flow profile is obtained for the electrolytic solution in the transport tube. Thus, particles are maintained in the same order in which they are introduced in the transport tube. When the particles also have known electrophoretic velocities, the field gradients introduce an electrophoretic velocity component onto the electroosmotic velocity. The time that the particles pass selected locations along the transport tube may then be detected and the electrophoretic velocity component calculated for particle identification. One particular application is the ordered transport and identification of labeled nucleotides sequentially cleaved from a strand of DNA.

  2. Quadrupole Induced Resonant Particle Transport

    NASA Astrophysics Data System (ADS)

    Gilson, Erik; Fajans, Joel

    1998-11-01

    We have performed experiments that explore the effects of a magnetic quadrupole field on a pure electron plasma confined in a Penning-Malmberg trap. A model that we have developed describes the shape of the plasma and shows that a certain class of resonant particles follows trajectories that take them out of the plasma. Even though the quadrupole field destroys the cylindrical symmetry of the system, our theory predicts that if the electrons are off resonance, then the lifetime of the plasma will not be greatly affected by the quadrupole field. Our preliminary experimental results show that the shape of the plasma and the plasma lifetime agree with our model. We are investigating the scaling of this behavior with various experimental parameters such as the plasma length, density, and strength of the quadrupole field. In addition to being an example of resonant particle transport, this effect may find practical applications in experiments that plan to use magnetic quadrupole neutral atom traps to confine anti-hydrogen created in double-well positron/anti-proton Penning-Malmberg traps. (ATHENA Collaboration.)

  3. Quadrupole Induced Resonant Particle Transport

    NASA Astrophysics Data System (ADS)

    Gilson, Erik; Fajans, Joel

    1999-11-01

    We have performed experiments that explore the effects of a magnetic quadrupole field on a pure electron plasma confined in a Malmberg-Penning trap. A model that we have developed describes the shape of the plasma and shows that a certain class of resonant particles follows trajectories that take them out of the plasma. Even though the quadrupole field destroys the cylindrical symmetry of the system, our theory predicts that if the electrons are off resonance, then the lifetime of the plasma will not be greatly affected by the quadrupole field. Our preliminary experimental results show that the shape of the plasma and the plasma lifetime agree with our model. We are investigating the scaling of this behavior with various experimental parameters such as the plasma length, density, and strength of the quadrupole field. In addition to being an example of resonant particle transport, this effect may find practical applications in experiments that plan to use magnetic quadrupole neutral atom traps to confine anti-hydrogen created in double-well positron/anti-proton Malmberg-Penning traps. (ATHENA Collaboration.)

  4. Particle Transport in Therapeutic Magnetic Fields

    NASA Astrophysics Data System (ADS)

    Puri, Ishwar K.; Ganguly, Ranjan

    2014-01-01

    Iron oxide magnetic nanoparticles, in ferrofluids or as magnetic microspheres, offer magnetic maneuverability, biochemical surface functionalization, and magnetic relaxation under the influence of an alternating field. The use of these properties for clinical applications requires an understanding of particles, forces, and scalar transport at various length scales. This review explains the behavior of magnetic nano- and microparticles during magnetic drug targeting and magnetic fluid hyperthermia, and the microfluidic transport of these particles in bioMEMS (biomedical microelectromechanical systems) devices for ex vivo therapeutic and diagnostic applications. Magnetic particle transport, the momentum interaction of these particles with a host fluid in a flow, and thermal transport in a particle-infused tissue are characterized through the governing electrodynamic, hydrodynamic, and scalar transport equations.

  5. Transport of Dust Particles in Tokamak Devices

    SciTech Connect

    Pigarov, A Y; Smirnov, R D; Krasheninnikov, S I; Rognlien, T D; Rozenberg, M

    2006-06-06

    Recent advances in the dust transport modeling in tokamak devices are discussed. Topics include: (1) physical model for dust transport; (2) modeling results on dynamics of dust particles in plasma; (3) conditions necessary for particle growth in plasma; (4) dust spreading over the tokamak; (5) density profiles for dust particles and impurity atoms associated with dust ablation in tokamak plasma; and (6) roles of dust in material/tritium migration.

  6. Ratchet transport powered by chiral active particles

    PubMed Central

    Ai, Bao-quan

    2016-01-01

    We numerically investigate the ratchet transport of mixtures of active and passive particles in a transversal asymmetric channel. A big passive particle is immersed in a ‘sea’ of active particles. Due to the chirality of active particles, the longitudinal directed transport is induced by the transversal asymmetry. For the active particles, the chirality completely determines the direction of the ratchet transport, the counterclockwise and clockwise particles move to the opposite directions and can be separated. However, for the passive particle, the transport behavior becomes complicated, the direction is determined by competitions among the chirality, the self-propulsion speed, and the packing fraction. Interestingly, within certain parameters, the passive particle moves to the left, while active particles move to the right. In addition, there exist optimal parameters (the chirality, the height of the barrier, the self-propulsion speed and the packing fraction) at which the rectified efficiency takes its maximal value. Our findings could be used for the experimental pursuit of the ratchet transport powered by chiral active particles. PMID:26795952

  7. Ratchet transport powered by chiral active particles.

    PubMed

    Ai, Bao-quan

    2016-01-01

    We numerically investigate the ratchet transport of mixtures of active and passive particles in a transversal asymmetric channel. A big passive particle is immersed in a 'sea' of active particles. Due to the chirality of active particles, the longitudinal directed transport is induced by the transversal asymmetry. For the active particles, the chirality completely determines the direction of the ratchet transport, the counterclockwise and clockwise particles move to the opposite directions and can be separated. However, for the passive particle, the transport behavior becomes complicated, the direction is determined by competitions among the chirality, the self-propulsion speed, and the packing fraction. Interestingly, within certain parameters, the passive particle moves to the left, while active particles move to the right. In addition, there exist optimal parameters (the chirality, the height of the barrier, the self-propulsion speed and the packing fraction) at which the rectified efficiency takes its maximal value. Our findings could be used for the experimental pursuit of the ratchet transport powered by chiral active particles.

  8. Lattice Boltzmann Simulations of Peristaltic Particle Transport

    NASA Astrophysics Data System (ADS)

    Connington, Kevin; Kang, Qinjun; Viswanathan, Hari; Chen, Shiyi; Abdel-Fattah, Amr

    2008-11-01

    A peristaltic flow occurs when a tube or channel with flexible walls transports the contained fluid by progressing a series of contraction or expansion waves along the length of those walls. It is a mechanism used to transport fluid and immersed solid particles when it is ineffective or impossible to impose a favorable pressure gradient or desirous to avoid contact between the transported mixture and mechanical moving parts. Peristaltic transport occurs in many physiological situations and has myriad industrial applications. We focus our study on the peristaltic transport of a macroscopic particle in a two dimensional channel using the Lattice Boltzmann Method (LBM). We systematically investigate the effect of variation of the relevant non-dimensional parameters of the system on the particle transport. We examine the particle behavior when the system exhibits the peculiar phenomenon of fluid ``trapping.'' Finally, we analyze how the particle presence affects stress, pressure, and dissipation in the fluid in hopes of determining preferred working conditions for peristaltic transport of shear-sensitive particles.

  9. Particle Transport in Parallel-Plate Reactors

    SciTech Connect

    Rader, D.J.; Geller, A.S.

    1999-08-01

    A major cause of semiconductor yield degradation is contaminant particles that deposit on wafers while they reside in processing tools during integrated circuit manufacturing. This report presents numerical models for assessing particle transport and deposition in a parallel-plate geometry characteristic of a wide range of single-wafer processing tools: uniform downward flow exiting a perforated-plate showerhead separated by a gap from a circular wafer resting on a parallel susceptor. Particles are assumed to originate either upstream of the showerhead or from a specified position between the plates. The physical mechanisms controlling particle deposition and transport (inertia, diffusion, fluid drag, and external forces) are reviewed, with an emphasis on conditions encountered in semiconductor process tools (i.e., sub-atmospheric pressures and submicron particles). Isothermal flow is assumed, although small temperature differences are allowed to drive particle thermophoresis. Numerical solutions of the flow field are presented which agree with an analytic, creeping-flow expression for Re < 4. Deposition is quantified by use of a particle collection efficiency, which is defined as the fraction of particles in the reactor that deposit on the wafer. Analytic expressions for collection efficiency are presented for the limiting case where external forces control deposition (i.e., neglecting particle diffusion and inertia). Deposition from simultaneous particle diffusion and external forces is analyzed by an Eulerian formulation; for creeping flow and particles released from a planar trap, the analysis yields an analytic, integral expression for particle deposition based on process and particle properties. Deposition from simultaneous particle inertia and external forces is analyzed by a Lagrangian formulation, which can describe inertia-enhanced deposition resulting from particle acceleration in the showerhead. An approximate analytic expression is derived for particle

  10. Magnetotail particle dynamics and transport

    NASA Technical Reports Server (NTRS)

    Speiser, Theodore W.

    1995-01-01

    The main thrust of our research is to study the consequences of particle dynamics in the current sheet region of the magnetotail. The importance of understanding particle dynamics, in and near current sheets, cannot be over estimated, especially in light of NASA's recent interest in developing global circulation models to predict space weather. We have embarked on a long-term study to investigate the electrical resistance due to chaotic behavior, compare this resistance to inertial effects, and relate it to that resistance required in MHD modeling for reconnection to proceed. Using a single-particle model and observations, we have also found that a neutral line region can be remotely sensed. We plan to evaluate other cases of satellite observations near times of substorm onset to elucidate the relationship between the temporal development of a near-Earth neutral line and onset.

  11. Particle transport and deposition: basic physics of particle kinetics

    PubMed Central

    Tsuda, Akira; Henry, Frank S.; Butler, James P.

    2015-01-01

    The human body interacts with the environment in many different ways. The lungs interact with the external environment through breathing. The enormously large surface area of the lung with its extremely thin air-blood barrier is exposed to particles suspended in the inhaled air. Whereas the particle-lung interaction may cause deleterious effects on health if the inhaled pollutant aerosols are toxic, this interaction can be beneficial for disease treatment if the inhaled particles are therapeutic aerosolized drug. In either case, an accurate estimation of dose and sites of deposition in the respiratory tract is fundamental to understanding subsequent biological response, and the basic physics of particle motion and engineering knowledge needed to understand these subjects is the topic of this chapter. A large portion of this chapter deals with three fundamental areas necessary to the understanding of particle transport and deposition in the respiratory tract. These are: 1) the physical characteristics of particles, 2) particle behavior in gas flow, and 3) gas flow patterns in the respiratory tract. Other areas, such as particle transport in the developing lung and in the diseased lung are also considered. The chapter concludes with a summary and a brief discussion of areas of future research. PMID:24265235

  12. Particle transport and deposition: basic physics of particle kinetics.

    PubMed

    Tsuda, Akira; Henry, Frank S; Butler, James P

    2013-10-01

    The human body interacts with the environment in many different ways. The lungs interact with the external environment through breathing. The enormously large surface area of the lung with its extremely thin air-blood barrier is exposed to particles suspended in the inhaled air. The particle-lung interaction may cause deleterious effects on health if the inhaled pollutant aerosols are toxic. Conversely, this interaction can be beneficial for disease treatment if the inhaled particles are therapeutic aerosolized drugs. In either case, an accurate estimation of dose and sites of deposition in the respiratory tract is fundamental to understanding subsequent biological response, and the basic physics of particle motion and engineering knowledge needed to understand these subjects is the topic of this article. A large portion of this article deals with three fundamental areas necessary to the understanding of particle transport and deposition in the respiratory tract. These are: (i) the physical characteristics of particles, (ii) particle behavior in gas flow, and (iii) gas-flow patterns in the respiratory tract. Other areas, such as particle transport in the developing lung and in the diseased lung are also considered. The article concludes with a summary and a brief discussion of areas of future research.

  13. Turbulence driven particle transport in Texas Helimak

    NASA Astrophysics Data System (ADS)

    Toufen, D. L.; Guimarães-Filho, Z. O.; Caldas, I. L.; Marcus, F. A.; Gentle, K. W.

    2012-01-01

    We analyze the turbulence driven particle transport in Texas Helimak [K. W. Gentle and H. He, Plasma Sci. Technol. 10, 284 (2008)], a toroidal plasma device with a one-dimensional equilibrium with magnetic curvature and shear. Alterations on the radial electric field, through an external voltage bias, change the spectral plasma characteristics inducing a dominant frequency for negative bias values and a broad band frequency spectrum for positive bias values. When applying a negative bias, the transport is high where the waves propagate with phase velocities near the plasma flow velocity, an indication that the transport is strongly affected by a wave particle resonant interaction. On the other hand, for positive bias values, the plasma has a reversed shear flow, and we observe that the transport is almost zero in the shearless radial region, an evidence of a transport barrier in this region.

  14. Turbulence driven particle transport in Texas Helimak

    SciTech Connect

    Toufen, D. L.; Guimaraes-Filho, Z. O.; Marcus, F. A.; Caldas, I. L.; Gentle, K. W.

    2012-01-15

    We analyze the turbulence driven particle transport in Texas Helimak [K. W. Gentle and H. He, Plasma Sci. Technol. 10, 284 (2008)], a toroidal plasma device with a one-dimensional equilibrium with magnetic curvature and shear. Alterations on the radial electric field, through an external voltage bias, change the spectral plasma characteristics inducing a dominant frequency for negative bias values and a broad band frequency spectrum for positive bias values. When applying a negative bias, the transport is high where the waves propagate with phase velocities near the plasma flow velocity, an indication that the transport is strongly affected by a wave particle resonant interaction. On the other hand, for positive bias values, the plasma has a reversed shear flow, and we observe that the transport is almost zero in the shearless radial region, an evidence of a transport barrier in this region.

  15. Kinetic transport simulation of energetic particles

    NASA Astrophysics Data System (ADS)

    Sheng, He; Waltz, R. E.

    2016-05-01

    A kinetic transport code (EPtran) is developed for the transport of the energetic particles (EPs). The EPtran code evolves the EP distribution function in radius, energy, and pitch angle phase space (r, E, λ) to steady state with classical slowing down, pitch angle scattering, as well as radial and energy transport of the injected EPs (neutral beam injection (NBI) or fusion alpha). The EPtran code is illustrated by treating the transport of NBI fast ions from high-n ITG/TEM micro-turbulence and EP driven unstable low-n Alfvén eigenmodes (AEs) in a well-studied DIII-D NBI heated discharge with significant AE central core loss. The kinetic transport code results for this discharge are compared with previous study using a simple EP density moment transport code ALPHA (R.E. Waltz and E.M. Bass 2014 Nucl. Fusion 54 104006). The dominant EP-AE transport is treated with a local stiff critical EP density (or equivalent pressure) gradient radial transport model modified to include energy-dependence and the nonlocal effects EP drift orbits. All previous EP transport models assume that the EP velocity space distribution function is not significantly distorted from the classical ‘no transport’ slowing down distribution. Important transport distortions away from the slowing down EP spectrum are illustrated by a focus on the coefficient of convection: EP energy flux divided by the product of EP average energy and EP particle flux.

  16. Transport of particles across continental shelves

    SciTech Connect

    Nittrouer, C.A. ); Wright, L.D. College of William and Mary, Gloucester Point, VA )

    1994-02-01

    Transport of particulate material across continental shelves is well demonstrated by the distributions on the seabed and in the water column of geological, chemical, or biological components, whose sources are found farther landward or farther seaward. This paper addresses passive (incapable of swimming) particles and their transport across (not necessarily off) continental shelves during high stands of sea level. Among the general factors that influence across-shelf transport are shelf geometry, latitudinal constraints, and the timescale of interest. Research studies have investigated the physical mechanisms of transport and have made quantitative estimates of mass flux across continental shelves. Important mechanisms include wind-driven flows, internal wave, wave-orbital flows, infragravity phenomena, buoyant plumes, and surf zone processes. Most particulate transport occurs in the portion of the water column closest to the seabed. Therefore physical processes are effective where and when they influence the bottom boundary layer, causing shear stresses sufficient to erode and transport particulate material. Biological and geological processes at the seabed play important roles within the boundary layer. The coupling of hydrodynamic forces from currents and surface gravity waves has a particularly strong influence on across-shelf transport; during storm events, the combined effect can transport particles tens of kilometers seaward. Several important mechanisms can cause bidirectional (seaward and landward) transport, and estimates of the net flux are difficult to obtain. Also, measurements of across-shelf transport are made difficult by the dominance of along-shelf transport. Geological parameters are often the best indicators of net across-shelf transport integrated over time scales longer than a month. For example, fluvially discharged particles with distinct composition commonly accumulate in the midshelf region. 47 refs., 16 figs.

  17. Deterministic particle transport in a ratchet flow

    NASA Astrophysics Data System (ADS)

    Beltrame, Philippe; Makhoul, Mounia; Joelson, Maminirina

    2016-01-01

    This study is motivated by the issue of the pumping of particle through a periodic modulated channel. We focus on a simplified deterministic model of small inertia particles within the Stokes flow framework that we call "ratchet flow." A path-following method is employed in the parameter space in order to retrace the scenario which from bounded periodic solutions leads to particle transport. Depending on whether the magnitude of the particle drag is moderate or large, two main transport mechanisms are identified in which the role of the parity symmetry of the flow differs. For large drag, transport is induced by flow asymmetry, while for moderate drag, since the full transport solution bifurcation structure already exists for symmetric settings, flow asymmetry only makes the transport effective. We analyzed the scenarios of current reversals for each mechanism as well as the role of synchronization. In particular we show that, for large drag, the particle drift is similar to phase slip in a synchronization problem.

  18. Testing Transport Theories with Solar Energetic Particles

    NASA Astrophysics Data System (ADS)

    Dröge, W.; Kartavykh, Y. Y.

    Based on numerical solutions of the focused transport equation we study the question whether pitch angle diffusion coefficients calculated from various suggested models for wave-particle interactions and different assumptions about the nature of magnetic fluctuations in the solar wind can lead to measurable differences in observables such as the rigidity dependence of the mean free path and the angular distributions of solar particles.

  19. The energetic alpha particle transport method EATM

    SciTech Connect

    Kirkpatrick, R.C.

    1998-02-01

    The EATM method is an evolving attempt to find an efficient method of treating the transport of energetic charged particles in a dynamic magnetized (MHD) plasma for which the mean free path of the particles and the Larmor radius may be long compared to the gradient lengths in the plasma. The intent is to span the range of parameter space with the efficiency and accuracy thought necessary for experimental analysis and design of magnetized fusion targets.

  20. Scalable Domain Decomposed Monte Carlo Particle Transport

    NASA Astrophysics Data System (ADS)

    O'Brien, Matthew Joseph

    In this dissertation, we present the parallel algorithms necessary to run domain decomposed Monte Carlo particle transport on large numbers of processors (millions of processors). Previous algorithms were not scalable, and the parallel overhead became more computationally costly than the numerical simulation. The main algorithms we consider are: • Domain decomposition of constructive solid geometry: enables extremely large calculations in which the background geometry is too large to fit in the memory of a single computational node. • Load Balancing: keeps the workload per processor as even as possible so the calculation runs efficiently. • Global Particle Find: if particles are on the wrong processor, globally resolve their locations to the correct processor based on particle coordinate and background domain. • Visualizing constructive solid geometry, sourcing particles, deciding that particle streaming communication is completed and spatial redecomposition. These algorithms are some of the most important parallel algorithms required for domain decomposed Monte Carlo particle transport. We demonstrate that our previous algorithms were not scalable, prove that our new algorithms are scalable, and run some of the algorithms up to 2 million MPI processes on the Sequoia supercomputer.

  1. Scalable Domain Decomposed Monte Carlo Particle Transport

    SciTech Connect

    O'Brien, Matthew Joseph

    2013-12-05

    In this dissertation, we present the parallel algorithms necessary to run domain decomposed Monte Carlo particle transport on large numbers of processors (millions of processors). Previous algorithms were not scalable, and the parallel overhead became more computationally costly than the numerical simulation.

  2. FLUKA: A Multi-Particle Transport Code

    SciTech Connect

    Ferrari, A.; Sala, P.R.; Fasso, A.; Ranft, J.; /Siegen U.

    2005-12-14

    This report describes the 2005 version of the Fluka particle transport code. The first part introduces the basic notions, describes the modular structure of the system, and contains an installation and beginner's guide. The second part complements this initial information with details about the various components of Fluka and how to use them. It concludes with a detailed history and bibliography.

  3. Heavy particle transport in sputtering systems

    NASA Astrophysics Data System (ADS)

    Trieschmann, Jan

    2015-09-01

    This contribution aims to discuss the theoretical background of heavy particle transport in plasma sputtering systems such as direct current magnetron sputtering (dcMS), high power impulse magnetron sputtering (HiPIMS), or multi frequency capacitively coupled plasmas (MFCCP). Due to inherently low process pressures below one Pa only kinetic simulation models are suitable. In this work a model appropriate for the description of the transport of film forming particles sputtered of a target material has been devised within the frame of the OpenFOAM software (specifically dsmcFoam). The three dimensional model comprises of ejection of sputtered particles into the reactor chamber, their collisional transport through the volume, as well as deposition of the latter onto the surrounding surfaces (i.e. substrates, walls). An angular dependent Thompson energy distribution fitted to results from Monte-Carlo simulations is assumed initially. Binary collisions are treated via the M1 collision model, a modified variable hard sphere (VHS) model. The dynamics of sputtered and background gas species can be resolved self-consistently following the direct simulation Monte-Carlo (DSMC) approach or, whenever possible, simplified based on the test particle method (TPM) with the assumption of a constant, non-stationary background at a given temperature. At the example of an MFCCP research reactor the transport of sputtered aluminum is specifically discussed. For the peculiar configuration and under typical process conditions with argon as process gas the transport of aluminum sputtered of a circular target is shown to be governed by a one dimensional interaction of the imposed and backscattered particle fluxes. The results are analyzed and discussed on the basis of the obtained velocity distribution functions (VDF). This work is supported by the German Research Foundation (DFG) in the frame of the Collaborative Research Centre TRR 87.

  4. Particle Swarm Transport in Fracture Networks

    NASA Astrophysics Data System (ADS)

    Pyrak-Nolte, L. J.; Mackin, T.; Boomsma, E.

    2012-12-01

    Colloidal particles of many types occur in fractures in the subsurface as a result of both natural and industrial processes (e.g., environmental influences, synthetic nano- & micro-particles from consumer products, chemical and mechanical erosion of geologic material, proppants used in gas and oil extraction, etc.). The degree of localization and speed of transport of such particles depends on the transport mechanisms, the chemical and physical properties of the particles and the surrounding rock, and the flow path geometry through the fracture. In this study, we investigated the transport of particle swarms through artificial fracture networks. A synthetic fracture network was created using an Objet Eden 350V 3D printer to build a network of fractures. Each fracture in the network had a rectangular cross-sectional area with a constant depth of 7 mm but with widths that ranged from 2 mm to 11 mm. The overall dimensions of the network were 132 mm by 166 mm. The fracture network had 7 ports that were used either as the inlet or outlet for fluid flow through the sample or for introducing a particle swarm. Water flow rates through the fracture were controlled with a syringe pump, and ranged from zero flow to 6 ml/min. Swarms were composed of a dilute suspension (2% by mass) of 3 μm fluorescent polystyrene beads in water. Swarms with volumes of 5, 10, 20, 30 and 60 μl were used and delivered into the network using a second syringe pump. The swarm behavior was imaged using an optical fluorescent imaging system illuminated by green (525 nm) LED arrays and captured by a CCD camera. For fracture networks with quiescent fluids, particle swarms fell under gravity and remained localized within the network. Large swarms (30-60 μl) were observed to bifurcate at shallower depths resulting in a broader dispersal of the particles than for smaller swarm volumes. For all swarm volumes studied, particle swarms tended to bifurcate at the intersection between fractures. These

  5. Particle transport inferences from density sawteeth

    SciTech Connect

    Chen, J.; Li, Q.; Zhuang, G.; Liao, K.; Gentle, K. W.

    2014-05-15

    Sawtooth oscillations in tokamaks are defined by their effect on electron temperature: a rapid flattening of the core profile followed by an outward heat pulse and a slow core recovery caused by central heating. Recent high-resolution, multi-chord interferometer measurements on JTEXT extend these studies to particle transport. Sawteeth only partially flatten the core density profile, but enhanced particle diffusion on the time scale of the thermal crash occurs over much of the profile, relevant for impurities. Recovery between crashes implies an inward pinch velocity extending to the center.

  6. Solar energetic particle transport in the heliosphere

    NASA Astrophysics Data System (ADS)

    Pei, Chunsheng

    2007-08-01

    The transport of solar energetic particles (SEPs) in the inner heliosphere is a very important issue which can affect our daily life. For example, large SEP events can lead to the failure of power grids, interrupt communications, and may participate in global climate change. The SEPS also can harm humans in space and destroy the instruments on board spacecraft. Studying the transport of SEPs also helps us understand remote regions of space which are not visible to us because there are not enough photons in those places. The interplanetary magnetic field is the medium in which solar energetic particles travel. The Parker Model of the solar wind and its successor, the Weber and Davis model, have been the dominant models of the solar wind and the interplanetary magnetic field since 1960s. In this thesis, I have reviewed these models and applied an important correction to the Weber and Davis model Various solar wind models and their limitations are presented. Different models can affect the calculation of magnetic field direction at 1 AU by as much as about 30%. Analysis of the onset of SEP events could be used to infer the release time of solar energetic particles and to differentiate between models of particle acceleration near the Sun. It is demonstrated that because of the nature of the stochastic heliospheric magnetic field, the path length measured along the line of force can be shorter than that of the nominal Parker spiral. These results help to explain recent observations. A two dimensional model and a fully three dimensional numerical model for the transport of SEPs has been developed based on Parker's transport equation for the first time. ''Reservoir'' phenomenon, which means the inner heliosphere works like a reservoir for SEPs during large SEP events, and multi-spacecraft observation of peak intensities are explained by this numerical model.

  7. Gyrokinetic particle simulation of neoclassical transport

    SciTech Connect

    Lin, Z.; Tang, W.M.; Lee, W.W.

    1995-08-01

    A time varying weighting ({delta}{ital f} ) scheme for gyrokinetic particle simulation is applied to a steady-state, multispecies simulation of neoclassical transport. Accurate collision operators conserving momentum and energy are developed and implemented. Simulation results using these operators are found to agree very well with neoclassical theory. For example, it is dynamically demonstrated that like-particle collisions produce no particle flux and that the neoclassical fluxes are ambipolar for an ion--electron plasma. An important physics feature of the present scheme is the introduction of toroidal flow to the simulations. Simulation results are in agreement with the existing analytical neoclassical theory. The poloidal electric field associated with toroidal mass flow is found to enhance density gradient-driven electron particle flux and the bootstrap current while reducing temperature gradient-driven flux and current. Finally, neoclassical theory in steep gradient profile relevant to the edge regime is examined by taking into account finite banana width effects. In general, in the present work a valuable new capability for studying important aspects of neoclassical transport inaccessible by conventional analytical calculation processes is demonstrated. {copyright} {ital 1995} {ital American} {ital Institute} {ital of} {ital Physics}.

  8. Gyrokinetic particle simulation of neoclassical transport

    SciTech Connect

    Lin, Z.; Tang, W.M.; Lee, W.W.

    1995-02-01

    A time varying weighting ({delta} f) scheme for gyrokinetic particle simulation is applied to a steady state, multi-species simulation of neoclassical transport. Accurate collision operators conserving momentum and energy are developed and implemented. Simulation results using these operators are found to agree very well with neoclassical theory. For example, it is dynamically demonstrated in these multispecies simulations that like-particle collisions produce no particle flux and that the neoclassical fluxes are ambipolar for an ion-electron plasma. An important physics feature of the present scheme is the introduction of toroidal sheared flow to the simulations. Simulation results are in agreement with the existing analytical neoclassical theory of Hinton and Wong. The poloidal electric field associated with toroidal mass flow is found to enhance density gradient driven electron particle flux and the bootstrap current while reducing temperature gradient driven flux and current. Finally, neoclassical theory in steep gradient profile relevant to the edge regime is examined by taking into account finite banana width effects. In general, the present work demonstrates a valuable new capability for studying important aspects of neoclassical transport inaccessible by conventional analytical calculation processes.

  9. Testing Transport Theories with Solar Energetic Particles

    NASA Astrophysics Data System (ADS)

    Dröge, W.; Kartavykh, Y. Y.

    2009-03-01

    The detailed modeling of solar particle events offers the possibility of deriving coefficients describing the propagation of energetic particles in the inner heliosphere such as scattering mean free paths and thus to test the validity of different theories for the interaction of the particles with magnetic field fluctuations. In addition, information about the three-dimensional structure and the dynamical properties of the fluctuations can be obtained and compared with results from direct magnetic field observations. We apply different methods to numerically solve the focused transport equation for pitch angle diffusion coefficients calculated from standard and dynamical quasi-linear theory, and investigate the resulting pitch angle distributions for 100 keV electrons and for MeV protons. We find that pitch angle distributions predicted for electrons from a model comprising dynamical quasi-linear theory and the assumption that the fluctuations are composed of a 20% slab and an 80% two-dimensional component differ significantly from those predicted for protons. A comparison with particle observations from the solar event of 2000 February 18 reveals that these predictions are also in strong disagreement with the observed electron pitch angle distributions. Our findings indicate that the above model, inspite of its recent success in making quantitatively correct predictions for the particle's scattering mean free path parallel to the average magnetic field from observations of solar wind turbulence, is still not complete.

  10. Parallel and Portable Monte Carlo Particle Transport

    NASA Astrophysics Data System (ADS)

    Lee, S. R.; Cummings, J. C.; Nolen, S. D.; Keen, N. D.

    1997-08-01

    We have developed a multi-group, Monte Carlo neutron transport code in C++ using object-oriented methods and the Parallel Object-Oriented Methods and Applications (POOMA) class library. This transport code, called MC++, currently computes k and α eigenvalues of the neutron transport equation on a rectilinear computational mesh. It is portable to and runs in parallel on a wide variety of platforms, including MPPs, clustered SMPs, and individual workstations. It contains appropriate classes and abstractions for particle transport and, through the use of POOMA, for portable parallelism. Current capabilities are discussed, along with physics and performance results for several test problems on a variety of hardware, including all three Accelerated Strategic Computing Initiative (ASCI) platforms. Current parallel performance indicates the ability to compute α-eigenvalues in seconds or minutes rather than days or weeks. Current and future work on the implementation of a general transport physics framework (TPF) is also described. This TPF employs modern C++ programming techniques to provide simplified user interfaces, generic STL-style programming, and compile-time performance optimization. Physics capabilities of the TPF will be extended to include continuous energy treatments, implicit Monte Carlo algorithms, and a variety of convergence acceleration techniques such as importance combing.

  11. Particle transport through hydrogels is charge asymmetric.

    PubMed

    Zhang, Xiaolu; Hansing, Johann; Netz, Roland R; DeRouchey, Jason E

    2015-02-01

    Transport processes within biological polymer networks, including mucus and the extracellular matrix, play an important role in the human body, where they serve as a filter for the exchange of molecules and nanoparticles. Such polymer networks are complex and heterogeneous hydrogel environments that regulate diffusive processes through finely tuned particle-network interactions. In this work, we present experimental and theoretical studies to examine the role of electrostatics on the basic mechanisms governing the diffusion of charged probe molecules inside model polymer networks. Translational diffusion coefficients are determined by fluorescence correlation spectroscopy measurements for probe molecules in uncharged as well as cationic and anionic polymer solutions. We show that particle transport in the charged hydrogels is highly asymmetric, with diffusion slowed down much more by electrostatic attraction than by repulsion, and that the filtering capability of the gel is sensitive to the solution ionic strength. Brownian dynamics simulations of a simple model are used to examine key parameters, including interaction strength and interaction range within the model networks. Simulations, which are in quantitative agreement with our experiments, reveal the charge asymmetry to be due to the sticking of particles at the vertices of the oppositely charged polymer networks.

  12. Particle Transport through Hydrogels Is Charge Asymmetric

    PubMed Central

    Zhang, Xiaolu; Hansing, Johann; Netz, Roland R.; DeRouchey, Jason E.

    2015-01-01

    Transport processes within biological polymer networks, including mucus and the extracellular matrix, play an important role in the human body, where they serve as a filter for the exchange of molecules and nanoparticles. Such polymer networks are complex and heterogeneous hydrogel environments that regulate diffusive processes through finely tuned particle-network interactions. In this work, we present experimental and theoretical studies to examine the role of electrostatics on the basic mechanisms governing the diffusion of charged probe molecules inside model polymer networks. Translational diffusion coefficients are determined by fluorescence correlation spectroscopy measurements for probe molecules in uncharged as well as cationic and anionic polymer solutions. We show that particle transport in the charged hydrogels is highly asymmetric, with diffusion slowed down much more by electrostatic attraction than by repulsion, and that the filtering capability of the gel is sensitive to the solution ionic strength. Brownian dynamics simulations of a simple model are used to examine key parameters, including interaction strength and interaction range within the model networks. Simulations, which are in quantitative agreement with our experiments, reveal the charge asymmetry to be due to the sticking of particles at the vertices of the oppositely charged polymer networks. PMID:25650921

  13. Transport of Particle Swarms Through Fractures

    NASA Astrophysics Data System (ADS)

    Boomsma, E.; Pyrak-Nolte, L. J.

    2011-12-01

    The transport of engineered micro- and nano-scale particles through fractured rock is often assumed to occur as dispersions or emulsions. Another potential transport mechanism is the release of particle swarms from natural or industrial processes where small liquid drops, containing thousands to millions of colloidal-size particles, are released over time from seepage or leaks. Swarms have higher velocities than any individual colloid because the interactions among the particles maintain the cohesiveness of the swarm as it falls under gravity. Thus particle swarms give rise to the possibility that engineered particles may be transported farther and faster in fractures than predicted by traditional dispersion models. In this study, the effect of fractures on colloidal swarm cohesiveness and evolution was studied as a swarm falls under gravity and interacts with fracture walls. Transparent acrylic was used to fabricate synthetic fracture samples with either (1) a uniform aperture or (2) a converging aperture followed by a uniform aperture (funnel-shaped). The samples consisted of two blocks that measured 100 x 100 x 50 mm. The separation between these blocks determined the aperture (0.5 mm to 50 mm). During experiments, a fracture was fully submerged in water and swarms were released into it. The swarms consisted of dilute suspensions of either 25 micron soda-lime glass beads (2% by mass) or 3 micron polystyrene fluorescent beads (1% by mass) with an initial volume of 5μL. The swarms were illuminated with a green (525 nm) LED array and imaged optically with a CCD camera. In the uniform aperture fracture, the speed of the swarm prior to bifurcation increased with aperture up to a maximum at a fracture width of approximately 10 mm. For apertures greater than ~15 mm, the velocity was essentially constant with fracture width (but less than at 10 mm). This peak suggests that two competing mechanisms affect swarm velocity in fractures. The wall provides both drag, which

  14. High Energy Particle Transport Code System.

    2003-12-17

    Version 00 NMTC/JAM is an upgraded version of the code CCC-694/NMTC-JAERI97, which was developed in 1982 at JAERI and is based on the CCC-161/NMTC code system. NMTC/JAM simulates high energy nuclear reactions and nuclear meson transport processes. The applicable energy range of NMTC/JAM was extended in principle up to 200 GeV for nucleons and mesons by introducing the high energy nuclear reaction code Jet-Aa Microscopic (JAM) for the intra-nuclear cascade part. For the evaporation andmore » fission process, a new model, GEM, can be used to describe the light nucleus production from the excited residual nucleus. According to the extension of the applicable energy, the nucleon-nucleus non-elastic, elastic and differential elastic cross section data were upgraded. In addition, the particle transport in a magnetic field was implemented for beam transport calculations. Some new tally functions were added, and the format of input and output of data is more user friendly. These new calculation functions and utilities provide a tool to carry out reliable neutronics study of a large scale target system with complex geometry more accurately and easily than with the previous model. It implements an intranuclear cascade model taking account of the in-medium nuclear effects and the preequilibrium calculation model based on the exciton one. For treating the nucleon transport process, the nucleon-nucleus cross sections are revised to those derived by the systematics of Pearlstein. Moreover, the level density parameter derived by Ignatyuk is included as a new option for particle evaporation calculation. A geometry package based on the Combinatorial Geometry with multi-array system and the importance sampling technique is implemented in the code. Tally function is also employed for obtaining such physical quantities as neutron energy spectra, heat deposition and nuclide yield without editing a history file. The code can simulate both the primary spallation reaction and the

  15. Experimental Test of Resonant Particle Transport Theory

    NASA Astrophysics Data System (ADS)

    Eggleston, D. L.

    1999-11-01

    It has long been suggested that the single-particle resonant transport theory developed for tandem mirrors might be able to explain asymmetry-induced transport in Malmberg-Penning traps.(C.F. Driscoll and J.H. Malmberg, Phys. Rev. Lett. 50), 167 (1983). We have recently adapted this theory to non-neutral plasmas(D.L. Eggleston and T.M. O'Neil, Phys. Plasmas 6), 2699 (1999). and are attempting an experimental test under the simplest possible conditions. The experiment(D.L. Eggleston, Phys. Plasmas 4), 1196 (1997). employs forty wall sectors in order to apply an asymmetry consisting of a single Fourier mode: φ1 =φ _nlωexp [ i( fracnπ Lz+lθ -ω t) ] . The electron density is kept low enough to avoid complications due to collective effects (shielding and waves) while the usual azimuthal E× B drift is maintained by a negatively biased central wire. We have confirmed the dominant role played by resonant particlesfootnote D.L. Eggleston, Bull. Am. Phys. Soc. 43, 1805 (1998). and here report on an absolute comparison between experimental and theoretical values for the radial particle flux. Interestingly, our initial results indicate that the experimental flux is forty times smaller than the theoretical value.

  16. PARTICLE TRANSPORT IN YOUNG PULSAR WIND NEBULAE

    SciTech Connect

    Tang Xiaping; Chevalier, Roger A. E-mail: rac5x@virginia.edu

    2012-06-20

    The model for pulsar wind nebulae (PWNe) as a result of the magnetohydrodynamic (MHD) downstream flow from a shocked, relativistic pulsar wind has been successful in reproducing many features of the nebulae observed close to central pulsars. However, observations of well-studied young nebulae like the Crab Nebula, 3C 58, and G21.5-0.9 do not show the toroidal magnetic field on a larger scale that might be expected in the MHD flow model; in addition, the radial variation of spectral index due to synchrotron losses is smoother than expected in the MHD flow model. We find that pure diffusion models can reproduce the basic data on nebular size and spectral index variation for the Crab, 3C 58, and G21.5-0.9. Most of our models use an energy-independent diffusion coefficient; power-law variations of the coefficient with energy are degenerate with variation in the input particle energy distribution index in the steady state, transmitting boundary case. Energy-dependent diffusion is a possible reason for the smaller diffusion coefficient inferred for the Crab. Monte Carlo simulations of the particle transport allowing for advection and diffusion of particles suggest that diffusion dominates over much of the total nebular volume of the Crab. Advection dominates close to the pulsar and is likely to play a role in the X-ray half-light radius. The source of diffusion and mixing of particles is uncertain, but may be related to the Rayleigh-Taylor instability at the outer boundary of a young PWN or to instabilities in the toroidal magnetic field structure.

  17. Modeling pollutant transport using a meshless-lagrangian particle model

    SciTech Connect

    Carrington, D. B.; Pepper, D. W.

    2002-01-01

    A combined meshless-Lagrangian particle transport model is used to predict pollutant transport over irregular terrain. The numerical model for initializing the velocity field is based on a meshless approach utilizing multiquadrics established by Kansa. The Lagrangian particle transport technique uses a random walk procedure to depict the advection and dispersion of pollutants over any type of surface, including street and city canyons

  18. Transport of airborne particles within a room.

    PubMed

    Richmond-Bryant, J; Eisner, A D; Brixey, L A; Wiener, R W

    2006-02-01

    The objective of this study is to test a technique used to analyze contaminant transport in the wake of a bluff body under controlled experimental conditions for application to aerosol transport in a complex furnished room. Specifically, the hypothesis tested by our work is that the dispersion of contaminants in a room is related to the turbulence kinetic energy and length scale. This turbulence is, in turn, determined by the size and shape of furnishings within the room and by the ventilation characteristics. This approach was tested for indoor dispersion through computational fluid dynamics simulations and laboratory experiments. In each, 3 mum aerosols were released in a furnished room with varied contaminant release locations (at the inlet vent or under a desk). The realizable k approximately epsilon model was employed in the simulations, followed by a Lagrangian particle trajectory simulation used as input for an in-house FORTRAN code to compute aerosol concentration. For the experiments, concentrations were measured simultaneously at seven locations by laser photometry, and air velocity was measured using laser Doppler velocimetry. The results suggest that turbulent diffusion is a significant factor in contaminant residence time in a furnished room. This procedure was then expanded to develop a simplified correlation between contaminant residence time and the number of enclosing surfaces around a point containing the contaminant. Practical Implications The work presented here provides a methodology for relating local aerosol residence time to properties of room ventilation and furniture arrangement. This technique may be used to assess probable locations of high concentration by knowing only the particle release location, furniture configuration, inlet and outlet locations, and air speeds, which are all observable features. Applications of this method include development of 'rules of thumb' for first responders entering a room where an agent has been released

  19. High performance stream computing for particle beam transport simulations

    NASA Astrophysics Data System (ADS)

    Appleby, R.; Bailey, D.; Higham, J.; Salt, M.

    2008-07-01

    Understanding modern particle accelerators requires simulating charged particle transport through the machine elements. These simulations can be very time consuming due to the large number of particles and the need to consider many turns of a circular machine. Stream computing offers an attractive way to dramatically improve the performance of such simulations by calculating the simultaneous transport of many particles using dedicated hardware. Modern Graphics Processing Units (GPUs) are powerful and affordable stream computing devices. The results of simulations of particle transport through the booster-to-storage-ring transfer line of the DIAMOND synchrotron light source using an NVidia GeForce 7900 GPU are compared to the standard transport code MAD. It is found that particle transport calculations are suitable for stream processing and large performance increases are possible. The accuracy and potential speed gains are compared and the prospects for future work in the area are discussed.

  20. Peristaltic particle transport using the Lattice Boltzmann method

    SciTech Connect

    Connington, Kevin William; Kang, Qinjun; Viswanathan, Hari S; Abdel-fattah, Amr; Chen, Shiyi

    2009-01-01

    Peristaltic transport refers to a class of internal fluid flows where the periodic deformation of flexible containing walls elicits a non-negligible fluid motion. It is a mechanism used to transport fluid and immersed solid particles in a tube or channel when it is ineffective or impossible to impose a favorable pressure gradient or desirous to avoid contact between the transported mixture and mechanical moving parts. Peristaltic transport occurs in many physiological situations and has myriad industrial applications. We focus our study on the peristaltic transport of a macroscopic particle in a two-dimensional channel using the lattice Boltzmann method. We systematically investigate the effect of variation of the relevant dimensionless parameters of the system on the particle transport. We find, among other results, a case where an increase in Reynolds number can actually lead to a slight increase in particle transport, and a case where, as the wall deformation increases, the motion of the particle becomes non-negative only. We examine the particle behavior when the system exhibits the peculiar phenomenon of fluid trapping. Under these circumstances, the particle may itself become trapped where it is subsequently transported at the wave speed, which is the maximum possible transport in the absence of a favorable pressure gradient. Finally, we analyze how the particle presence affects stress, pressure, and dissipation in the fluid in hopes of determining preferred working conditions for peristaltic transport of shear-sensitive particles. We find that the levels of shear stress are most hazardous near the throat of the channel. We advise that shear-sensitive particles should be transported under conditions where trapping occurs as the particle is typically situated in a region of innocuous shear stress levels.

  1. Transport of active ellipsoidal particles in ratchet potentials

    SciTech Connect

    Ai, Bao-Quan Wu, Jian-Chun

    2014-03-07

    Rectified transport of active ellipsoidal particles is numerically investigated in a two-dimensional asymmetric potential. The out-of-equilibrium condition for the active particle is an intrinsic property, which can break thermodynamical equilibrium and induce the directed transport. It is found that the perfect sphere particle can facilitate the rectification, while the needlelike particle destroys the directed transport. There exist optimized values of the parameters (the self-propelled velocity, the torque acting on the body) at which the average velocity takes its maximal value. For the ellipsoidal particle with not large asymmetric parameter, the average velocity decreases with increasing the rotational diffusion rate, while for the needlelike particle (very large asymmetric parameter), the average velocity is a peaked function of the rotational diffusion rate. By introducing a finite load, particles with different shapes (or different self-propelled velocities) will move to the opposite directions, which is able to separate particles of different shapes (or different self-propelled velocities)

  2. Alpha particle transport in the presence of toroidal driftwaves

    NASA Astrophysics Data System (ADS)

    Nishimura, Y.; Huang, B.; Cheng, C. Z.

    2013-10-01

    Transport of fusion born α particles is investigated in the presence of poloidally mode coupled ballooning type driftwaves. The onset of orbit stochasticity is understood as an overlapping of electric islands produced by the driftwaves, whose overlapping threshold is lower for the thermal particles than for the α particles (high energy particles). For the trapped particles, transport is determined by the particles' sensitive response to the fluctuation at the banana tip where the parallel velocity decreases drastically. Time dependent turbulent signals (finite ω* effects) give rise to the shift of the resonant radial locations, which again is larger for the thermal particles than the high energy particles. The transport process is influenced by the microscopic structure of the islands, which deviates from the Gaussian process. This work is supported by National Science Council of Taiwan, NSC 100-2112-M-006-021-MY3 and NCKU Top University Project.

  3. The telegraph equation in charged particle transport

    NASA Technical Reports Server (NTRS)

    Gombosi, T. I.; Jokipii, J. R.; Kota, J.; Lorencz, K.; Williams, L. L.

    1993-01-01

    We present a new derivation of the telegraph equation which modifies its coefficients. First, an infinite order partial differential equation is obtained for the velocity space solid angle-averaged phase-space distribution of particles which underwent at least a few collisions. It is shown that, in the lowest order asymptotic expansion, this equation simplifies to the well-known diffusion equation. The second-order asymptotic expansion for isotropic small-angle scattering results in a modified telegraph equation with a signal propagation speed of v(5/11) exp 1/2 instead of the usual v/3 exp 1/2. Our derivation of a modified telegraph equation follows from an expansion of the Boltzmann equation in the relevant smallness parameters and not from a truncation of an eigenfunction expansion. This equation is consistent with causality. It is shown that, under steady state conditions in a convecting plasma, the telegraph equation may be regarded as a diffusion equation with a modified transport coefficient, which describes a combination of diffusion and cosmic-ray inertia.

  4. Entropic Ratchet transport of interacting active Brownian particles

    SciTech Connect

    Ai, Bao-Quan; He, Ya-Feng; Zhong, Wei-Rong

    2014-11-21

    Directed transport of interacting active (self-propelled) Brownian particles is numerically investigated in confined geometries (entropic barriers). The self-propelled velocity can break thermodynamical equilibrium and induce the directed transport. It is found that the interaction between active particles can greatly affect the ratchet transport. For attractive particles, on increasing the interaction strength, the average velocity first decreases to its minima, then increases, and finally decreases to zero. For repulsive particles, when the interaction is very weak, there exists a critical interaction at which the average velocity is minimal, nearly tends to zero, however, for the strong interaction, the average velocity is independent of the interaction.

  5. Two Dimensional Particle Transport in the Cct Tokamak Edge Plasma

    NASA Astrophysics Data System (ADS)

    Tynan, George Robert

    The physics of particle transport in the CCT tokamak plasma edge is studied experimentally in this dissertation. A full poloidal array of Langmuir probes is used to measure the equilibrium plasma and transport properties of the CCT edge plasma during Ohmic and H-mode discharges. During Ohmic L-mode, the equilibrium plasma density and electron temperature are found to vary on a magnetic flux surface. The equilibrium plasma distribution coincides with the distribution of particle transport. Inside the last closed flux surface, convective processes dominate particle transport. Several large convective cells are observed near the limiter radius. At and beyond the limiter radius, turbulent transport is significant. The turbulence appears to be driven by the convective plasma flows. In Ohmic L-mode-like discharges, plasma transport occurs predominantly through the low-field region of the tokamak with local bad curvature. The convective cells are destroyed at the L-H transition and replaced with a more poloidally symmetric, radially narrow jet of plasma flow at the limiter radius. The jet effectively isolates the plasma core from the scrape -off layer. The turbulence associated with the convective cells is reduced across the edge region. Radial particle transport across the limiter radius is thus inhibited and the global particle confinement is increased. The available data suggest that the residual H-mode particle transport is more poloidally symmetric.

  6. Inferring transient particle transport dynamics in live cells.

    PubMed

    Monnier, Nilah; Barry, Zachary; Park, Hye Yoon; Su, Kuan-Chung; Katz, Zachary; English, Brian P; Dey, Arkajit; Pan, Keyao; Cheeseman, Iain M; Singer, Robert H; Bathe, Mark

    2015-09-01

    Live-cell imaging and particle tracking provide rich information on mechanisms of intracellular transport. However, trajectory analysis procedures to infer complex transport dynamics involving stochastic switching between active transport and diffusive motion are lacking. We applied Bayesian model selection to hidden Markov modeling to infer transient transport states from trajectories of mRNA-protein complexes in live mouse hippocampal neurons and metaphase kinetochores in dividing human cells. The software is available at http://hmm-bayes.org/.

  7. The effects of realistic pancake solenoids on particle transport

    SciTech Connect

    Gu, X.; Okamura, M.; Pikin, A.; Fischer, W.; Luo, Y.

    2011-02-01

    Solenoids are widely used to transport or focus particle beams. Usually, they are assumed as being ideal solenoids with a high axial-symmetry magnetic field. Using the Vector Field Opera program, we modeled asymmetrical solenoids with realistic geometry defects, caused by finite conductor and current jumpers. Their multipole magnetic components were analyzed with the Fourier fit method; we present some possible optimized methods for them. We also discuss the effects of 'realistic' solenoids on low energy particle transport. The finding in this paper may be applicable to some lower energy particle transport system design.

  8. Microstripes for transport and separation of magnetic particles

    PubMed Central

    Donolato, Marco; Dalslet, Bjarke Thomas; Hansen, Mikkel Fougt

    2012-01-01

    We present a simple technique for creating an on-chip magnetic particle conveyor based on exchange-biased permalloy microstripes. The particle transportation relies on an array of stripes with a spacing smaller than their width in conjunction with a periodic sequence of four different externally applied magnetic fields. We demonstrate the controlled transportation of a large population of particles over several millimeters of distance as well as the spatial separation of two populations of magnetic particles with different magnetophoretic mobilities. The technique can be used for the controlled selective manipulation and separation of magnetically labelled species. PMID:22655020

  9. Microstripes for transport and separation of magnetic particles.

    PubMed

    Donolato, Marco; Dalslet, Bjarke Thomas; Hansen, Mikkel Fougt

    2012-06-01

    We present a simple technique for creating an on-chip magnetic particle conveyor based on exchange-biased permalloy microstripes. The particle transportation relies on an array of stripes with a spacing smaller than their width in conjunction with a periodic sequence of four different externally applied magnetic fields. We demonstrate the controlled transportation of a large population of particles over several millimeters of distance as well as the spatial separation of two populations of magnetic particles with different magnetophoretic mobilities. The technique can be used for the controlled selective manipulation and separation of magnetically labelled species.

  10. Electrokinetic transport of heterogeneous particles in suspension

    NASA Technical Reports Server (NTRS)

    Velegol, D.; Garoff, Stephen; Anderson, John L.

    1994-01-01

    The Smoluchowski equation for electrophoresis predicts that the electrophoretic velocity of a particle is proportional to its zeta potential but not its size, shape, or orientation. Furthermore, the equation predicts that the rotation rate is identically zero. The Smoluchowski equation fails for heterogeneous particles (i.e., those with nonuniform zeta potentials). Recent theories and experiments show that particles with a dipole moment of zeta potential rotate into alignment with an externally applied electric field. For doublets (particles composed of two spheres) the rotation rate depends on (1) whether the spheres are rigidly rocked or freely rotating, and (2) the gap distance between the spheres. The relative configuration of two coagulated spheres is determined by the colloidal forces of the system. The goal of our research is to use measurements of electrophoretic rotation to determine the gap between two spheres of a colloidal doublet and also to determine whether or not the doublet is rigid.

  11. Electrokinetic transport of heterogeneous particles in suspensions

    NASA Technical Reports Server (NTRS)

    Anderson, John L.

    1993-01-01

    The focus of research over the past nine months had been on a theory for the electrophoresis of slender particles and on trajectory analysis of colloidal doublets rotating in electric fields. Brief summaries of the research are given.

  12. Moisture Transport in Silica Gel Particle Beds: I. Theoretical Study

    SciTech Connect

    Pesaran, A. A.; Mills, A. F.

    1986-08-01

    Diffusion mechanisms of moisture within silica gel particles are investigated. It is found that for microporous silica gel surface diffusion is the dominant mechanism of moisture transport, while for macroporous silica gel both Knudsen and surface diffusion are important.

  13. Pump-free transport of magnetic particles in microfluidic channels

    NASA Astrophysics Data System (ADS)

    Danckwardt, Nils Z.; Franzreb, Matthias; Guber, Andreas E.; Saile, Volker

    2011-11-01

    The use of magnetic particles in microfluidic devices offers new possibilities and a new degree of freedom to sequential synthesis and preparative or analytical procedures in very small volumes. In contrast to most of the traditional approaches where the liquid phase is flushed or pumped along a solid phase, the transport of magnetic particles through a microfluidic channel has the advantage of reduced reagent consumption and simpler, smaller systems. By lining up different reservoirs along the transport direction, reactions with different agents can be accomplished. Here, we present a pump and valve-free microfluidic particle transport system. By creating a simple and very effective layout of soft magnetic structures, which concentrate an external homogeneous magnetic field, a passive, thus easy to operate structure was generated. Most importantly, this layout is based on a simple tube by which fluidic and magnetic parts are separated. The tube itself is disposable and can be replaced prior to vital reactions, thus helping reduce sample cross-contaminations without affecting the particle transport properties. The layout of the device was thoroughly examined by a computer simulation of the particle trajectories, and the results were confirmed by experiments on a micro-machined demonstrator, which revealed an effective transport speed of up to 5 mm/s in 30 mT magnetic fields. Thus, we present a microfluidic transport device that combines the advantages of magnetic particles in microfluidic systems with a simple single-use technology for, e.g., bioanalytical purposes.

  14. Respirable Particle Transport from Surfaces by Shock Waves

    NASA Astrophysics Data System (ADS)

    Truman, C. R.; Vorobieff, P.; Conroy, J.; Wayne, P.; White, R.; Anderson, M.; Kumar, S.

    2011-11-01

    Resuspension of particles from planar surfaces was studied in a shock tube. Respirable particles (aerodyn. diam. <=5 μm) and slightly larger non-respirable particles were tested on smooth and rough surfaces at Mach 1.2 to 2.0. Particles of specified size were deposited on substrates of prescribed roughness. Surface roughness and particle-surface adhesion forces were quantified by atomic force microscopy. Alkylthiol self assembled monolayers (SAMs) were applied to precisely control surface roughness and surface chemistry. The advection of particles initially at rest on the surface by the rapidly accelerated flow were measured by Mie scattering. An ultra-high-speed digital camera with pulsed laser sheet illumination enables time-resolved particle transport diagnostics. Although particles are initially swept off a smooth surface with greater ease, cloud propagation speed is higher for a rough surface. At late times the cloud height is greater for a rough surface so that particles end up in a faster region of the boundary layer. Because our respirable and non-respirable particle size distributions overlap, further study is required. Shear-driven Kelvin-Helmholtz vortices clearly visible in some images likely play a prominent role in particle transport. Supported by DTRA Threat Agent Science, Agent Characterization.

  15. Experimental characterization of solid particle transport by slug flow using Particle Image Velocimetry

    NASA Astrophysics Data System (ADS)

    Goharzadeh, A.; Rodgers, P.

    2009-02-01

    This paper presents an experimental study of gas-liquid slug flow on solid particle transport inside a horizontal pipe with two types of experiments conducted. The influence of slug length on solid particle transportation is characterized using high speed photography. Using combined Particle Image Velocimetry (PIV) with Refractive Index Matching (RIM) and fluorescent tracers (two-phase oil-air loop) the velocity distribution inside the slug body is measured. Combining these experimental analyses, an insight is provided into the physical mechanism of solid particle transportation due to slug flow. It was observed that the slug body significantly influences solid particle mobility. The physical mechanism of solid particle transportation was found to be discontinuous. The inactive region (in terms of solid particle transport) upstream of the slug nose was quantified as a function of gas-liquid composition and solid particle size. Measured velocity distributions showed a significant drop in velocity magnitude immediately upstream of the slug nose and therefore the critical velocity for solid particle lifting is reached further upstream.

  16. Fluid enhancement of particle transport in nanochannels

    NASA Astrophysics Data System (ADS)

    Li, Zhigang; Drazer, German

    2006-11-01

    We investigate the effect that fluid density has on the mobility of a spherical nanoparticle moving through a cylindrical nanochannel. The solid nanoparticle, the channel wall, and the fluid are described at the molecular level, and we use molecular dynamics simulations to study their behavior. We consider densities ranging from a few fluid molecules to a relatively dense fluid inside the channel. The inhomogeneous distribution of the fluid molecules inside the channel results in the competition of two effects as the fluid density is increased. The fluid molecules adsorb on the channel surface, and thus reduce the friction with the wall and enhance the mobility of the particle. On the other hand, the addition of fluid molecules increases the viscous drag on the particle and thus reduces its mobility. The outcome of these competing effects depends on the strength of the interaction between the atoms in the particle and those in the wall. We examine three different cases, i.e., intermediate, strong, and weak interaction energies. For an intermediate interaction, two distinct peaks are observed in the mobility of the particle as the first two adsorbed fluid layers form. On the other hand, a monotonously increasing mobility is found for a strong interaction energy, and a nearly constant mobility is observed for a weak interaction.

  17. Sandia Computational Engine for Particle Transport for Radiation Effects.

    2014-09-01

    Version 00 The SCEPTRE code solves the linear Boltzmann transport equation for one-, two- and three-dimensional geometries. SCEPTRE is capable of handling any particle type for which multigroup-Legendre cross sections are available. However, the code is designed primarily to model the transport of photons, electrons, and positrons through matter. For efficiency and flexibility, SCEPTRE contains capability for both the first- and second-order forms of the Boltzmann transport equation.

  18. Dissipative particle dynamics model for colloid transport in porous media

    SciTech Connect

    Pan, W.; Tartakovsky, A. M.

    2013-08-01

    We present that the transport of colloidal particles in porous media can be effectively modeled with a new formulation of dissipative particle dynamics, which augments standard DPD with non-central dissipative shear forces between particles while preserving angular momentum. Our previous studies have demonstrated that the new formulation is able to capture accurately the drag forces as well as the drag torques on colloidal particles that result from the hydrodynamic retardation effect. In the present work, we use the new formulation to study the contact efficiency in colloid filtration in saturated porous media. Note that the present model include all transport mechanisms simultaneously, including gravitational sedimentation, interception and Brownian diffusion. Our results of contact efficiency show a good agreement with the predictions of the correlation equation proposed by Tufenkji and EliMelech, which also incorporate all transport mechanisms simultaneously without the additivity assumption.

  19. Charged-particle calculations using Boltzmann transport methods

    SciTech Connect

    Hoffman, T.J.; Dodds, H.L. Jr.; Robinson, M.T.; Holmes, D.K.

    1981-01-01

    Several aspects of radiation damage effects in fusion reactor neutron and ion irradiation environments are amenable to treatment by transport theory methods. In this paper, multigroup transport techniques are developed for the calculation of charged particle range distributions, reflection coefficients, and sputtering yields. The Boltzmann transport approach can be implemented, with minor changes, in standard neutral particle computer codes. With the multigroup discrete ordinates code, ANISN, determination of ion and target atom distributions as functions of position, energy, and direction can be obtained without the stochastic error associated with atomistic computer codes such as MARLOWE and TRIM. With the multigroup Monte Carlo code, MORSE, charged particle effects can be obtained for problems associated with very complex geometries. Results are presented for several charged particle problems. Good agreement is obtained between quantities calculated with the multigroup approach and those obtained experimentally or by atomistic computer codes.

  20. Stochastic Simulation of Lagrangian Particle Transport in Turbulent Flows

    NASA Astrophysics Data System (ADS)

    Sun, Guangyuan

    This dissertation presents the development and validation of the One Dimensional Turbulence (ODT) multiphase model in the Lagrangian reference frame. ODT is a stochastic model that captures the full range of length and time scales and provides statistical information on fine-scale turbulent-particle mixing and transport at low computational cost. The flow evolution is governed by a deterministic solution of the viscous processes and a stochastic representation of advection through stochastic domain mapping processes. The three algorithms for Lagrangian particle transport are presented within the context of the ODT approach. The Type-I and -C models consider the particle-eddy interaction as instantaneous and continuous change of the particle position and velocity, respectively. The Type-IC model combines the features of the Type-I and -C models. The models are applied to the multi-phase flows in the homogeneous decaying turbulence and turbulent round jet. Particle dispersion, dispersion coefficients, and velocity statistics are predicted and compared with experimental data. The models accurately reproduces the experimental data sets and capture particle inertial effects and trajectory crossing effect. A new adjustable particle parameter is introduced into the ODT model, and sensitivity analysis is performed to facilitate parameter estimation and selection. A novel algorithm of the two-way momentum coupling between the particle and carrier phases is developed in the ODT multiphase model. Momentum exchange between the phases is accounted for through particle source terms in the viscous diffusion. The source term is implemented in eddy events through a new kernel transformation and an iterative procedure is required for eddy selection. This model is applied to a particle-laden turbulent jet flow, and simulation results are compared with experimental measurements. The effect of particle addition on the velocities of the gas phase is investigated. The development of

  1. Monte Carlo Particle Transport Capability for Inertial Confinement Fusion Applications

    SciTech Connect

    Brantley, P S; Stuart, L M

    2006-11-06

    A time-dependent massively-parallel Monte Carlo particle transport calculational module (ParticleMC) for inertial confinement fusion (ICF) applications is described. The ParticleMC package is designed with the long-term goal of transporting neutrons, charged particles, and gamma rays created during the simulation of ICF targets and surrounding materials, although currently the package treats neutrons and gamma rays. Neutrons created during thermonuclear burn provide a source of neutrons to the ParticleMC package. Other user-defined sources of particles are also available. The module is used within the context of a hydrodynamics client code, and the particle tracking is performed on the same computational mesh as used in the broader simulation. The module uses domain-decomposition and the MPI message passing interface to achieve parallel scaling for large numbers of computational cells. The Doppler effects of bulk hydrodynamic motion and the thermal effects due to the high temperatures encountered in ICF plasmas are directly included in the simulation. Numerical results for a three-dimensional benchmark test problem are presented in 3D XYZ geometry as a verification of the basic transport capability. In the full paper, additional numerical results including a prototype ICF simulation will be presented.

  2. Airflow and Particle Transport in the Human Respiratory System

    NASA Astrophysics Data System (ADS)

    Kleinstreuer, C.; Zhang, Z.

    2010-01-01

    Airflows in the nasal cavities and oral airways are rather complex, possibly featuring a transition to turbulent jet-like flow, recirculating flow, Dean's flow, vortical flows, large pressure drops, prevailing secondary flows, and merging streams in the case of exhalation. Such complex flows propagate subsequently into the tracheobronchial airways. The underlying assumptions for particle transport and deposition are that the aerosols are spherical, noninteracting, and monodisperse and deposit upon contact with the airway surface. Such dilute particle suspensions are typically modeled with the Euler-Lagrange approach for micron particles and in the Euler-Euler framework for nanoparticles. Micron particles deposit nonuniformly with very high concentrations at some local sites (e.g., carinal ridges of large bronchial airways). In contrast, nanomaterial almost coats the airway surfaces, which has implications of detrimental health effects in the case of inhaled toxic nanoparticles. Geometric airway features, as well as histories of airflow fields and particle distributions, may significantly affect particle deposition.

  3. Vectorization of Monte Carlo particle transport

    SciTech Connect

    Burns, P.J.; Christon, M.; Schweitzer, R.; Lubeck, O.M.; Wasserman, H.J.; Simmons, M.L.; Pryor, D.V. . Computer Center; Los Alamos National Lab., NM; Supercomputing Research Center, Bowie, MD )

    1989-01-01

    Fully vectorized versions of the Los Alamos National Laboratory benchmark code Gamteb, a Monte Carlo photon transport algorithm, were developed for the Cyber 205/ETA-10 and Cray X-MP/Y-MP architectures. Single-processor performance measurements of the vector and scalar implementations were modeled in a modified Amdahl's Law that accounts for additional data motion in the vector code. The performance and implementation strategy of the vector codes are related to architectural features of each machine. Speedups between fifteen and eighteen for Cyber 205/ETA-10 architectures, and about nine for CRAY X-MP/Y-MP architectures are observed. The best single processor execution time for the problem was 0.33 seconds on the ETA-10G, and 0.42 seconds on the CRAY Y-MP. 32 refs., 12 figs., 1 tab.

  4. Discrete elements method of neutral particle transport

    SciTech Connect

    Mathews, K.A.

    1983-01-01

    A new discrete elements (L/sub N/) transport method is derived and compared to the discrete ordinates S/sub N/ method, theoretically and by numerical experimentation. The discrete elements method is more accurate than discrete ordinates and strongly ameliorates ray effects for the practical problems studied. The discrete elements method is shown to be more cost effective, in terms of execution time with comparable storage to attain the same accuracy, for a one-dimensional test case using linear characteristic spatial quadrature. In a two-dimensional test case, a vacuum duct in a shield, L/sub N/ is more consistently convergent toward a Monte Carlo benchmark solution than S/sub N/, using step characteristic spatial quadrature. An analysis of the interaction of angular and spatial quadrature in xy-geometry indicates the desirability of using linear characteristic spatial quadrature with the L/sub N/ method.

  5. Controlled particle transport in a plasma chamber with striped electrode

    SciTech Connect

    Jiang Ke; Li Yangfang; Shimizu, T.; Konopka, U.; Thomas, H. M.; Morfill, G. E.

    2009-12-15

    The controlled transport of micrometer size dust particles in a parallel-plate radio frequency discharge has been investigated. The lower stainless steel electrode consisted of 100 independently controllable electrical metal stripes. The voltage signals on these stripes were modulated, causing traveling plasma sheath distortions. Because the particles trapped in local potential wells moved according to the direction of the distortion, the transport velocity could be actively controlled by adjusting frequencies and phase shifts of the applied periodic voltage signals. To investigate the detailed principle of this transport, molecular dynamic simulations was performed to reproduce the observations with the plasma background conditions calculated by separated particle-in-cell simulations for the experimental parameters. The findings will help develop novel technologies for investigating large-scale complex plasma systems and techniques for achieving clean environments in plasma processing reactors.

  6. Optimization of magnetic switches for single particle and cell transport

    SciTech Connect

    Abedini-Nassab, Roozbeh; Yellen, Benjamin B.; Murdoch, David M.; Kim, CheolGi

    2014-06-28

    The ability to manipulate an ensemble of single particles and cells is a key aim of lab-on-a-chip research; however, the control mechanisms must be optimized for minimal power consumption to enable future large-scale implementation. Recently, we demonstrated a matter transport platform, which uses overlaid patterns of magnetic films and metallic current lines to control magnetic particles and magnetic-nanoparticle-labeled cells; however, we have made no prior attempts to optimize the device geometry and power consumption. Here, we provide an optimization analysis of particle-switching devices based on stochastic variation in the particle's size and magnetic content. These results are immediately applicable to the design of robust, multiplexed platforms capable of transporting, sorting, and storing single cells in large arrays with low power and high efficiency.

  7. Relativistic particle transport in hot accretion disks

    NASA Technical Reports Server (NTRS)

    Becker, Peter A.; Kafatos, Menas; Maisack, Michael

    1994-01-01

    Accretion disks around rapidly rotating black holes provide one of the few plausible models for the production of intense radiation in Acitve Galactic Nuclei (AGNs) above energies of several hundred MeV. The rapid rotation of the hole increases the binding energy per nucleon in the last stable orbit relative to the Schwarzschild case, and naturally leads to ion temperatures in the range 10(exp 12) - 10(exp 13) K for sub-Eddington accretion rates. The protons in the hot inner region of a steady, two-temperature disk form a reservoir of energy that is sufficient to power the observed Energetic Gamma Ray Experiment Telescope (EGRET) outbursts if the black hole mass is 10(exp 10) solar mass. Moreover, the accretion timescale for the inner region is comparable to the observed transient timescale of approximately 1 week. Hence EGRET outbursts may be driven by instabilities in hot, two-temperature disks around supermassive black holes. In this paper we discuss turbulent (stochastic) acceleration in hot disks as a possible source of GeV particles and radiation. We constrain the model by assuming the turbulence is powered by a collective instability that drains energy from the hot protons. We also provide some ideas concerning new, high-energy Penrose processes that produce GeV emission be directly tapping the rotational energy of Kerr black holes.

  8. Self-consistent alpha-particle transport in ignition scenarios

    SciTech Connect

    Kamelander, G.; Woloch, F.; Sdouz, G. )

    1994-05-01

    Recently, fast alpha-particle-driven kinetic Alfven waves were investigated by means of a nonlinear turbulent theory, and an analytic expression for the corresponding diffusion coefficient was derived. This diffusion coefficient is introduced in a kinetic alpha-particle transport code based on the solution of a special Fokker-Planck equation by means of a multigroup formalism. The structure of D[sub [alpha

  9. Recent advances in the Mercury Monte Carlo particle transport code

    SciTech Connect

    Brantley, P. S.; Dawson, S. A.; McKinley, M. S.; O'Brien, M. J.; Stevens, D. E.; Beck, B. R.; Jurgenson, E. D.; Ebbers, C. A.; Hall, J. M.

    2013-07-01

    We review recent physics and computational science advances in the Mercury Monte Carlo particle transport code under development at Lawrence Livermore National Laboratory. We describe recent efforts to enable a nuclear resonance fluorescence capability in the Mercury photon transport. We also describe recent work to implement a probability of extinction capability into Mercury. We review the results of current parallel scaling and threading efforts that enable the code to run on millions of MPI processes. (authors)

  10. Experimental investigation of suspended particles transport through porous media: particle and grain size effect.

    PubMed

    Liu, Quansheng; Cui, Xianze; Zhang, Chengyuan; Huang, Shibing

    2016-01-01

    Particle and grain size may influence the transportation and deposition characteristics of particles within pollutant transport and within granular filters that are typically used in wastewater treatment. We conducted two-dimensional sandbox experiments using quartz powder as the particles and quartz sand as the porous medium to study the response of transportation and deposition formation to changes in particle diameter (ds, with median diameter 18, 41, and 82 μm) and grain diameter (dp, with median diameter 0.36, 1.25, and 2.82 mm) considering a wide range of diameter ratios (ds/dp) from 0.0064 to 0.228. Particles were suspended in deionized water, and quartz sand was used as the porous medium, which was meticulously cleaned to minimize any physicochemical and impurities effects that could result in indeterminate results. After the experiments, the particle concentration of the effluent and particle mass per gram of dry sands were measured to explore changes in transportation and deposition characteristics under different conditions. In addition, a micro-analysis was conducted to better analyse the results on a mesoscopic scale. The experimental observation analyses indicate that different diameter ratios (ds/dp) may lead to different deposit formations. As ds/dp increased, the deposit formation changed from 'Random Deposition Type' to 'Gradient Deposition Type', and eventually became 'Inlet Deposition Type'.

  11. Experimental investigation of suspended particles transport through porous media: particle and grain size effect.

    PubMed

    Liu, Quansheng; Cui, Xianze; Zhang, Chengyuan; Huang, Shibing

    2016-01-01

    Particle and grain size may influence the transportation and deposition characteristics of particles within pollutant transport and within granular filters that are typically used in wastewater treatment. We conducted two-dimensional sandbox experiments using quartz powder as the particles and quartz sand as the porous medium to study the response of transportation and deposition formation to changes in particle diameter (ds, with median diameter 18, 41, and 82 μm) and grain diameter (dp, with median diameter 0.36, 1.25, and 2.82 mm) considering a wide range of diameter ratios (ds/dp) from 0.0064 to 0.228. Particles were suspended in deionized water, and quartz sand was used as the porous medium, which was meticulously cleaned to minimize any physicochemical and impurities effects that could result in indeterminate results. After the experiments, the particle concentration of the effluent and particle mass per gram of dry sands were measured to explore changes in transportation and deposition characteristics under different conditions. In addition, a micro-analysis was conducted to better analyse the results on a mesoscopic scale. The experimental observation analyses indicate that different diameter ratios (ds/dp) may lead to different deposit formations. As ds/dp increased, the deposit formation changed from 'Random Deposition Type' to 'Gradient Deposition Type', and eventually became 'Inlet Deposition Type'. PMID:26323505

  12. 950809 Charged particle transport updated multi-group diffusion

    SciTech Connect

    Corman, E.G.; Perkins, S.T.; Dairiki, N.T.

    1995-09-01

    In 1974, a charged particle transport scheme was introduced which utilized a multi-group diffusion method for the spatial transport and slowing down of energetic ions in a hot plasma. In this treatment a diffusion coefficient was used which was flux-limited to provide, hopefully, some degree of accuracy when the slowing down of an energetic charged particle is dominated by Coulomb collisions with thermal ions and electrons in a plasma medium. An advantage of this method was a very fast, memory-contained program for calculating the behavior of energetic charged particles which resulted in smoothly varying particle number densities and energy depositions. The main limitation of the original multi-group charged particle diffusion scheme is its constraint to a basic ten group structure; the same ten group structure for each of the five energetic ions tracked. This is regarded as a severe limitation, inasmuch as more groups would be desired to simulate more accurately the corresponding Monte Carlo results of energies deposited over spatial zones from a charged particle source. More generally, it seems preferable to have a different group structure for each particle type since they are created at inherently different energies. In this paper, the basic theory and multi-group description will be given. This is followed by the specific techniques that were used to solve the resultant equations. Finally, the modifications that were made to the cross section data as well as the methods used for energy and momentum deposition are described.

  13. Using Lagrangian particle saltation observations for bedload sediment transport modelling

    NASA Astrophysics Data System (ADS)

    Niño, Yarko; García, Marcelo

    1998-06-01

    A Lagrangian model for the saltation of sand in water is proposed. Simulated saltation trajectories neglecting particle rotation and turbulence effects compare fairly well with experimental observations. The model for particle motion is coupled with a stochastic model for particle collision with the bed, such that a number of realizations of the saltation process can be simulated numerically. Model predictions of mean values and standard deviations of saltation height, length and streamwise particle velocity agree fairly well with experimental observations. Model predictions of the dynamic friction coefficient are also in good agreement with experimental observations, but they underestimate the value of 0·63 proposed by Bagnold for this coefficient. The saltation model is applied to the estimation of bedload transport rates of sand using a Bagnoldean formulation. Modelled values of the bedload transport rates overestimate those predicted by commonly used bedload formulae, which appears to be a consequence of problems in the definition of the dynamic friction coefficient. These results seem to indicate a few problems with the Bagnoldean formulation, particularly regarding the continuum assumption for the bedload layer, which would be valid only for very high particle concentrations and small particle diameters, and also regarding the evaluation of the shear stress exerted on the bed by the saltating particles.

  14. [alpha]-particle transport-driven current in tokamaks

    SciTech Connect

    Heikkinen, J.A. ); Sipilae, S.K. )

    1995-03-01

    It is shown that the radial transport of fusion-born energetic [alpha] particles, induced by electrostatic waves traveling in one poloidal direction, is directly connected to a net momentum of [alpha] particles in the toroidal direction in tokamaks. Because the momentum change is almost independent of toroidal velocity, the energy required for the momentum generation remains small on an [alpha]-particle population sustained by an isotropic time-independent source. By numerical toroidal Monte Carlo calculations it is shown that the current carried by [alpha] particles in the presence of intense well penetrated waves can reach several mega-amperes in reactor-sized tokamaks. The current obtained can greatly exceed the neoclassical bootstrap current of the [alpha] particles.

  15. Estimates of Lagrangian particle transport by wave groups: forward transport by Stokes drift and backward transport by the return flow

    NASA Astrophysics Data System (ADS)

    van den Bremer, Ton S.; Taylor, Paul H.

    2014-11-01

    Although the literature has examined Stokes drift, the net Lagrangian transport by particles due to of surface gravity waves, in great detail, the motion of fluid particles transported by surface gravity wave groups has received considerably less attention. In practice nevertheless, the wave field on the open sea often has a group-like structure. The motion of particles is different, as particles at sufficient depth are transported backwards by the Eulerian return current that was first described by Longuet-Higgins & Stewart (1962) and forms an inseparable counterpart of Stokes drift for wave groups ensuring the (irrotational) mass balance holds. We use WKB theory to study the variation of the Lagrangian transport by the return current with depth distinguishing two-dimensional seas, three-dimensional seas, infinite depth and finite depth. We then provide dimensional estimates of the net horizontal Lagrangian transport by the Stokes drift on the one hand and the return flow on the other hand for realistic sea states in all four cases. Finally we propose a simple scaling relationship for the transition depth: the depth above which Lagrangian particles are transported forwards by the Stokes drift and below which such particles are transported backwards by the return current.

  16. Probing cytoskeleton dynamics by intracellular particle transport analysis

    NASA Astrophysics Data System (ADS)

    Götz, M.; Hodeck, K. F.; Witzel, P.; Nandi, A.; Lindner, B.; Heinrich, D.

    2015-07-01

    All cellular functions arise from the transport of molecules through a heterogeneous, highly dynamic cell interior for intracellular signaling. Here, the impact of intracellular architecture and cytoskeleton dynamics on transport processes is revealed by high-resolution single particle tracking within living cells, in combination with time-resolved local mean squared displacement (I-MSD) analysis. We apply the I-MSD analysis to trajectories of 200 nm silica particles within living cells of Dictyostelium discoideum obtained by high resolution spinning disc confocal microscopy with a frame rate of 100 fps and imaging in one fixed focal plane. We investigate phases of motor-driven active transport and subdiffusion, normal diffusion, as well as superdiffusion with high spatial and temporal resolution. Active directed intracellular motion is attributed to microtubule associated molecular motor driven transport with average absolute velocities of 2.8 μm s-1 for 200 nm diameter particles. Diffusion processes of these particles within wild-type cells are found to exhibit diffusion constants ranging across two orders of magnitude from subdiffusive to superdiffusive behavior. This type of analysis might prove of ample importance for medical applications, like targeted drug treatment of cells by nano-sized carriers or innovative diagnostic assays.

  17. MATHEMATICAL ANALYSIS OF PARTICLE TRANSPORT AND DEPOSITION IN HUMAN LUNGS

    EPA Science Inventory

    MATHEMATICAL ANALYSIS OF PARTICLE TRANSPORT AND DEPOSITION IN HUMAN LUNGS. Jung-il Choi*, Center for Environmental Medicine, University of North Carolina, Chapel Hill, NC 27599; C. S. Kim, USEPA National Health and Environmental Effects Research Lab. RTP, NC 27711

    Partic...

  18. Approximation of the transport equation by a weighted particle method

    SciTech Connect

    Mas-Gallic, S.; Poupaud, F.

    1988-08-01

    We study a particle method for numerically solving a model equation for the neutron transport. We present the method and develop the theoretical convergence analysis. We prove the stability and the convergence of the method in L/sup infinity/. Some computational test results are given.

  19. Linear kinetic theory and particle transport in stochastic mixtures

    SciTech Connect

    Pomraning, G.C.

    1995-12-31

    We consider the formulation of linear transport and kinetic theory describing energy and particle flow in a random mixture of two or more immiscible materials. Following an introduction, we summarize early and fundamental work in this area, and we conclude with a brief discussion of recent results.

  20. Particle transport and flow modification in planar temporally evolving laminar mixing layers. I. Particle transport under one-way coupling

    NASA Astrophysics Data System (ADS)

    Narayanan, Chidambaram; Lakehal, Djamel

    2006-09-01

    Simulations of two-dimensional, particle-laden mixing layers were performed for particles with Stokes numbers of 0.3, 0.6, 1, and 2 under the assumption of one-way coupling using the Eulerian-Lagrangian method; two-way coupling is addressed in Part II. Analysis of interphase momentum transfer was performed in the Eulerian frame of reference by looking at the balance of fluid-phase mean momentum, mean kinetic energy, modal kinetic energy, and particle-phase mean momentum. The differences in the dominant mechanisms of vertical transport of streamwise momentum between the fluid and particle phases is clearly brought out. In the fluid phase, growth of the mixing layer is due to energy transfer from the mean flow to the unstable Kelvin-Helmholtz modes, and transport of mean momentum by these modes. In contrast, in the particle phase, the primary mechanism of vertical transport of streamwise momentum is convection due to the mean vertical velocity induced by the centrifuging of particles by the spanwise Kelvin-Helmholtz vortices. Although the drag force and the particle-phase modal stress play an important role in the early stages of the evolution of the mixing layer, their role is shown to decrease during the pairing process. After pairing, the particle-phase mean streamwise momentum balance is accounted for by the convection and drag force term. The particle-phase modal stress term is shown to be strongly connected to the fluid phase modal stress with a Stokes-number-dependent time lag in its evolution.

  1. The Effect of Particle Density on Aeolian Transport

    NASA Technical Reports Server (NTRS)

    Williams, S. H.; Greeley, R.

    1985-01-01

    A set of experiments using a wide range of particle densities was performed in an open-circuit, terrestrial-atmospheric-pressure wind tunnel at Arizona State University. The results show that saltation flux equations derived for typical geologic material overpredict the flux of low-density particles. Walnut shells (approximately 1.1 g/cc) were used in the experiment and correspond to volcanic ash or ice. Less mass is transported by the wind in the case of low particle density because the style of transport is different. There is a direct, counter-intuitive relationship between particle density and transport height. Measurements of the vertical distribution of material show that the low-density walnut shells travel in a zone within 10 cm of the surface while high-density (approximately 4.5 g/cc) chromite particles travel as 50 cm. Furthermore, the overall saltation rate of the chromite is approximately four times greater than the walnut shells at the same freestream wind speed, even though the wind is much further above threshold for the walnut shells.

  2. Origin and transport of high energy particles in the galaxy

    NASA Technical Reports Server (NTRS)

    Wefel, John P.

    1987-01-01

    The origin, confinement, and transport of cosmic ray nuclei in the galaxy was studied. The work involves interpretations of the existing cosmic ray physics database derived from both balloon and satellite measurements, combined with an effort directed towards defining the next generation of instruments for the study of cosmic radiation. The shape and the energy dependence of the cosmic ray pathlength distribution in the galaxy was studied, demonstrating that the leaky box model is not a good representation of the detailed particle transport over the energy range covered by the database. Alternative confinement methods were investigated, analyzing the confinement lifetime in these models based upon the available data for radioactive secondary isotopes. The source abundances of several isotopes were studied using compiled nuclear physics data and the detailed transport calculations. The effects of distributed particle acceleration on the secondary to primary ratios were investigated.

  3. Applying Dispersive Changes to Lagrangian Particles in Groundwater Transport Models

    USGS Publications Warehouse

    Konikow, L.F.

    2010-01-01

    Method-of-characteristics groundwater transport models require that changes in concentrations computed within an Eulerian framework to account for dispersion be transferred to moving particles used to simulate advective transport. A new algorithm was developed to accomplish this transfer between nodal values and advecting particles more precisely and realistically compared to currently used methods. The new method scales the changes and adjustments of particle concentrations relative to limiting bounds of concentration values determined from the population of adjacent nodal values. The method precludes unrealistic undershoot or overshoot for concentrations of individual particles. In the new method, if dispersion causes cell concentrations to decrease during a time step, those particles in the cell having the highest concentration will decrease the most, and those with the lowest concentration will decrease the least. The converse is true if dispersion is causing concentrations to increase. Furthermore, if the initial concentration on a particle is outside the range of the adjacent nodal values, it will automatically be adjusted in the direction of the acceptable range of values. The new method is inherently mass conservative. ?? US Government 2010.

  4. Applying dispersive changes to Lagrangian particles in groundwater transport models

    USGS Publications Warehouse

    Konikow, Leonard F.

    2010-01-01

    Method-of-characteristics groundwater transport models require that changes in concentrations computed within an Eulerian framework to account for dispersion be transferred to moving particles used to simulate advective transport. A new algorithm was developed to accomplish this transfer between nodal values and advecting particles more precisely and realistically compared to currently used methods. The new method scales the changes and adjustments of particle concentrations relative to limiting bounds of concentration values determined from the population of adjacent nodal values. The method precludes unrealistic undershoot or overshoot for concentrations of individual particles. In the new method, if dispersion causes cell concentrations to decrease during a time step, those particles in the cell having the highest concentration will decrease the most, and those with the lowest concentration will decrease the least. The converse is true if dispersion is causing concentrations to increase. Furthermore, if the initial concentration on a particle is outside the range of the adjacent nodal values, it will automatically be adjusted in the direction of the acceptable range of values. The new method is inherently mass conservative.

  5. Particle acceleration and transport in a chaotic magnetic field

    NASA Astrophysics Data System (ADS)

    Li, X.; Li, G.; Dasgupta, B.

    2012-12-01

    Time-dependent chaotic magnetic field can arise from a simple asymmetric current wire-loop system (CWLS). Such simple CWLSs exist, for example, in solar flares. Indeed one can use an ensemble of such systems to model solar active region magnetic field [1,2]. Here we use test particle simulation to investigate particle transport and energization in such a time-dependent chaotic magnetic field, and through induction, a chaotic electric field. We first construct an ensemble of simple systems based on the estimated size and field strength of solar active region. By following the trajectories of single charged particles, we will examine how particle energy is changed. Diffusion coefficients in both real space and momentum space can be calculated as well as the average trapped time of the particles within chaotic field region. Particle energy spectrum as a function of time will be examined. [1] Dasgupta, B. and Abhay K. Ram, (2007) Chaotic magnetic fields due to asymmetric current configurations -application to cross field diffusion of particles in cosmic rays, (Presented at the 49th Annual Meeting of the DPP, APS, Abstract # BP8.00102) [2] G. Li, B. Dasgupta, G. Webb, and A. K. Ram, (2009) Particle Motion and Energization in a Chaotic Magnetic Field, AIP Conf. Proc. 1183, pp. 201-211; doi: http://dx.doi.org/10.1063/1.3266777

  6. Modeling reactive transport with particle tracking and kernel estimators

    NASA Astrophysics Data System (ADS)

    Rahbaralam, Maryam; Fernandez-Garcia, Daniel; Sanchez-Vila, Xavier

    2015-04-01

    Groundwater reactive transport models are useful to assess and quantify the fate and transport of contaminants in subsurface media and are an essential tool for the analysis of coupled physical, chemical, and biological processes in Earth Systems. Particle Tracking Method (PTM) provides a computationally efficient and adaptable approach to solve the solute transport partial differential equation. On a molecular level, chemical reactions are the result of collisions, combinations, and/or decay of different species. For a well-mixed system, the chem- ical reactions are controlled by the classical thermodynamic rate coefficient. Each of these actions occurs with some probability that is a function of solute concentrations. PTM is based on considering that each particle actually represents a group of molecules. To properly simulate this system, an infinite number of particles is required, which is computationally unfeasible. On the other hand, a finite number of particles lead to a poor-mixed system which is limited by diffusion. Recent works have used this effect to actually model incomplete mix- ing in naturally occurring porous media. In this work, we demonstrate that this effect in most cases should be attributed to a defficient estimation of the concentrations and not to the occurrence of true incomplete mixing processes in porous media. To illustrate this, we show that a Kernel Density Estimation (KDE) of the concentrations can approach the well-mixed solution with a limited number of particles. KDEs provide weighting functions of each particle mass that expands its region of influence, hence providing a wider region for chemical reactions with time. Simulation results show that KDEs are powerful tools to improve state-of-the-art simulations of chemical reactions and indicates that incomplete mixing in diluted systems should be modeled based on alternative conceptual models and not on a limited number of particles.

  7. Transport of particle-laden viscoelastic suspensions: tuning particle behavior with elasticity and geometry

    NASA Astrophysics Data System (ADS)

    Barbati, Alexander; Robisson, Agathe; Dussan, Elizabeth; McKinley, Gareth

    2015-11-01

    The transport of particle-laden viscoelastic suspensions is routine in several industrial and natural systems. Many applications, such as hydraulic fracturing in the oilfield, require the successive (and occasionally simultaneous) flow and placement or rigid particles, commonly known as proppant. Hydraulically-generated fractures are routinely less than 6 particle diameters in width. We investigate the flow of viscoelastic particle-laden suspensions in microfabricated geometries mimicking hydraulically-generated fractures under a variety of dynamic conditions to illustrate the interaction between inertia, elasticity, and geometry on particle behavior during flow. We characterize the flow in these model geometries with a combination of streakline imaging, particle image velocimetry, and direct imaging of model proppant particles embedded in the flow. We accompany these small-scale measurements with macro-scale interrogation of fluid rheology by measuring material functions of the working fluid in under shear and extension. These material functions are used in concert with imposed flow conditions and imaging results to identify dominant transport mechanisms on the channel and particle scale, which indicate overall system behavior.

  8. Parametric dependence of particle pinch coefficients for electron particle transport in linear gyrokinetic theory

    SciTech Connect

    Fable, E.; Sauter, O.; Angioni, C.

    2008-11-01

    Peaked density profiles are observed in the core of Tokamak plasmas in regimes where the core particle sources and neoclassical transport are negligible. Gyrokinetic theory predicts that microinstabilities can produce a net inward particle convection balancing outward diffusion and thus explaining the experimental observations. In this work we present a general methodology that allows to calculate the particle pinch coefficients, i.e. the off-diagonal elements of the transport matrix. We adopt this procedure to perform a systematic study of the parametric dependence of these coefficients for electron particle transport in different plasma conditions. Once the coefficients are computed, one can reconstruct the predicted gradient and compare with the experimental observations in regimes with parameters similar to the ones employed in these calculations. The procedure can predict the density logarithmic gradient at zero particle flux in a self-consistent way, based on first principles. The results can be helpful in understanding the possible range of variation of the predicted gradients as a function of the main plasma parameters and in clarifying the relevant dependencies for electrons. Finally, as instructive example, we discuss how this procedure can effectively help to interpret measurements of peaked density profiles in TCV electron Internal Transport Barriers and the significant thermodiffusive inward convection that is observed.

  9. Transport of sputtered particles in capacitive sputter sources

    NASA Astrophysics Data System (ADS)

    Trieschmann, Jan; Mussenbrock, Thomas

    2015-07-01

    The transport of sputtered aluminum inside a multi frequency capacitively coupled plasma chamber is simulated by means of a kinetic test multi-particle approach. A novel consistent set of scattering parameters obtained for a modified variable hard sphere collision model is presented for both argon and aluminum. An angular dependent Thompson energy distribution is fitted to results from Monte Carlo simulations and used for the kinetic simulation of the transport of sputtered aluminum. For the proposed configuration, the transport of sputtered particles is characterized under typical process conditions at a gas pressure of p = 0.5 Pa. It is found that—due to the peculiar geometric conditions—the transport can be understood in a one dimensional picture, governed by the interaction of the imposed and backscattered particle fluxes. It is shown that the precise geometric features play an important role only in proximity to the electrode edges, where the effect of backscattering from the outside chamber volume becomes the governing mechanism.

  10. Full f gyrokinetic method for particle simulation of tokamak transport

    SciTech Connect

    Heikkinen, J.A. Janhunen, S.J.; Kiviniemi, T.P.; Ogando, F.

    2008-05-10

    A gyrokinetic particle-in-cell approach with direct implicit construction of the coefficient matrix of the Poisson equation from ion polarization and electron parallel nonlinearity is described and applied in global electrostatic toroidal plasma transport simulations. The method is applicable for calculation of the evolution of particle distribution function f including as special cases strong plasma pressure profile evolution by transport and formation of neoclassical flows. This is made feasible by full f formulation and by recording the charge density changes due to the ion polarization drift and electron acceleration along the local magnetic field while particles are advanced. The code has been validated against the linear predictions of the unstable ion temperature gradient mode growth rates and frequencies. Convergence and saturation in both turbulent and neoclassical limit of the ion heat conductivity is obtained with numerical noise well suppressed by a sufficiently large number of simulation particles. A first global full f validation of the neoclassical radial electric field in the presence of turbulence for a heated collisional tokamak plasma is obtained. At high Mach number (M{sub p}{approx}1) of the poloidal flow, the radial electric field is significantly enhanced over the standard neoclassical prediction. The neoclassical radial electric field together with the related GAM oscillations is found to regulate the turbulent heat and particle diffusion levels particularly strongly in a large aspect ratio tokamak at low plasma current.

  11. Wave-particle transport by weak electrostatic flow shear fluctuations

    NASA Technical Reports Server (NTRS)

    Gary, S. P.; Schwartz, S. J.

    1981-01-01

    A description is presented of the first consistent theoretical treatment of transport due to weak electrostatic fluctuations from microinstabilities driven by a shear in plasma flow parallel to a uniform magnetic field. The model used considers electrostatic fluctuations in a Vlasov plasma with sheared bulk velocity parallel to a uniform magnetic field. The linear stability theory for the model has been studied by Gary and Schwartz (1980). In the current investigation, a calculation is performed of the wave-particle transport associated with the electrostatic flow shear instability.

  12. Particle acceleration, transport and turbulence in cosmic and heliospheric physics

    NASA Technical Reports Server (NTRS)

    Matthaeus, W.

    1992-01-01

    In this progress report, the long term goals, recent scientific progress, and organizational activities are described. The scientific focus of this annual report is in three areas: first, the physics of particle acceleration and transport, including heliospheric modulation and transport, shock acceleration and galactic propagation and reacceleration of cosmic rays; second, the development of theories of the interaction of turbulence and large scale plasma and magnetic field structures, as in winds and shocks; third, the elucidation of the nature of magnetohydrodynamic turbulence processes and the role such turbulence processes might play in heliospheric, galactic, cosmic ray physics, and other space physics applications.

  13. Analysis of cargo transport by IFT and GFP imaging of IFT in Chlamydomonas.

    PubMed

    Diener, Dennis

    2009-01-01

    Chlamydomonas reinhardtii is the organism in which intraflagellar transport (IFT) was first visualized and in which the composition of IFT particles was originally elucidated. As the universality of IFT among ciliated/flagellated cells was uncovered, the diversity of organisms used to study IFT has grown. Still, because of the ease of isolation of flagella from Chlamydomonas and the battery of temperature-sensitive mutants affecting IFT proteins and motors, this unicellular alga remains the principal model for biochemical studies of IFT motors and cargo; furthermore, the long, exposed flagella of this cell are ideally suited for observing IFT in real time with GFP-tagged components of IFT.

  14. Recent advances in neutral particle transport methods and codes

    NASA Astrophysics Data System (ADS)

    Azmy, Yousry Y.

    1997-02-01

    An overview of Oak Ridge National Laboratory's (ORNL) 3D neural particle transport code, TORT, is presented. Special features of the code that make it invaluable for large applications are summarized for the prospective user. Advanced capabilities currently under development and installation in the production release of TORT are discussed in some detail. These include: multitasking on Cray platforms running the UNICOS operating system; adjacent-cell preconditioning acceleration scheme; and graphics codes for displaying computed quantities such as the flux. Further developments for TORT and its companion codes to enhance its present capabilities, as well as expand its range of applications will be discussed. Speculation on the next generation of neutral particle transport codes at ORNL, especially regarding unstructured grids and high order spatial approximations, will also be mentioned.

  15. Code System to Calculate Particle Penetration Through Aerosol Transport Lines.

    1999-07-14

    Version 00 Distribution is restricted to US Government Agencies and Their Contractors Only. DEPOSITION1.03 is an interactive software program which was developed for the design and analysis of aerosol transport lines. Models are presented for calculating aerosol particle penetration through straight tubes of arbitrary orientation, inlets, and elbows. An expression to calculate effective depositional velocities of particles on tube walls is derived. The concept of maximum penetration is introduced, which is the maximum possible penetrationmore » through a sampling line connecting any two points in a three-dimensional space. A procedure to predict optimum tube diameter for an existing transport line is developed. Note that there is a discrepancy in this package which includes the DEPOSITION 1.03 executable and the DEPOSITION 2.0 report. RSICC was unable to obtain other executables or reports.« less

  16. Recent advances in neutral particle transport methods and codes

    SciTech Connect

    Azmy, Y.Y.

    1996-06-01

    An overview of ORNL`s three-dimensional neutral particle transport code, TORT, is presented. Special features of the code that make it invaluable for large applications are summarized for the prospective user. Advanced capabilities currently under development and installation in the production release of TORT are discussed; they include: multitasking on Cray platforms running the UNICOS operating system; Adjacent cell Preconditioning acceleration scheme; and graphics codes for displaying computed quantities such as the flux. Further developments for TORT and its companion codes to enhance its present capabilities, as well as expand its range of applications are disucssed. Speculation on the next generation of neutron particle transport codes at ORNL, especially regarding unstructured grids and high order spatial approximations, are also mentioned.

  17. Gyrokinetics Simulation of Energetic Particle Turbulence and Transport

    SciTech Connect

    Diamond, Patrick H.

    2011-09-21

    Progress in research during this year elucidated the physics of precession resonance and its interaction with radial scattering to form phase space density granulations. Momentum theorems for drift wave-zonal flow systems involving precession resonance were derived. These are directly generalizable to energetic particle modes. A novel nonlinear, subcritical growth mechanism was identified, which has now been verified by simulation. These results strengthen the foundation of our understanding of transport in burning plasmas

  18. Chemically generated convective transport of micron sized particles

    NASA Astrophysics Data System (ADS)

    Shklyaev, Oleg; Das, Sambeeta; Altemose, Alicia; Shum, Henry; Balazs, Anna; Sen, Ayusman

    2015-11-01

    A variety of chemical and biological applications require manipulation of micron sized objects like cells, viruses, and large molecules. Increasing the size of particles up to a micron reduces performance of techniques based on diffusive transport. Directional transport of cargo toward detecting elements reduces the delivery time and improves performance of sensing devices. We demonstrate how chemical reactions can be used to organize fluid flows carrying particles toward the assigned destinations. Convection is driven by density variations caused by a chemical reaction occurring at a catalyst or enzyme-covered target site. If the reaction causes a reduction in fluid density, as in the case of catalytic decomposition of hydrogen peroxide, then fluid and suspended cargo is drawn toward the target along the bottom surface. The intensity of the fluid flow and the time of cargo delivery are controlled by the amount of reagent in the system. After the reagent has been consumed, the fluid pump stops and particles are found aggregated on and around the enzyme-coated patch. The pumps are reusable, being reactivated upon injection of additional reagent. The developed technique can be implemented in lab-on-a-chip devices for transportation of micro-scale object immersed in solution.

  19. Particle transport in pellet fueled JET (Jet European Torus) plasmas

    SciTech Connect

    Baylor, L.R.

    1990-01-01

    Pellet fueling experiments have been carried out on the Joint European Torus (JET) tokamak with a multi-pellet injector. The pellets are injected at speeds approaching 1400 m/s and penetrate deep into the JET plasma. Highly peaked electron density profiles are achieved when penetration of the pellets approaches or goes beyond the magnetic axis, and these peaked profiles persist for more than two seconds in ohmic discharges and over one second in ICRF heated discharges. In this dissertation, analysis of electron particle transport in multi-pellet fueled JET limiter plasmas under a variety of heating conditions is described. The analysis is carried out with a one and one-half dimensional radial particle transport code to model the experimental density evolution with various particle transport coefficients. These analyses are carried out in plasmas with ohmic heating, ICRF heating, and neural beam heating, in limiter configurations. Peaked density profile cases are generally characterized by diffusion coefficients with a central (r/a < 0.5) diffusivity {approximately}0.1 m{sup 2}/s that increases rapidly to {approximately}0.3 m{sup 2}/s at r/a = 0.6 and then increases out to the plasma edge as (r/a){sup 2}. These discharges can be satisfactorily modeled without any anomalous convective (pinch) flux. 79 refs., 60 figs.

  20. Transient Characterization of Type B Particles in a Transport Riser

    SciTech Connect

    Shadle, L.J.; Monazam, E.R.; Mei, J.S.

    2007-01-01

    Simple and rapid dynamic tests were used to evaluate fluid dynamic behavior of granular materials in the transport regime. Particles with densities ranging from 189 to 2,500 kg/m3 and Sauter mean size from 61 to 812 μm were tested in a 0.305 m diameter, 15.5 m height circulating fluidized bed (CFB) riser. The transient tests involved the abrupt stoppage of solids flow for each granular material over a wide range gas flow rates. The riser emptying time was linearly related to the Froude number in each of three different operating regimes. The flow structure along the height of the riser followed a distinct pattern as tracked through incremental pressures. These results are discussed to better understand the transformations that take place when operating over various regimes. During the transients the particle size distribution was measured. The effects of pressure, particle size, and density on test performance are also presented.

  1. Simulation of Cell Adhesion using a Particle Transport Model

    NASA Astrophysics Data System (ADS)

    Chesnutt, Jennifer

    2005-11-01

    An efficient computational method for simulation of cell adhesion through protein binding forces is discussed. In this method, the cells are represented by deformable elastic particles, and the protein binding is represented by a rate equation. The method is first developed for collision and adhesion of two similar cells impacting on each other from opposite directions. The computational method is then applied in a particle-transport model for a cloud of interacting and colliding cells, each of which are represented by particles of finite size. One application might include red blood cells adhering together to form rouleaux, which are chains of red blood cells that are found in different parts of the circulatory system. Other potential applications include adhesion of platelets to a blood vessel wall or mechanical heart valve, which is a precursor of thrombosis formation, or adhesion of cancer cells to organ walls in the lymphatic, circulatory, digestive or pulmonary systems.

  2. Transport of Particle Swarms Through Variable Aperture Fractures

    NASA Astrophysics Data System (ADS)

    Boomsma, E.; Pyrak-Nolte, L. J.

    2012-12-01

    Particle transport through fractured rock is a key concern with the increased use of micro- and nano-size particles in consumer products as well as from other activities in the sub- and near surface (e.g. mining, industrial waste, hydraulic fracturing, etc.). While particle transport is often studied as the transport of emulsions or dispersions, particles may also enter the subsurface from leaks or seepage that lead to particle swarms. Swarms are drop-like collections of millions of colloidal-sized particles that exhibit a number of unique characteristics when compared to dispersions and emulsions. Any contaminant or engineered particle that forms a swarm can be transported farther, faster, and more cohesively in fractures than would be expected from a traditional dispersion model. In this study, the effects of several variable aperture fractures on colloidal swarm cohesiveness and evolution were studied as a swarm fell under gravity and interacted with the fracture walls. Transparent acrylic was used to fabricate synthetic fracture samples with (1) a uniform aperture, (2) a converging region followed by a uniform region (funnel shaped), (3) a uniform region followed by a diverging region (inverted funnel), and (4) a cast of a an induced fracture from a carbonate rock. All of the samples consisted of two blocks that measured 100 x 100 x 50 mm. The minimum separation between these blocks determined the nominal aperture (0.5 mm to 20 mm). During experiments a fracture was fully submerged in water and swarms were released into it. The swarms consisted of a dilute suspension of 3 micron polystyrene fluorescent beads (1% by mass) with an initial volume of 5μL. The swarms were illuminated with a green (525 nm) LED array and imaged optically with a CCD camera. The variation in fracture aperture controlled swarm behavior. Diverging apertures caused a sudden loss of confinement that resulted in a rapid change in the swarm's shape as well as a sharp increase in its velocity

  3. PAHs loadings of particles as tracer for origin and transport dynamics of particles in river networks

    NASA Astrophysics Data System (ADS)

    Schwientek, Marc; Hermann, Rügner; Bennett, Jeremy-Paul; Grathwohl, Peter

    2015-04-01

    Transport of many urban pollutants in rivers is coupled to transport of suspended particles, potentially dominated by storm water overflows and mobilization of legacy contamination of sediments. Concentration of these pollutants depends on the mixture of "polluted" urban and "clean" background particles. In the current study, the total concentration of polycyclic aromatic hydrocarbons (PAHs) and the amount of total suspended solids (TSS) were meaured in the course of pronounced flood events in 3 catchments with contrast¬ing land use in Southwest Germany. Average PAHs loadings were calculated based on linear regressions of total PAHs concentrations versus TSS. For single samples PAHs loadings were estimated based on PAHs/TSS quotients. Average loadings are characteristic for each catchment and represent the number of inhabitants within the catchment per load of suspended sediment. The absence of significant long-term trends or pronounced changes of the catchment-specific loadings indicate that either input and output of PAHs into the stream networks are largely at steady state or that storage of PAHs in the sediments within the stream network are sufficient to smooth out larger fluctuations. Sampling at high temporal resolution during flood events revealed that loadings do show some short-term fluctuations and, additionally, that loadings show generally slightly decreasing trends during flood events. This is attributed to temporally and spatially varying contributions of particle inputs from sewer overflows and subcatchments which causes a changing proportion of urban and background particles. The decreasing trend is interpreted as the existence of a PAHs storage within the stream network and a slowly depletion therof in PAHs by the inputs of fresh particles in the course of the events. To better understand origin, transport and storage of contaminated particles, also metals, total organic carbon and carbonate content were measured for suspended particles

  4. Measurement of particle transport coefficients on Alcator C-Mod

    SciTech Connect

    Luke, T.C.T.

    1994-10-01

    The goal of this thesis was to study the behavior of the plasma transport during the divertor detachment in order to explain the central electron density rise. The measurement of particle transport coefficients requires sophisticated diagnostic tools. A two color interferometer system was developed and installed on Alcator C-Mod to measure the electron density with high spatial ({approx} 2 cm) and high temporal ({le} 1.0 ms) resolution. The system consists of 10 CO{sub 2} (10.6 {mu}m) and 4 HeNe (.6328 {mu}m) chords that are used to measure the line integrated density to within 0.08 CO{sub 2} degrees or 2.3 {times} 10{sup 16}m{sup {minus}2} theoretically. Using the two color interferometer, a series of gas puffing experiments were conducted. The density was varied above and below the threshold density for detachment at a constant magnetic field and plasma current. Using a gas modulation technique, the particle diffusion, D, and the convective velocity, V, were determined. Profiles were inverted using a SVD inversion and the transport coefficients were extracted with a time regression analysis and a transport simulation analysis. Results from each analysis were in good agreement. Measured profiles of the coefficients increased with the radius and the values were consistent with measurements from other experiments. The values exceeded neoclassical predictions by a factor of 10. The profiles also exhibited an inverse dependence with plasma density. The scaling of both attached and detached plasmas agreed well with this inverse scaling. This result and the lack of change in the energy and impurity transport indicate that there was no change in the underlying transport processes after detachment.

  5. Charged Particle Energization and Transport in the Magnetotail during Substorms

    NASA Astrophysics Data System (ADS)

    Pan, Qingjiang

    This dissertation addresses the problem of energization of particles (both electrons and ions) to tens and hundreds of keV and the associated transport process in the magnetotail during substorms. Particles energized in the magnetotail are further accelerated to even higher energies (hundreds of keV to MeV) in the radiation belts, causing space weather hazards to human activities in space and on ground. We develop an analytical model to quantitatively estimate flux changes caused by betatron and Fermi acceleration when particles are transported along narrow high-speed flow channels from the magnetotail to the inner magnetosphere. The model shows that energetic particle flux can be significantly enhanced by a modest compression of the magnetic field and/or shrinking of the distance between the magnetic mirror points. We use coordinated spacecraft measurements, global magnetohydrodynamic (MHD) simulations driven by measured upstream solar wind conditions, and large-scale kinetic (LSK) simulations to quantify electron local acceleration in the near-Earth reconnection region and nonlocal acceleration during plasma earthward transport. Compared to the analytical model, application of the LSK simulations is much less restrictive because trajectories of millions of test particles are calculated in the realistically determined global MHD fields and the results are statistical. The simulation results validated by the observations show that electrons following a power law distribution at high energies are generated earthward of the reconnection site, and that the majority of the energetic electrons observed in the inner magnetosphere are caused by adiabatic acceleration in association with magnetic dipolarizations and fast flows during earthward transport. We extend the global MHD+LSK simulations to examine ion energization and compare it with electron energization. The simulations demonstrate that ions in the magnetotail are first nonadiabatically accelerated in the weak

  6. Theoretical study of particle transport in electron internal transport barriers in TCV

    SciTech Connect

    Fable, E.; Sauter, O.; Marinoni, A.; Zucca, C.

    2006-11-30

    Previous results from the analysis of fully non inductively sustained electron internal transport barriers (eITBs) in TCV show that a strong coupling exists between electron temperature and density profiles inside the barrier. A phenomenology that is completely different from the standard L-mode is observed . New experimental results assess transient phases to calculate particle convection and diffusion coefficients, allowing also to discuss the role of neoclassical transport. Gyrokinetic and gyrofluid analysis of steady-state eITBs provide tools to understand the mechanism that drive the observed density peaking in advanced scenarios with internal transport barriers and dominant electron heating.

  7. Effects of interplanetary transport on derived energetic particle source strengths

    NASA Astrophysics Data System (ADS)

    Chollet, E. E.; Giacalone, J.; Mewaldt, R. A.

    2010-06-01

    We study the transport of solar energetic particles (SEPs) in the inner heliosphere in order to relate observations made by an observer at 1 AU to the number and total energy content of accelerated particles at the source, assumed to be near the Sun. We use a numerical simulation that integrates the trajectories of a large number of individual particles moving in the interplanetary magnetic field. We model pitch angle scattering and adiabatic cooling of energetic ions with energies from 50 keV nucleon-1 to 100 MeV nucleon-1. Among other things, we determine the number of times that particles of a given energy cross 1 AU and the average energy loss that they suffer because of adiabatic deceleration in the solar wind. We use a number of different forms of the interplanetary spatial diffusion coefficient and a wide range of scattering mean-free paths and consider a number of different ion species in order to generate a wide range of simulation results that can be applied to individual SEP events. We apply our simulation results to observations made at 1 AU of the 20 February 2002 solar energetic particle event, finding the original energy content of several species. We find that estimates of the source energy based on SEP measurements at 1 AU are relatively insensitive to the mean-free path and scattering scheme if adiabatic cooling and multiple crossings are taken into account.

  8. Effects of Interplanetary Transport on Derived Energetic Particle Source Strengths

    NASA Astrophysics Data System (ADS)

    Chollet, E. E.; Giacalone, J.; Mewaldt, R. A.

    2009-12-01

    We study the transport of solar energetic particles (SEPs) in the inner heliosphere in order to relate observations made by an observer at 1 AU to the total energy content of particles at the source, assumed to be near the Sun. We use a numerical simulation that integrates the trajectories of a large number of individual particles moving in the interplanetary magnetic field. We model pitch-angle scattering and adiabatic cooling of energetic ions with energies from 50 keV/nucleon to 100 MeV/nucleon. Among other things, we determine the number of times that particles of a given energy cross 1 AU and the average energy loss that they suffer due to adiabatic deceleration in the solar wind. We use a number of different forms of the interplanetary spatial diffusion coefficient, a wide range of scattering mean-free paths, and consider a number of different ion species in order to generate a wide range of simulation results that can be applied to individual SEP events. Our results are used to estimate the total energy needed to accelerate particles for an event on 20 February 2002 based on observations made at 1 AU. We find that estimates of the source energy based on SEP measurements at 1 AU are relatively insensitive to mean free path and scattering scheme.

  9. Particle Communication and Domain Neighbor Coupling: Scalable Domain Decomposed Algorithms for Monte Carlo Particle Transport

    SciTech Connect

    O'Brien, M. J.; Brantley, P. S.

    2015-01-20

    In order to run Monte Carlo particle transport calculations on new supercomputers with hundreds of thousands or millions of processors, care must be taken to implement scalable algorithms. This means that the algorithms must continue to perform well as the processor count increases. In this paper, we examine the scalability of:(1) globally resolving the particle locations on the correct processor, (2) deciding that particle streaming communication has finished, and (3) efficiently coupling neighbor domains together with different replication levels. We have run domain decomposed Monte Carlo particle transport on up to 221 = 2,097,152 MPI processes on the IBM BG/Q Sequoia supercomputer and observed scalable results that agree with our theoretical predictions. These calculations were carefully constructed to have the same amount of work on every processor, i.e. the calculation is already load balanced. We also examine load imbalanced calculations where each domain’s replication level is proportional to its particle workload. In this case we show how to efficiently couple together adjacent domains to maintain within workgroup load balance and minimize memory usage.

  10. Solar Energetic Particle transport along meandering interplanetary magnetic field lines

    NASA Astrophysics Data System (ADS)

    Laitinen, Timo; Kopp, Andreas; Effenberger, Frederic; Dalla, Silvia; Marsh, Mike

    2016-04-01

    Recent multi-spacecraft Solar Energetic Particle (SEP) observations have challenged the traditional view of SEP production and interplanetary transport. In several events, the SEP intensities rise fast even at 180 degree longitudinal distance from the flare location. For many events the anisotropy of the SEPs has been found to depend on the observer's longitude, being stronger at locations that are well magnetically connected to the assumed SEP source region, as compared to wider longitudinal reaches. This suggests that interplanetary transport is an important factor for the SEP cross-field extent. The traditional modelling approach, with diffusive cross-field propagation, however, requires diffusion across the mean magnetic field much faster than that supported by current theories. We study the temporal and spatial evolution of SEP intensities and anisotropy using a new SEP transport model, FP+FLRW, which incorporates field-line random walk (FLRW) into the Fokker-Planck (FP) transport modelling framework. The FP+FLRW model was introduced by Laitinen et al (2013), who found using full-orbit simulations that the cross-field propagation of particles early in an SEP event is not diffusive, but dominated by deterministic propagation along stochastically meandering turbulent field-lines. We have extended the FP+FLRW model to a Parker spiral geometry, and show that it is able to reproduce the observed fast access of SEPs to a wide range of longitudes. The observed Gaussian shaped distribution of peak intensities versus longitude, having a sigma=30-50 degrees, is reproduced already for a narrow source region, while using realistic interplanetary transport conditions. We compare the anisotropy evolution of an SEP event given by the FP+FLRW model to that given by the traditional FP approach, and discuss the implications of our findings for the SEP event origins, source width and the role of interplanetary turbulence in the interpretation of the SEP observations.

  11. Analytical description of nonlinear particle transport in slab turbulence: High particle energies and stochastic acceleration

    SciTech Connect

    Shalchi, A.

    2012-10-15

    Pitch-angle scattering, parallel spatial diffusion, and stochastic acceleration of cosmic rays are investigated analytically. Based on a second-order quasilinear theory, we derive analytical expressions for the aforementioned transport parameters for all possible magnetic field strengths and particle energies. This work complements previous work where only parallel diffusion for low energetic particles was considered. Furthermore, we compute the first time the momentum diffusion coefficient. It is also shown that the relation between the momentum diffusion coefficient and the parallel spatial diffusion coefficient is more complicated than assumed in previous work.

  12. Dust-Particle Transport in Tokamak Edge Plasmas

    SciTech Connect

    Pigarov, A Y; Krasheninnikov, S I; Soboleva, T K; Rognlien, T D

    2005-09-12

    Dust particulates in the size range of 10nm-100{micro}m are found in all fusion devices. Such dust can be generated during tokamak operation due to strong plasma/material-surface interactions. Some recent experiments and theoretical estimates indicate that dust particles can provide an important source of impurities in the tokamak plasma. Moreover, dust can be a serious threat to the safety of next-step fusion devices. In this paper, recent experimental observations on dust in fusion devices are reviewed. A physical model for dust transport simulation, and a newly developed code DUSTT, are discussed. The DUSTT code incorporates both dust dynamics due to comprehensive dust-plasma interactions as well as the effects of dust heating, charging, and evaporation. The code tracks test dust particles in realistic plasma backgrounds as provided by edge-plasma transport codes. Results are presented for dust transport in current and next-step tokamaks. The effect of dust on divertor plasma profiles and core plasma contamination is examined.

  13. Simulations of reactive transport and precipitation with smoothed particle hydrodynamics

    NASA Astrophysics Data System (ADS)

    Tartakovsky, Alexandre M.; Meakin, Paul; Scheibe, Timothy D.; Eichler West, Rogene M.

    2007-03-01

    A numerical model based on smoothed particle hydrodynamics (SPH) was developed for reactive transport and mineral precipitation in fractured and porous materials. Because of its Lagrangian particle nature, SPH has several advantages for modeling Navier-Stokes flow and reactive transport including: (1) in a Lagrangian framework there is no non-linear term in the momentum conservation equation, so that accurate solutions can be obtained for momentum dominated flows and; (2) complicated physical and chemical processes such as surface growth due to precipitation/dissolution and chemical reactions are easy to implement. In addition, SPH simulations explicitly conserve mass and linear momentum. The SPH solution of the diffusion equation with fixed and moving reactive solid-fluid boundaries was compared with analytical solutions, Lattice Boltzmann [Q. Kang, D. Zhang, P. Lichtner, I. Tsimpanogiannis, Lattice Boltzmann model for crystal growth from supersaturated solution, Geophysical Research Letters, 31 (2004) L21604] simulations and diffusion limited aggregation (DLA) [P. Meakin, Fractals, scaling and far from equilibrium. Cambridge University Press, Cambridge, UK, 1998] model simulations. To illustrate the capabilities of the model, coupled three-dimensional flow, reactive transport and precipitation in a fracture aperture with a complex geometry were simulated.

  14. Production and global transport of Titan's sand particles

    NASA Astrophysics Data System (ADS)

    Barnes, Jason W.; Lorenz, Ralph D.; Radebaugh, Jani; Hayes, Alexander G.; Arnold, Karl; Chandler, Clayton

    2015-06-01

    Previous authors have suggested that Titan's individual sand particles form by either sintering or by lithification and erosion. We suggest two new mechanisms for the production of Titan's organic sand particles that would occur within bodies of liquid: flocculation and evaporitic precipitation. Such production mechanisms would suggest discrete sand sources in dry lakebeds. We search for such sources, but find no convincing candidates with the present Cassini Visual and Infrared Mapping Spectrometer coverage. As a result we propose that Titan's equatorial dunes may represent a single, global sand sea with west-to-east transport providing sources and sinks for sand in each interconnected basin. The sand might then be transported around Xanadu by fast-moving Barchan dune chains and/or fluvial transport in transient riverbeds. A river at the Xanadu/Shangri-La border could explain the sharp edge of the sand sea there, much like the Kuiseb River stops the Namib Sand Sea in southwest Africa on Earth. Future missions could use the composition of Titan's sands to constrain the global hydrocarbon cycle.

  15. Overview of Particle and Heavy Ion Transport Code System PHITS

    NASA Astrophysics Data System (ADS)

    Sato, Tatsuhiko; Niita, Koji; Matsuda, Norihiro; Hashimoto, Shintaro; Iwamoto, Yosuke; Furuta, Takuya; Noda, Shusaku; Ogawa, Tatsuhiko; Iwase, Hiroshi; Nakashima, Hiroshi; Fukahori, Tokio; Okumura, Keisuke; Kai, Tetsuya; Chiba, Satoshi; Sihver, Lembit

    2014-06-01

    A general purpose Monte Carlo Particle and Heavy Ion Transport code System, PHITS, is being developed through the collaboration of several institutes in Japan and Europe. The Japan Atomic Energy Agency is responsible for managing the entire project. PHITS can deal with the transport of nearly all particles, including neutrons, protons, heavy ions, photons, and electrons, over wide energy ranges using various nuclear reaction models and data libraries. It is written in Fortran language and can be executed on almost all computers. All components of PHITS such as its source, executable and data-library files are assembled in one package and then distributed to many countries via the Research organization for Information Science and Technology, the Data Bank of the Organization for Economic Co-operation and Development's Nuclear Energy Agency, and the Radiation Safety Information Computational Center. More than 1,000 researchers have been registered as PHITS users, and they apply the code to various research and development fields such as nuclear technology, accelerator design, medical physics, and cosmic-ray research. This paper briefly summarizes the physics models implemented in PHITS, and introduces some important functions useful for specific applications, such as an event generator mode and beam transport functions.

  16. Protist-facilitated particle transport using emulated soil micromodels.

    PubMed

    Rubinstein, Rebecca L; Kadilak, Andrea L; Cousens, Virginia C; Gage, Daniel J; Shor, Leslie M

    2015-02-01

    Microbial processes in the subsurface can be visualized directly using micromodels to emulate pore-scale geometries. Here, emulated soil micromodels were used to measure transport of fluorescent beads in the presence and absence of the soil ciliate Colpoda sp. under quiescent conditions. Beads alone or beads with protists were delivered to the input wells of replicate micromodels that contained three 20 mm(2) channels emulating a sandy loam microstructure. Bead abundance in microstructured channels was measured by direct counts of tiled confocal micrographs. For channels with protists, average bead abundances were approximately 320, 560, 710, 830, and 790 mm(-2) after 1, 2, 3, 5, and 10 days, respectively, versus 0, 0, 0.3, 7.8, and 45 mm(-2) without protists. Spatial and temporal patterns of bead abundance indicate that protist-facilitated transport is not a diffusive-type process but rather a function of more complex protist behaviors, including particle uptake and egestion and motility in a microstructured habitat. Protist-facilitated transport may enhance particle mixing in the soil subsurface and could someday be used for targeted delivery of nanoparticles, encapsulated chemicals, or bacteria for remediation and agriculture applications.

  17. Evaluation of Baltic Sea transport properties using particle tracking

    NASA Astrophysics Data System (ADS)

    Dargahi, Bijan; Cvetkovic, Vladimir

    2014-05-01

    Particle tracking model (PTM) is an effective tool for quantifying transport properties of large water bodies such as the Baltic Sea. We have applied PTM to our fully calibrated and validated Baltic Sea 3D hydrodynamic model for a 10-years period (2000-9). One hundred particles were released at a constant rate during an initial 10-days period from all the Baltic Sea sub-basins, the major rivers, and the open boundary in the Arkona Basin. In each basin, the particles were released at two different depths corresponding to the deep water and middle water layers. The objectives of the PTM simulations were to analyse the intra-exchange processes between the Baltic Sea basins and to estimate the arrival times and the paths of particles released from the rivers. The novel contribution of this study is determining the paths and arrival times of deeper water masses rather than the surface masses. Advective and diffusive transport processes in the Bornholm and Arkona basins are both driven by the interacting flows of the northern basins of the Baltic Sea and the North Sea. Particles released from Arkona basin flows northwards along the Stople Channel. The Gotland basins are the major contributors to the exchange process in the Baltic Sea. We find high values of the advection ratio, indicative of a forced advective transport process. The Bay of Gdansk is probably the most vulnerable region in the Baltic Sea. This is despite the fact that the main exchanging basins are the Bornholm Sea and the Easter Gotland Basin. The main reason is the intensive supply of the particles from the northern basins that normally take about 3000 days to reach the Bay of Gdansk. The process maintains a high level of particle concentration (90%) along its coastlines even after the 10-years period. Comparing the particle paths in the Western and Eastern Gotland basins two interesting features were found. Particles travelled in all four directions in the former basin and the middle layer particles

  18. Size segregation in bedload sediment transport at the particle scale

    NASA Astrophysics Data System (ADS)

    Frey, P.; Martin, T.

    2011-12-01

    Bedload, the larger material that is transported in stream channels, has major consequences, for the management of water resources, for environmental sustainability, and for flooding alleviation. Most particularly, in mountains, steep slopes drive intense transport of a wide range of grain sizes. Our ability to compute local and even bulk quantities such as the sediment flux in rivers is poor. One important reason is that grain-grain interactions in stream channels may have been neglected. An arguably most important difficulty pertains to the very wide range of grain size leading to grain size sorting or segregation. This phenomenon largely modifies fluxes and results in patterns that can be seen ubiquitously in nature such as armoring or downstream fining. Most studies have concerned the spontaneous percolation of fine grains into immobile gravels, because of implications for salmonid spawning beds, or stratigraphical interpretation. However when the substrate is moving, the segregation process is different as statistically void openings permit downward percolation of larger particles. This process also named "kinetic sieving" has been studied in industrial contexts where segregation of granular or powder materials is often non-desirable. We present an experimental study of two-size mixtures of coarse spherical glass beads entrained by a shallow turbulent and supercritical water flow down a steep channel with a mobile bed. The particle diameters were 4 and 6mm, the channel width 6.5mm and the channel inclination ranged from 7.5 to 12.5%. The water flow rate and the particle rate were kept constant at the upstream entrance. First only the coarser particle rate was input and adjusted to obtain bed load equilibrium, that is, neither bed degradation nor aggradation over sufficiently long time intervals. Then a low rate of smaller particles (about 1% of the total sediment rate) was introduced to study the spatial and temporal evolution of segregating smaller particles

  19. Transport coefficients of solid particles immersed in a viscous gas.

    PubMed

    Garzó, Vicente; Fullmer, William D; Hrenya, Christine M; Yin, Xiaolong

    2016-01-01

    Transport properties of a suspension of solid particles in a viscous gas are studied. The dissipation in such systems arises from two sources: inelasticity in particle collisions and viscous dissipation due to the effect of the gas phase on the particles. Here we consider a simplified case in which the mean relative velocity between the gas and solid phases is taken to be zero, such that "thermal drag" is the only remaining gas-solid interaction. Unlike the previous, more general, treatment of the drag force [Garzó et al., J. Fluid Mech. 712, 129 (2012)]JFLSA70022-112010.1017/jfm.2012.404, here we take into account contributions to the (scaled) transport coefficients η^{*} (shear viscosity), κ^{*} (thermal conductivity), and μ^{*} (Dufour-like coefficient) coming from the temperature dependence of the (dimensionless) friction coefficient γ^{*} characterizing the amplitude of the drag force. At moderate densities, the thermal drag model (which is based on the Enskog kinetic equation) is solved by means of the Chapman-Enskog method and the Navier-Stokes transport coefficients are determined in terms of the coefficient of restitution, the solid volume fraction, and the friction coefficient. The results indicate that the effect of the gas phase on η^{*} and μ^{*} is non-negligible (especially in the case of relatively dilute systems) while the form of κ^{*} is the same as the one obtained in the dry granular limit. Finally, as an application of these results, a linear stability analysis of the hydrodynamic equations is carried out to analyze the conditions for stability of the homogeneous cooling state. A comparison with direct numerical simulations shows a good agreement for conditions of practical interest. PMID:26871141

  20. Transport coefficients of solid particles immersed in a viscous gas

    NASA Astrophysics Data System (ADS)

    Garzó, Vicente; Fullmer, William D.; Hrenya, Christine M.; Yin, Xiaolong

    2016-01-01

    Transport properties of a suspension of solid particles in a viscous gas are studied. The dissipation in such systems arises from two sources: inelasticity in particle collisions and viscous dissipation due to the effect of the gas phase on the particles. Here we consider a simplified case in which the mean relative velocity between the gas and solid phases is taken to be zero, such that "thermal drag" is the only remaining gas-solid interaction. Unlike the previous, more general, treatment of the drag force [Garzó et al., J. Fluid Mech. 712, 129 (2012)], 10.1017/jfm.2012.404, here we take into account contributions to the (scaled) transport coefficients η* (shear viscosity), κ* (thermal conductivity), and μ* (Dufour-like coefficient) coming from the temperature dependence of the (dimensionless) friction coefficient γ* characterizing the amplitude of the drag force. At moderate densities, the thermal drag model (which is based on the Enskog kinetic equation) is solved by means of the Chapman-Enskog method and the Navier-Stokes transport coefficients are determined in terms of the coefficient of restitution, the solid volume fraction, and the friction coefficient. The results indicate that the effect of the gas phase on η* and μ* is non-negligible (especially in the case of relatively dilute systems) while the form of κ* is the same as the one obtained in the dry granular limit. Finally, as an application of these results, a linear stability analysis of the hydrodynamic equations is carried out to analyze the conditions for stability of the homogeneous cooling state. A comparison with direct numerical simulations shows a good agreement for conditions of practical interest.

  1. Transport coefficients of solid particles immersed in a viscous gas.

    PubMed

    Garzó, Vicente; Fullmer, William D; Hrenya, Christine M; Yin, Xiaolong

    2016-01-01

    Transport properties of a suspension of solid particles in a viscous gas are studied. The dissipation in such systems arises from two sources: inelasticity in particle collisions and viscous dissipation due to the effect of the gas phase on the particles. Here we consider a simplified case in which the mean relative velocity between the gas and solid phases is taken to be zero, such that "thermal drag" is the only remaining gas-solid interaction. Unlike the previous, more general, treatment of the drag force [Garzó et al., J. Fluid Mech. 712, 129 (2012)]JFLSA70022-112010.1017/jfm.2012.404, here we take into account contributions to the (scaled) transport coefficients η^{*} (shear viscosity), κ^{*} (thermal conductivity), and μ^{*} (Dufour-like coefficient) coming from the temperature dependence of the (dimensionless) friction coefficient γ^{*} characterizing the amplitude of the drag force. At moderate densities, the thermal drag model (which is based on the Enskog kinetic equation) is solved by means of the Chapman-Enskog method and the Navier-Stokes transport coefficients are determined in terms of the coefficient of restitution, the solid volume fraction, and the friction coefficient. The results indicate that the effect of the gas phase on η^{*} and μ^{*} is non-negligible (especially in the case of relatively dilute systems) while the form of κ^{*} is the same as the one obtained in the dry granular limit. Finally, as an application of these results, a linear stability analysis of the hydrodynamic equations is carried out to analyze the conditions for stability of the homogeneous cooling state. A comparison with direct numerical simulations shows a good agreement for conditions of practical interest.

  2. Field-aligned Transport and Acceleration of Solar Energetic Particles

    NASA Astrophysics Data System (ADS)

    Borovikov, D.; Sokolov, I.; Tenishev, V.; Gombosi, T. I.

    2015-12-01

    Solar Energetic Particle (SEP) phenomena represent one of the major components of space weather. Often, but not exclusively associated with Coronal Mass Ejections (CMEs), they pose a significant scientific as well as practical interest. As these particles originate at such explosive events, they have energies up to several GeV. SEP may cause disruptions in operations of space instruments and spacecrafts and are dangerous to astronauts. For this reason, studies of SEP events and predictions of their impact are of great importance. The motion and acceleration of SEP, though kinetic in nature, is governed by Interplanetary Magnetic Field (IMF) and its disturbances. Therefore, a consistent and accurate simulation and predictive tool must include a realistic MHD model of IMF. At the same time, transport of SEP is essentially one-dimensional as at high energies particles are tied to magnetic field lines. This allows building a model that can effectively map active regions on the solar surface onto various regions of the Solar System thus predicting the affected regions of the at any distance from the Sun. We present the first attempt to construct a model that employs coupling of MHD and kinetic models. The former describes the evolution of IMF disturbed by CME, while the latter simulates particles moving along the field lines extracted from MHD model. The first results are provided.

  3. Transport and discrete particle noise in gyrokinetic simulations

    NASA Astrophysics Data System (ADS)

    Jenkins, Thomas; Lee, W. W.

    2006-10-01

    We present results from our recent investigations regarding the effects of discrete particle noise on the long-time behavior and transport properties of gyrokinetic particle-in-cell simulations. It is found that the amplitude of nonlinearly saturated drift waves is unaffected by discreteness-induced noise in plasmas whose behavior is dominated by a single mode in the saturated state. We further show that the scaling of this noise amplitude with particle count is correctly predicted by the fluctuation-dissipation theorem, even though the drift waves have driven the plasma from thermal equilibrium. As well, we find that the long-term behavior of the saturated system is unaffected by discreteness-induced noise even when multiple modes are included. Additional work utilizing a code with both total-f and δf capabilities is also presented, as part of our efforts to better understand the long- time balance between entropy production, collisional dissipation, and particle/heat flux in gyrokinetic plasmas.

  4. Transport and containment of plasma, particles and energy within flares

    NASA Technical Reports Server (NTRS)

    Acton, L. W.; Brown, W. A.; Bruner, M. E. C.; Haisch, B. M.; Strong, K. T.

    1983-01-01

    Results from the analysis of flares observed by the Solar Maximum Mission (SMM) and a recent rocket experiment are discussed. Evidence for primary energy release in the corona through the interaction of magnetic structures, particle and plasma transport into more than a single magnetic structure at the time of a flare and a complex and changing magnetic topology during the course of a flare is found. The rocket data are examined for constraints on flare cooling, within the context of simple loop models. These results form a basis for comments on the limitations of simple loop models for flares.

  5. Fluid flow and particle transport in mechanically ventilated airways. Part II: particle transport.

    PubMed

    Alzahrany, Mohammed; Van Rhein, Timothy; Banerjee, Arindam; Salzman, Gary

    2016-07-01

    The flow mechanisms that play a role on aerosol deposition were identified and presented in a companion paper (Timothy et al. in Med Biol Eng Comput. doi: 10.1007/s11517-015-1407-3 , 2015). In the current paper, the effects of invasive conventional mechanical ventilation waveforms and endotracheal tube (ETT) on the aerosol transport were investigated. In addition to the enhanced deposition seen at the carinas of the airway bifurcations, enhanced deposition was also seen in the right main bronchus due to impaction and turbulent dispersion resulting from the fluid structures created by jet caused by the ETT. The orientation of the ETT toward right bronchus resulted in a substantial deposition inside right lung compared to left lung. The deposition inside right lung was ~12-fold higher than left lung for all considered cases, except for the case of using pressure-controlled sinusoidal waveform where a reduction of this ratio by ~50 % was found. The total deposition during pressure constant, volume ramp, and ascending ramp waveforms was similar and ~1.44 times higher than deposition fraction when using pressure sinusoidal waveform. Varying respiratory waveform demonstrated a significant role on the deposition enhancement factors and give evidence of drug aerosol concentrations in key deposition sites, which may be significant for drugs with negative side effects in high concentrations. These observations are thought to be important for ventilation treatment strategy. PMID:26541600

  6. ULF Waves and Diffusive Radial Transport of Charged Particles

    NASA Astrophysics Data System (ADS)

    Ali, Ashar Fawad

    The Van Allen radiation belts contain highly energetic particles which interact with a variety of plasma and magnetohydrodynamic (MHD) waves. Waves in the ultra low-frequency (ULF) range play an important role in the loss and acceleration of energetic particles. Considering the geometry of the geomagnetic field, charged particles trapped in the inner magnetosphere undergo three distinct types of periodic motions; an adiabatic invariant is associated with each type of motion. The evolution of the phase space density of charged particles in the magnetosphere in the coordinate space of the three adiabatic invariants is modeled by the Fokker-Planck equation. If we assume that the first two adiabatic invariants are conserved while the third invariant is violated, then the general Fokker-Planck equation reduces to a radial diffusion equation with the radial diffusion coefficient quantifying the rate of the radial diffusion of charged particles, including contributions from perturbations in both the magnetic and the electric fields. This thesis investigates two unanswered questions about ULF wave-driven radial transport of charged particles. First, how important are the ULF fluctuations in the magnetic field compared with the ULF fluctuations in the electric field in driving the radial diffusion of charged particles in the Earth's inner magnetosphere? It has generally been accepted that magnetic field perturbations dominate over electric field perturbations, but several recently published studies suggest otherwise. Second, what is the distribution of ULF wave power in azimuth, and how does ULF wave power depend upon radial distance and the level of geomagnetic activity? Analytic treatments of the diffusion coefficients generally assume uniform distribution of power in azimuth, but in situ measurements suggest that this may not be the case. We used the magnetic field data from the Combined Release and Radiation Effects Satellite (CRRES) and the electric and the magnetic

  7. Exposure visualisation of ultrafine particle counts in a transport microenvironment

    NASA Astrophysics Data System (ADS)

    Kaur, S.; Clark, R. D. R.; Walsh, P. T.; Arnold, S. J.; Colvile, R. N.; Nieuwenhuijsen, M. J.

    An increasing number of studies indicate that short-term peak exposures, such as those seen in the transport microenvironment, pose particular health threats. Short-term exposure can only be sufficiently characterised using portable, fast-response monitoring instrumentation with detailed summaries of individual activity. In this paper, we present an exposure visualisation system that addresses this issue—it allows the simultaneous presentation of mobile video imagery synchronised with measured real-time ultrafine particle count exposure of an individual. The combined data can be examined in detail for the contribution of the surrounding environment and the individual's activities to their peak and overall exposure. The exposure visualisation system is demonstrated and evaluated around the DAPPLE study site in Central London using different modes of transport (walking, cycling, bus, car and taxi). The video images, synchronised with the exposure profile, highlight the extent to which ultrafine particle exposure is associated with traffic density and proximity to pollutant source. The extremely rapid decline in concentration with increasing distance away from the pollutant source, such as from the main street to the backstreets, is clearly evident. The visualisation technique allows these data to be presented to both technical audiences and laypersons thus making it an effective environmental risk communication tool. Some exposure peaks however are not obviously associated with any event recorded on video—in these cases it will be necessary to use advanced dispersion modelling techniques to investigate meteorological conditions and other variables influencing in-street conditions to identify their possible causes.

  8. High energy electromagnetic particle transportation on the GPU

    NASA Astrophysics Data System (ADS)

    Canal, P.; Elvira, D.; Jun, S. Y.; Kowalkowski, J.; Paterno, M.; Apostolakis, J.

    2014-06-01

    We present massively parallel high energy electromagnetic particle transportation through a finely segmented detector on a Graphics Processing Unit (GPU). Simulating events of energetic particle decay in a general-purpose high energy physics (HEP) detector requires intensive computing resources, due to the complexity of the geometry as well as physics processes applied to particles copiously produced by primary collisions and secondary interactions. The recent advent of hardware architectures of many-core or accelerated processors provides the variety of concurrent programming models applicable not only for the high performance parallel computing, but also for the conventional computing intensive application such as the HEP detector simulation. The components of our prototype are a transportation process under a non-uniform magnetic field, geometry navigation with a set of solid shapes and materials, electromagnetic physics processes for electrons and photons, and an interface to a framework that dispatches bundles of tracks in a highly vectorized manner optimizing for spatial locality and throughput. Core algorithms and methods are excerpted from the Geant4 toolkit, and are modified and optimized for the GPU application. Program kernels written in C/C++ are designed to be compatible with CUDA and OpenCL and with the aim to be generic enough for easy porting to future programming models and hardware architectures. To improve throughput by overlapping data transfers with kernel execution, multiple CUDA streams are used. Issues with floating point accuracy, random numbers generation, data structure, kernel divergences and register spills are also considered. Performance evaluation for the relative speedup compared to the corresponding sequential execution on CPU is presented as well.

  9. High energy electromagnetic particle transportation on the GPU

    SciTech Connect

    Canal, P.; Elvira, D.; Jun, S. Y.; Kowalkowski, J.; Paterno, M.; Apostolakis, J.

    2014-01-01

    We present massively parallel high energy electromagnetic particle transportation through a finely segmented detector on a Graphics Processing Unit (GPU). Simulating events of energetic particle decay in a general-purpose high energy physics (HEP) detector requires intensive computing resources, due to the complexity of the geometry as well as physics processes applied to particles copiously produced by primary collisions and secondary interactions. The recent advent of hardware architectures of many-core or accelerated processors provides the variety of concurrent programming models applicable not only for the high performance parallel computing, but also for the conventional computing intensive application such as the HEP detector simulation. The components of our prototype are a transportation process under a non-uniform magnetic field, geometry navigation with a set of solid shapes and materials, electromagnetic physics processes for electrons and photons, and an interface to a framework that dispatches bundles of tracks in a highly vectorized manner optimizing for spatial locality and throughput. Core algorithms and methods are excerpted from the Geant4 toolkit, and are modified and optimized for the GPU application. Program kernels written in C/C++ are designed to be compatible with CUDA and OpenCL and with the aim to be generic enough for easy porting to future programming models and hardware architectures. To improve throughput by overlapping data transfers with kernel execution, multiple CUDA streams are used. Issues with floating point accuracy, random numbers generation, data structure, kernel divergences and register spills are also considered. Performance evaluation for the relative speedup compared to the corresponding sequential execution on CPU is presented as well.

  10. Simulating the transport of heavy charged particles through trabecular spongiosa

    NASA Astrophysics Data System (ADS)

    Gersh, Jacob A.

    As planning continues for manned missions far beyond Low Earth Orbit, a paramount concern remains the flight crew's exposure to galactic cosmic radiation. When humans exit the protective magnetic field of Earth, they become subject to bombardment by highly-reactive heavy charged (HZE) particles. A possible consequence of this two- to three-year-long mission is the onset of radiation-induced leukemia, a disorder with a latency period as short as two to three years. Because data on risk to humans from exposure to HZE particles is non-existent, studies of leukemia in animals are now underway to investigate the relative effectiveness of HZE exposures. Leukemogenesis can result from energy depositions occurring within marrow contained in the trabecular spongiosa. Trabecular spongiosa is found in flat bones and within the ends of long bones, and is characterized by an intricate matrix of interconnected bone tissue forming cavities that house marrow. The microscopic internal dimensions of spongiosa vary between species. As radiation traverses this region, interface-induced dose perturbations that occur at the interfaces between bone and marrow affect the patterns of energy deposition within the region. An aim of this project is to determine the extent by which tissue heterogeneity and microscopic dimensions have on patterns of energy deposition within the trabecular spongiosa. This leads to the development of PATHFIT, a computer code capable of generating simple quadric-based geometric models of trabecular spongiosa for both humans and mice based on actual experimentally-determined internal dimensions of trabecular spongiosa. Following the creation of spongiosa models, focus is placed on the development of HITSPAP, a hybrid Monte Carlo (MC) radiation transport code system that combines capabilities of the MC code PENELOPE and MC code PARTRAC. This code is capable of simulating the transport of HZE particles through accurate models of trabecular spongiosa. The final and

  11. Evidence for particle transport between alveolar macrophages in vivo

    SciTech Connect

    Benson, J.M.; Nikula, K.J.; Guilmette, R.A.

    1995-12-01

    Recent studies at this Institute have focused on determining the role of alveolar macrophages (AMs) in the transport of particles within and form the lung. For those studies, AMs previously labeled using the nuclear stain Hoechst 33342 and polychromatic Fluoresbrite microspheres (1 {mu}m diameter, Polysciences, Inc., Warrington, PA) were instilled into lungs of recipient F344 rats. The fate of the donor particles and the doubly labeled AMs within recipient lungs was followed for 32 d. Within 2-4 d after instillation, the polychromatic microspheres were found in both donor and resident AMs, suggesting that particle transfer occurred between the donor and resident AMs. However, this may also have been an artifact resulting from phagocytosis of the microspheres form dead donor cells or from the fading or degradation of Hoechst 33342 within the donor cells leading to their misidentification as resident AMs. The results support the earlier findings that microspheres in donor AMs can be transferred to resident AMs within 2 d after instillation.

  12. Transport of large particles in flow through porous media

    NASA Astrophysics Data System (ADS)

    Imdakm, A. O.; Sahimi, Muhammad

    1987-12-01

    There is considerable evidence indicating that significant reduction in the efficiency of many processes in porous media, such as enhancing oil recovery, heterogeneous chemical reactions, deep-bed filtration, gel permeation, and liquid chromatography, is due to the reduction in the permeability of the pore space. This reduction is due to the transport of particles, whose sizes are comparable with those of the pores, and the subsequent blocking of the pores by various mechanisms. In this paper we develop a novel Monte Carlo method for theoretical modeling of this phenomenon. Particles of various sizes are injected into the medium, and their migration in the flow field is modeled by a random walk whose transition porbability is proportional to the local pore fluxes. Pores are blocked and their flow capacity is reduced (or vanished) when large particles pass through them (and reduce their flow) or totally block them. The permeability of the medium can ultimately vanish and, therefore, this phenomenon is a percolation process. Various quantities of interest such as the variations of the permeability with process time and the distribution of pore-plugging times are computed. The critical exponent characterizing the vanishing of the permeability near the percolation threshold appears to be different from that of percolation conductivity. The agreement between our results and the available experimental data is excellent.

  13. Particle Swarm Transport through Immiscible Fluid Layers in a Fracture

    NASA Astrophysics Data System (ADS)

    Teasdale, N. D.; Boomsma, E.; Pyrak-Nolte, L. J.

    2011-12-01

    Immiscible fluids occur either naturally (e.g. oil & water) or from anthropogenic processes (e.g. liquid CO2 & water) in the subsurface and complicate the transport of natural or engineered micro- or nano-scale particles. In this study, we examined the effect of immiscible fluids on the formation and evolution of particle swarms in a fracture. A particle swarm is a collection of colloidal-size particles in a dilute suspension that exhibits cohesive behavior. Swarms fall under gravity with a velocity that is greater than the settling velocity of a single particle. Thus a particle swarm of colloidal contaminants can potentially travel farther and faster in a fracture than expected for a dispersion or emulsion of colloidal particles. We investigated the formation, evolution, and break-up of colloidal swarms under gravity in a uniform aperture fracture as hydrophobic/hydrophyllic particle swarms move across an oil-water interface. A uniform aperture fracture was fabricated from two transparent acrylic rectangular prisms (100 mm x 50 mm x 100 mm) that are separated by 1, 2.5, 5, 10 or 50 mm. The fracture was placed, vertically, inside a glass tank containing a layer of pure silicone oil (polydimethylsiloxane) on distilled water. Along the length of the fracture, 30 mm was filled with oil and 70 mm with water. Experiments were conducted using silicone oils with viscosities of 5, 10, 100, or 1000 cSt. Particle swarms (5 μl) were comprised of a 1% concentration (by mass) of 25 micron glass beads (hydrophilic) suspended in a water drop, or a 1% concentration (by mass) of 3 micron polystyrene fluorescent beads (hydrophobic) suspended in a water drop. The swarm behavior was imaged using an optical fluorescent imaging system composed of a CCD camera and by green (525 nm) LED arrays for illumination. Swarms were spherical and remained coherent as they fell through the oil because of the immiscibility of oil and water. However, as a swarm approached the oil-water interface, it

  14. Charged Particle Energization and Transport in Reservoirs throughout the Heliosphere: 1. Solar Energetic Particles

    NASA Astrophysics Data System (ADS)

    Roelof, E. C.

    2015-09-01

    “Reservoirs” of energetic charged particles are regions where the particle population is quasi-trapped in large-scale (relative to the gyroradii) magnetic field structures. Reservoirs are found throughout the heliosphere: the huge heliosheath (90particles within these reservoirs is produced by the interaction when the particle magnetic drifts have a component along the large-scale electric fields produced by plasma convection. The appropriate description of this transport is “weak scattering”, in which the particle's first adiabatic invariant (magnetic moment) is approximately conserved while the particle itself moves rather freely along magnetic field lines. Considerable insight into the observed properties of energization processes can be gained from a remarkably simple equation that describes the particle's fractional time-rate-of-change of momentum (dlnp/dt) which depends only upon its pitch angle, the divergence of the plasma velocity (V⊥) transverse to the magnetic field), and the inner product of (V⊥) with the curvature vector of the field lines. The possibilities encompassed in this simple (but general) equation are quite rich, so we restrict our application of it in this paper to the compressive acceleration of SEPs within CMEs.

  15. Particle-bound polycyclic aromatic hydrocarbon concentrations in transportation microenvironments

    NASA Astrophysics Data System (ADS)

    Houston, Douglas; Wu, Jun; Yang, Dongwoo; Jaimes, Guillermo

    2013-06-01

    This study is one of the first case studies to characterize the exposure of urban residents to traffic-related air pollution across locations and transportation microenvironments during everyday activities. Twenty-four adult residents of Boyle Heights, a neighborhood near downtown Los Angeles, carried a portable air pollution monitor and a Global Positioning Systems (GPS) tracking device for a total of 96 days. We found significant spatial and temporal variation in the particle-bound polycyclic aromatic hydrocarbon (pPAH) concentrations in transportation microenvironments. Average pPAH concentrations were higher while walking outdoors (190 ng m-3) compared to traveling in private passenger vehicles (138-155 ng m-3) or traveling in public transportation (61-124 ng m-3). Although travel comprised 5% of participant days, it was associated with 27% of overall daily pPAH exposure. Regression models explained 40-55% of the variation in daily average pPAH concentrations, and 40-44% of the variation in 1-min interval concentrations. Important factors included time spent traveling, travel speed, meteorological and nearby land use factors, time of day, and proximity to roadways. Although future research is needed to develop stronger predictive models, our study demonstrates portable tracking devices can provide a more complete, diurnal characterization of air pollution exposures for urban populations.

  16. Helium, Iron and Electron Particle Transport and Energy Transport Studies on the TFTR Tokamak

    DOE R&D Accomplishments Database

    Synakowski, E. J.; Efthimion, P. C.; Rewoldt, G.; Stratton, B. C.; Tang, W. M.; Grek, B.; Hill, K. W.; Hulse, R. A.; Johnson, D .W.; Mansfield, D. K.; McCune, D.; Mikkelsen, D. R.; Park, H. K.; Ramsey, A. T.; Redi, M. H.; Scott, S. D.; Taylor, G.; Timberlake, J.; Zarnstorff, M. C. (Princeton Univ., NJ (United States). Plasma Physics Lab.); Kissick, M. W. (Wisconsin Univ., Madison, WI (United States))

    1993-03-01

    Results from helium, iron, and electron transport on TFTR in L-mode and Supershot deuterium plasmas with the same toroidal field, plasma current, and neutral beam heating power are presented. They are compared to results from thermal transport analysis based on power balance. Particle diffusivities and thermal conductivities are radially hollow and larger than neoclassical values, except possibly near the magnetic axis. The ion channel dominates over the electron channel in both particle and thermal diffusion. A peaked helium profile, supported by inward convection that is stronger than predicted by neoclassical theory, is measured in the Supershot The helium profile shape is consistent with predictions from quasilinear electrostatic drift-wave theory. While the perturbative particle diffusion coefficients of all three species are similar in the Supershot, differences are found in the L-Mode. Quasilinear theory calculations of the ratios of impurity diffusivities are in good accord with measurements. Theory estimates indicate that the ion heat flux should be larger than the electron heat flux, consistent with power balance analysis. However, theoretical values of the ratio of the ion to electron heat flux can be more than a factor of three larger than experimental values. A correlation between helium diffusion and ion thermal transport is observed and has favorable implications for sustained ignition of a tokamak fusion reactor.

  17. Helium, iron and electron particle transport and energy transport studies on the TFTR tokamak

    SciTech Connect

    Synakowski, E.J.; Efthimion, P.C.; Rewoldt, G.; Stratton, B.C.; Tang, W.M.; Grek, B.; Hill, K.W.; Hulse, R.A.; Johnson, D.W.; Mansfield, D.K.; McCune, D.; Mikkelsen, D.R.; Park, H.K.; Ramsey, A.T.; Redi, M.H.; Scott, S.D.; Taylor, G.; Timberlake, J.; Zarnstorff, M.C.; Kissick, M.W.

    1993-03-01

    Results from helium, iron, and electron transport on TFTR in L-mode and Supershot deuterium plasmas with the same toroidal field, plasma current, and neutral beam heating power are presented. They are compared to results from thermal transport analysis based on power balance. Particle diffusivities and thermal conductivities are radially hollow and larger than neoclassical values, except possibly near the magnetic axis. The ion channel dominates over the electron channel in both particle and thermal diffusion. A peaked helium profile, supported by inward convection that is stronger than predicted by neoclassical theory, is measured in the Supershot The helium profile shape is consistent with predictions from quasilinear electrostatic drift-wave theory. While the perturbative particle diffusion coefficients of all three species are similar in the Supershot, differences are found in the L-Mode. Quasilinear theory calculations of the ratios of impurity diffusivities are in good accord with measurements. Theory estimates indicate that the ion heat flux should be larger than the electron heat flux, consistent with power balance analysis. However, theoretical values of the ratio of the ion to electron heat flux can be more than a factor of three larger than experimental values. A correlation between helium diffusion and ion thermal transport is observed and has favorable implications for sustained ignition of a tokamak fusion reactor.

  18. Transport of inertial particles by viscous streaming in arrays of oscillating probes

    NASA Astrophysics Data System (ADS)

    Chong, Kwitae; Kelly, Scott D.; Smith, Stuart T.; Eldredge, Jeff D.

    2016-01-01

    A mechanism for the transport of microscale particles in viscous fluids is demonstrated. The mechanism exploits the trapping of such particles by rotational streaming cells established in the vicinity of an oscillating cylinder, recently analyzed in previous work. The present work explores a strategy of transporting particles between the trapping points established by multiple cylinders undergoing oscillations in sequential intervals. It is demonstrated that, by controlling the sequence of oscillation intervals, an inertial particle is effectively and predictably transported between the stable trapping points. Arrays of cylinders in various arrangements are investigated, revealing a technique for constructing arbitrary particle trajectories. It is found that the domain from which particles can be transported and trapped by an oscillator is extended, even to regions in which particles are shielded, by the presence of other stationary cylinders. The timescales for transport are examined, as are the mechanisms by which particles are drawn away from an obstacle toward the trapping point of an oscillator.

  19. Particle model for nonlocal heat transport in fusion plasmas.

    PubMed

    Bufferand, H; Ciraolo, G; Ghendrih, Ph; Lepri, S; Livi, R

    2013-02-01

    We present a simple stochastic, one-dimensional model for heat transfer in weakly collisional media as fusion plasmas. Energies of plasma particles are treated as lattice random variables interacting with a rate inversely proportional to their energy schematizing a screened Coulomb interaction. We consider both the equilibrium (microcanonical) and nonequilibrium case in which the system is in contact with heat baths at different temperatures. The model exhibits a characteristic length of thermalization that can be associated with an interaction mean free path and one observes a transition from ballistic to diffusive regime depending on the average energy of the system. A mean-field expression for heat flux is deduced from system heat transport properties. Finally, it is shown that the nonequilibrium steady state is characterized by long-range correlations.

  20. Altered transport of lindane caused by the retention of natural particles in saturated porous media.

    PubMed

    Ngueleu, Stéphane K; Grathwohl, Peter; Cirpka, Olaf A

    2014-07-01

    Attachment and straining of colloidal particles in porous media result in their reversible and irreversible retention. The retained particles may either increase the retention of hydrophobic pollutants by sorption onto the particles, or enhance pollutant transport when particles, loaded with the pollutants, are remobilized. The present study examines the effects of retained particles on the transport of the hydrophobic pesticide lindane (gamma-hexachlorocyclohexane) in saturated porous media. The lignite particles used have median diameters of about 3 μm, 1 μm, 0.8 μm, and 0.2 μm, respectively. Laboratory column experiments were analyzed by numerical modeling in order to identify and understand the processes involved in the transport of the particles and of lindane. Four scenarios were considered in which the solution containing lindane is injected either during or after the elution of the particles. The results show that lignite particles retained in a sandy porous medium alter the transport of the invading lindane. Particle retention was high in all scenarios and increased with increasing particle size. Remobilization of particles occurred due to a change in solution chemistry, and continuous particle detachment was observed over time. Numerical modeling of particle transport suggests that both reversible attachment and irreversible straining affected the transport of the particles. Lindane was retarded in all scenarios due to the strong particle retention in conjunction with the sorption of lindane onto the sand and onto retained particles, and the limited number of mobile particles carrying lindane. Moreover, it was found that intra-particle diffusion limited adsorption/desorption of lindane onto/from both limestone fragments of the sand and lignite particles. We assume that retention of lindane is reversible even though lindane recovery was incomplete over the duration of the experiments. The analysis of the effluent concentration suggests that retained

  1. An approach to improving transporting velocity in the long-range ultrasonic transportation of micro-particles

    SciTech Connect

    Meng, Jianxin; Mei, Deqing Yang, Keji; Fan, Zongwei

    2014-08-14

    In existing ultrasonic transportation methods, the long-range transportation of micro-particles is always realized in step-by-step way. Due to the substantial decrease of the driving force in each step, the transportation is lower-speed and stair-stepping. To improve the transporting velocity, a non-stepping ultrasonic transportation approach is proposed. By quantitatively analyzing the acoustic potential well, an optimal region is defined as the position, where the largest driving force is provided under the condition that the driving force is simultaneously the major component of an acoustic radiation force. To keep the micro-particle trapped in the optimal region during the whole transportation process, an approach of optimizing the phase-shifting velocity and phase-shifting step is adopted. Due to the stable and large driving force, the displacement of the micro-particle is an approximately linear function of time, instead of a stair-stepping function of time as in the existing step-by-step methods. An experimental setup is also developed to validate this approach. Long-range ultrasonic transportations of zirconium beads with high transporting velocity were realized. The experimental results demonstrated that this approach is an effective way to improve transporting velocity in the long-range ultrasonic transportation of micro-particles.

  2. M3D-K simulations of sawteeth and energetic particle transport in tokamak plasmas

    SciTech Connect

    Shen, Wei; Sheng, Zheng-Mao; Fu, G. Y.; Breslau, J. A.; Wang, Feng

    2014-09-15

    Nonlinear simulations of sawteeth and related energetic particle transport are carried out using the kinetic/magnetohydrodynamic (MHD) hybrid code M3D-K. MHD simulations show repeated sawtooth cycles for a model tokamak equilibrium. Furthermore, test particle simulations are carried out to study the energetic particle transport due to a sawtooth crash. The results show that energetic particles are redistributed radially in the plasma core, depending on pitch angle and energy. For trapped particles, the redistribution occurs for particle energy below a critical value in agreement with existing theories. For co-passing particles, the redistribution is strong with little dependence on particle energy. In contrast, the redistribution level of counter-passing particles decreases with increasing particle energy.

  3. Coherent pulses in the diffusive transport of charged particles`

    NASA Technical Reports Server (NTRS)

    Kota, J.

    1994-01-01

    We present exact solutions to the diffusive transport of charged particles following impulsive injection for a simple model of scattering. A modified, two-parameter relaxation-time model is considered that simulates the low rate of scattering through perpendicular pitch-angle. Scattering is taken to be isotropic within each of the foward- and backward-pointing hemispheres, respectively, but, at the same time, a reduced rate of sccattering is assumed from one hemisphere to the other one. By applying a technique of Fourier- and Laplace-transform, the inverse transformation can be performed and exact solutions can be reached. By contrast with the first, and so far only exact solutions of Federov and Shakov, this wider class of solutions gives rise to coherent pulses to appear. The present work addresses omnidirectional densities for isotropic injection from an instantaneous and localized source. The dispersion relations are briefly discussed. We find, for this particular model, two diffusive models to exist up to a certain limiting wavenumber. The corresponding eigenvalues are real at the lowest wavenumbers. Complex eigenvalues, which are responsible for coherent pulses, appear at higher wavenumbers.

  4. Electron tomography of IFT particles.

    PubMed

    Pigino, Gaia; Cantele, Francesca; Vannuccini, Elisa; Lanzavecchia, Salvatore; Paccagnini, Eugenio; Lupetti, Pietro

    2013-01-01

    Cilia and flagella play very important roles in eukaryotic cells, ranging from cell motility to chemo- and mechanosensation with active involvement in embryonic development and control of cell division. Cilia and flagella are highly dynamic organelles undergoing constant turnover at their tip, where multiprotein precursors synthesized in the cell cytoplasm are assembled, turnover products are released and carried back for recycling. Such bidirectional trafficking is maintained by an ATP-dependent active transport that is carried out by intraflagellar transport (IFT) particles. Despite our knowledge of the cell biology, the genomic, and the biochemistry of IFT, high-resolution 3D models for IFT are still missing. To date, the only information on the 3D structure of IFT come from our analysis of full-length flagella from the biflagellate green alga Chlamydomonas reinhardtii: the model organism where IFT was discovered and first characterized. In this chapter, we describe and discuss the strategy we implemented to produce the first 3D models of in situ IFT trains in flat-embedded flagella. We provide detailed information about the acquisition of tomographic images, the simultaneous alignment of the double-tilt tomographic series, and the analysis of the tomograms by subtomogram averaging for the generation of detailed 3D models of IFT particles. PMID:23498748

  5. Electron tomography of IFT particles.

    PubMed

    Pigino, Gaia; Cantele, Francesca; Vannuccini, Elisa; Lanzavecchia, Salvatore; Paccagnini, Eugenio; Lupetti, Pietro

    2013-01-01

    Cilia and flagella play very important roles in eukaryotic cells, ranging from cell motility to chemo- and mechanosensation with active involvement in embryonic development and control of cell division. Cilia and flagella are highly dynamic organelles undergoing constant turnover at their tip, where multiprotein precursors synthesized in the cell cytoplasm are assembled, turnover products are released and carried back for recycling. Such bidirectional trafficking is maintained by an ATP-dependent active transport that is carried out by intraflagellar transport (IFT) particles. Despite our knowledge of the cell biology, the genomic, and the biochemistry of IFT, high-resolution 3D models for IFT are still missing. To date, the only information on the 3D structure of IFT come from our analysis of full-length flagella from the biflagellate green alga Chlamydomonas reinhardtii: the model organism where IFT was discovered and first characterized. In this chapter, we describe and discuss the strategy we implemented to produce the first 3D models of in situ IFT trains in flat-embedded flagella. We provide detailed information about the acquisition of tomographic images, the simultaneous alignment of the double-tilt tomographic series, and the analysis of the tomograms by subtomogram averaging for the generation of detailed 3D models of IFT particles.

  6. Forced transport of self-propelled particles in a two-dimensional separate channel

    PubMed Central

    Wu, Jian-chun; Ai, Bao-quan

    2016-01-01

    Transport of self-propelled particles in a two-dimensional (2D) separate channel is investigated in the presence of the combined forces. By applying an ac force, the particles will be trapped by the separate walls. A dc force produces the asymmetry of the system and induces the longitudinal directed transport. Due to the competition between self-propulsion and the combined external forces, the transport is sensitive to the self-propelled speed and the particle radius, thus one can separate the particles based on these properties. PMID:27035860

  7. Flow and particle dispersion in a pulmonary alveolus--part II: effect of gravity on particle transport.

    PubMed

    Chhabra, Sudhaker; Prasad, Ajay K

    2010-05-01

    The acinar region of the human lung comprises about 300x10(6) alveoli, which are responsible for gas exchange between the lung and the blood. As discussed in Part I (Chhabra and Prasad, "Flow and Particle Dispersion in a Pulmonary Alveolus-Part I: Velocity Measurements and Convective Particle Transport," ASME J. Biomech. Eng., 132, p. 051009), the deposition of aerosols in the acinar region can either be detrimental to gas exchange (as in the case of harmful particulate matter) or beneficial (as in the case of inhalable pharmaceuticals). We measured the flow field inside an in-vitro model of a single alveolus mounted on a bronchiole and calculated the transport and deposition of massless particles in Part I. This paper focuses on the transport and deposition of finite-sized particles ranging from 0.25 microm to 4 microm under the combined influence of flow-induced advection (computed from velocity maps obtained by particle image velocimetry) and gravitational settling. Particles were introduced during the first inhalation cycle and their trajectories and deposition statistics were calculated for subsequent cycles for three different particle sizes (0.25 microm, 1 microm, and 4 microm) and three alveolar orientations. The key outcome of the study is that particles particles (d(p)=1 microm) deviate to some extent from streamlines and exhibit complex trajectories. The motion of large particles >or=4 microm is dominated by gravitational settling and shows little effect of fluid advection. Additionally, small and midsize particles deposit at about two-thirds height in the alveolus irrespective of the gravitational orientation whereas the deposition of large particles is governed primarily by the orientation of the gravity vector. PMID:20459211

  8. The persistence, transport and health effects of regional ultrafine particles

    NASA Astrophysics Data System (ADS)

    Spada, Nicholas James

    Due to the multitude of health studies that have shown the ability of ultrafine particles (UFPs, DP < 100 nm) to penetrate deep into lung tissue, diffuse into the bloodstream, and eventually cause heart and lung disease, my thesis will focus on these effectively unmonitored airborne pollutants. UFPs are commonly detected near busy roadways and other high-temperature combustion sources in the form of heavy metals (copper, lead, zinc, iron) and toxic organics (benzo{a}pyrene, coronene). Studies of UFPs during the 1970s expressed a nucleic propensity for coagulation and growth. Because many of the UFPs studied were generated from heavy-duty diesel engines operating with ≥0.3 wt % sulfur, the resulting sulfur-containing UFPs were hydrophilic and water vapor readily condensed on the generated nuclei. Due to their increased size, UFPs tend to settle out of air streams quickly; thus, limiting their impact regime to near-roadway influence and labeling them as local pollutants. By using highly size- and time-resolved impactors with TeflonRTM ultrafine after-filters (targeting DP < 90 nm), new evidence suggests the persistence of UFPs for greater periods of time and transport than previously predicted. Techniques developed during the Roseville rail yard study, refined during the Watt Ave/Arden Way study and applied across California's central valley have shown low levels of UFPs in a regional background. For cities in constrictive topography and meteorology (such as Bakersfield, Fresno and Los Angeles), winter inversions and stagnant weather can saturate the region with ultrafine heavy metals and carcinogenic organics, similar to the disasters during the middle of the last century.

  9. Turbulent transport of alpha particles in reactor plasmas

    SciTech Connect

    Estrada-Mila, C.; Candy, J.; Waltz, R. E.

    2006-11-15

    A systematic study of the behavior of energetic ions in reactor plasmas is presented. Using self-consistent gyrokinetic simulations, in concert with an analytic asymptotic theory, it is found that alpha particles can interact significantly with core ion-temperature-gradient turbulence. Specifically, the per-particle flux of energetic alphas is comparable to the per-particle flux of thermal species (deuterium or helium ash). This finding opposes the conventional wisdom that energetic ions, because of their large gyroradii, do not interact with the turbulence. For the parameters studied, a turbulent modification of the alpha-particle density profile appears to be stronger than turbulent modification of the alpha-particle pressure profile. Crude estimates indicate that the alpha density modification, which is directly proportional to the core turbulence intensity, could be in the range of 15% at midradius in a reactor. The corresponding modification of the alpha-particle pressure profile is predicted to be smaller (in the 1% range)

  10. Transport and Retention of Engineered Nanoporous Particles in Porous Media: Effects of Concentration and Flow Dynamics

    SciTech Connect

    Shang, Jianying; Liu, Chongxuan; Wang, Zheming

    2013-01-20

    Engineered nanoporous particles are an important class of nano-structured materials that can be functionalized in their internal surfaces for various applications including groundwater contaminant sequestration. This paper reported a study of transport and retention of engineered nanoporous silicate particles (ENSPs) that are designed for treatment and remediation of contaminants such as uranium in groundwater and sediments. The transport and retention of ENSPs were investigated under variable particle concentrations and dynamic flow conditions in a synthetic groundwater that mimics field groundwater chemical composition. The dynamic flow condition was achieved using a flow-interruption (stop-flow) approach with variable stop-flow durations to explore particle retention and release kinetics. The results showed that the ENSPs transport was strongly affected by the particle concentrations and dynamic flow conditions. A lower injected ENSPs concentration and longer stop-flow duration led to a more particle retention. The experimental data were used to evaluate the applicability of various kinetic models that were developed for colloidal particle retention and release in describing ENSPs transport. Model fits suggested that the transport and retention of ENSPs were subjected to a complex coupling of reversible attachment/detachment and straining/liberation processes. Both experimental and modeling results indicated that dynamic groundwater flow condition is an important parameter to be considered in exploring and modeling engineered particle transport in subsurface porous media.

  11. TIME-DEPENDENT PERPENDICULAR TRANSPORT OF FAST CHARGED PARTICLES IN A TURBULENT MAGNETIC FIELD

    SciTech Connect

    Fraschetti, F.; Jokipii, J. R.

    2011-06-20

    We present an analytic derivation of the temporal dependence of the perpendicular transport coefficient of charged particles in magnetostatic turbulence, for times smaller than the time needed for charged particles to travel the turbulence correlation length. This time window is left unexplored in most transport models. In our analysis all magnetic scales are taken to be much larger than the particle gyroradius, so that perpendicular transport is assumed to be dominated by the guiding center motion. Particle drift from the local magnetic field lines (MFLs) and magnetic field line random walk are evaluated separately for slab and three-dimensional (3D) isotropic turbulence. Contributions of wavelength scales shorter and longer than the turbulence coherence length are compared. In contrast to the slab case, particles in 3D isotropic turbulence unexpectedly diffuse from local MFLs; this result questions the common assumption that particle magnetization is independent of turbulence geometry. Extensions of this model will allow for a study of solar wind anisotropies.

  12. Particle transport across the transpired turbulent boundary layer

    NASA Astrophysics Data System (ADS)

    Kozlu, Hamdi; Louis, Jean F.

    1987-05-01

    Wind tunnel data and theoretical results are used to study the effects of surface inclination and density of particulates on deposition control by transpiration, with application to the control of deposition of small particles contributing most of the mass of the solid carryover entering turbines burning coal-derived fuel. The effects of size and injection rates on deposition are considered, and the interaction between transpiration and the inertial impaction of particles is investigated using glass particles. Turbulent Schmidt numbers obtained from tests conducted on an inclined plate with coal particles in order to determine the density effects on the particle concentration profiles were in agreement with the predictions of Tchen (1974) for the flat plate.

  13. Neutral Particle Transport in Cylindrical Plasma Simulated by a Monte Carlo Code

    NASA Astrophysics Data System (ADS)

    Yu, Deliang; Yan, Longwen; Zhong, Guangwu; Lu, Jie; Yi, Ping

    2007-04-01

    A Monte Carlo code (MCHGAS) has been developed to investigate the neutral particle transport. The code can calculate the radial profile and energy spectrum of neutral particles in cylindrical plasmas. The calculation time of the code is dramatically reduced when the Splitting and Roulette schemes are applied. The plasma model of an infinite cylinder is assumed in the code, which is very convenient in simulating neutral particle transports in small and middle-sized tokamaks. The design of the multi-channel neutral particle analyser (NPA) on HL-2A can be optimized by using this code.

  14. A chip for catching, separating, and transporting bio-particles with dielectrophoresis.

    PubMed

    Huang, Jung-Tang; Wang, Guo-Chen; Tseng, Kuang-Ming; Fang, Shiuh-Bin

    2008-11-01

    This study aims at developing a 3D device for catching, separating, and transporting bio-particles based on dielectrophoresis (DEP). Target particles can be simultaneously caught and transported using the negative DEP method. In non-uniform electric fields, the levitation height or complex permittivity of certain particle may be different from that of another and this property can facilitate separation of particles. We have designed and constructed a 3D device consisting of two layers of electrodes separated by a channel formed by 50 microm thick photoresist. The electrodes can operate effectively with 10-15 V and 5-7 MHz to catch all particles in the channel, and can move particles after switching the electric field to 5-15 V and 500-1,000 KHz. Hence, particles experienced coupling force of two different directional twDEP forces, and tallied with our estimation to move along the coupling direction. PMID:18719958

  15. Effect of weightlessness on colloidal particle transport and segregation in self-organising microtubule preparations.

    PubMed

    Tabony, James; Rigotti, Nathalie; Glade, Nicolas; Cortès, Sandra

    2007-05-01

    Weightlessness is known to effect cellular functions by as yet undetermined processes. Many experiments indicate a role of the cytoskeleton and microtubules. Under appropriate conditions in vitro microtubule preparations behave as a complex system that self-organises by a combination of reaction and diffusion. This process also results in the collective transport and organisation of any colloidal particles present. In large centimetre-sized samples, self-organisation does not occur when samples are exposed to a brief early period of weightlessness. Here, we report both space-flight and ground-based (clinorotation) experiments on the effect of weightlessness on the transport and segregation of colloidal particles and chromosomes. In centimetre-sized containers, both methods show that a brief initial period of weightlessness strongly inhibits particle transport. In miniature cell-sized containers under normal gravity conditions, the particle transport that self-organisation causes results in their accumulation into segregated regions of high and low particle density. The gravity dependence of this behaviour is strongly shape dependent. In square wells, neither self-organisation nor particle transport and segregation occur under conditions of weightlessness. On the contrary, in rectangular canals, both phenomena are largely unaffected by weightlessness. These observations suggest, depending on factors such as cell and embryo shape, that major biological functions associated with microtubule driven particle transport and organisation might be strongly perturbed by weightlessness.

  16. Transport of inertial particles in a turbulent premixed jet flame

    NASA Astrophysics Data System (ADS)

    Battista, F.; Picano, F.; Troiani, G.; Casciola, C. M.

    2011-12-01

    The heat release, occurring in reacting flows, induces a sudden fluid acceleration which particles follow with a certain lag, due to their finite inertia. Actually, the coupling between particle inertia and the flame front expansion strongly biases the spatial distribution of the particles, by inducing the formation of localized clouds with different dimensions downstream the thin flame front. A possible indicator of this preferential localization is the so-called Clustering Index, quantifying the departure of the actual particle distribution from the Poissonian, which would correspond to a purely random spatial arrangement. Most of the clustering is found in the flame brush region, which is spanned by the fluctuating instantaneous flame front. The effect is significant also for very light particles. In this case a simple model based on the Bray-Moss-Libby formalism is able to account for most of the deviation from the Poissonian. When the particle inertia increases, the effect is found to increases and persist well within the region of burned gases. The effect is maximum when the particle relaxation time is of the order of the flame front time scale. The evidence of this peculiar source of clustering is here provided by data from a direct numerical simulation of a turbulent premixed jet flame and confirmed by experimental data.

  17. Transport and Attenuation of Particles of Different Density and Surface Charge: A Karst Aquifer Field Study.

    PubMed

    Schiperski, Ferry; Zirlewagen, Johannes; Scheytt, Traugott

    2016-08-01

    Although karst aquifers are far more susceptible to contamination than porous aquifers, with the transport of particulate matter being an important factor, little is known about the attenuation of solutes within karst aquifers and even less about the attenuation of particulate matter. These in situ investigations have therefore aimed to systematically identify the processes that influence the transport and attenuation of particles within a karst aquifer through multitracer testing, using four different types of 1 μm fluorescent particles and the fluorescent dye uranine. Each of the types of particles used were detected at the observed spring, which drains the investigated aquifer. However, the transport behavior varied significantly between the various particles and the uranine dye, with the breakthrough of particles occurring slightly earlier than that of uranine. Attenuation was determined from the tracer recovery and attributed to filtration processes. These processes were affected by the hydrophobicity and surface charge of the particles. Carboxylated polystyrene particles with a density and surface charge comparable to pathogenic microorganisms were found to be mobile in groundwater over a distance of about 3 km. No attenuation was observed for plain silica particles. Particles with these characteristics thus pose a major threat to karst spring water as they might occur as contaminants themselves or facilitate the transport of other contaminants.

  18. Transport and Attenuation of Particles of Different Density and Surface Charge: A Karst Aquifer Field Study.

    PubMed

    Schiperski, Ferry; Zirlewagen, Johannes; Scheytt, Traugott

    2016-08-01

    Although karst aquifers are far more susceptible to contamination than porous aquifers, with the transport of particulate matter being an important factor, little is known about the attenuation of solutes within karst aquifers and even less about the attenuation of particulate matter. These in situ investigations have therefore aimed to systematically identify the processes that influence the transport and attenuation of particles within a karst aquifer through multitracer testing, using four different types of 1 μm fluorescent particles and the fluorescent dye uranine. Each of the types of particles used were detected at the observed spring, which drains the investigated aquifer. However, the transport behavior varied significantly between the various particles and the uranine dye, with the breakthrough of particles occurring slightly earlier than that of uranine. Attenuation was determined from the tracer recovery and attributed to filtration processes. These processes were affected by the hydrophobicity and surface charge of the particles. Carboxylated polystyrene particles with a density and surface charge comparable to pathogenic microorganisms were found to be mobile in groundwater over a distance of about 3 km. No attenuation was observed for plain silica particles. Particles with these characteristics thus pose a major threat to karst spring water as they might occur as contaminants themselves or facilitate the transport of other contaminants. PMID:27348254

  19. Investigating the role of particle shape on colloid transport and retention in saturated porous media (Invited)

    NASA Astrophysics Data System (ADS)

    Li, Y.; Seymour, M.; Chen, G.; Su, C.

    2011-12-01

    Mechanistic understanding of the transport and retention of nanoparticles in porous media is essential both for environmental applications of nanotechnology and assessing the potential environmental impacts of engineered nanomaterials. Engineered and naturally occurring nanoparticles can be found in various shapes including rod-shape carbon nanotubes that have high aspect ratios. Although it is expected that nonspherical shape could play an important role on their transport and retention behaviors, current theoretical models for particle transport in porous media, however, are mostly based on spherical particle shape. In this work, the effect of particle shape on its transport and retention in porous media was evaluated by stretching carboxylate-modified fluorescent polystyrene spheres into rod shapes with aspect ratios of 2:1 and 4:1. Quartz crystal microbalance with dissipation experiments (QCM-D) were conducted to measure the deposition rates of spherical and rod-shaped nanoparticles to the collector (poly-L-lysine coated silica sensor) surface under favorable conditions. Under unfavorable conditions, the retention of nanoparticles in a microfluidic flow cell packed with glass beads was studied with the use of laser scanning cytometry (LSC). Under favorable conditions, the spherical particles displayed a significantly higher deposition rate compared with that of the rod-shaped particles. Theoretical analysis based on Smoluchowski-Levich approximation indicated that the rod-shaped particles largely counterbalance the attractive energies due to higher hydrodynamic forces and torques experienced during their transport and rotation. Under unfavorable conditions, significantly more attachment was observed for rod-shaped particles than spherical particles, and the attachment rate of the rod-shaped particles showed an increasing trend with the increase in injection volume. Rod-shaped particles were found to be less sensitive to the surface charge heterogeneity change

  20. Investigating the role of particle shape on colloid transport and retention in saturated porous media (Invited)

    NASA Astrophysics Data System (ADS)

    Li, Y.; Seymour, M.; Chen, G.; Su, C.

    2013-12-01

    Mechanistic understanding of the transport and retention of nanoparticles in porous media is essential both for environmental applications of nanotechnology and assessing the potential environmental impacts of engineered nanomaterials. Engineered and naturally occurring nanoparticles can be found in various shapes including rod-shape carbon nanotubes that have high aspect ratios. Although it is expected that nonspherical shape could play an important role on their transport and retention behaviors, current theoretical models for particle transport in porous media, however, are mostly based on spherical particle shape. In this work, the effect of particle shape on its transport and retention in porous media was evaluated by stretching carboxylate-modified fluorescent polystyrene spheres into rod shapes with aspect ratios of 2:1 and 4:1. Quartz crystal microbalance with dissipation experiments (QCM-D) were conducted to measure the deposition rates of spherical and rod-shaped nanoparticles to the collector (poly-L-lysine coated silica sensor) surface under favorable conditions. Under unfavorable conditions, the retention of nanoparticles in a microfluidic flow cell packed with glass beads was studied with the use of laser scanning cytometry (LSC). Under favorable conditions, the spherical particles displayed a significantly higher deposition rate compared with that of the rod-shaped particles. Theoretical analysis based on Smoluchowski-Levich approximation indicated that the rod-shaped particles largely counterbalance the attractive energies due to higher hydrodynamic forces and torques experienced during their transport and rotation. Under unfavorable conditions, significantly more attachment was observed for rod-shaped particles than spherical particles, and the attachment rate of the rod-shaped particles showed an increasing trend with the increase in injection volume. Rod-shaped particles were found to be less sensitive to the surface charge heterogeneity change

  1. The role of particle collisions in pneumatic transport

    NASA Technical Reports Server (NTRS)

    Mastorakos, E.; Louge, M.; Jenkins, J. T.

    1989-01-01

    A model of dilute gas-solid flow in vertical risers is developed in which the particle phase is treated as a granular material, the balance equations for rapid granular flow are modified to incorporate the drag force from the gas, and boundary conditions, based on collisional exchanges of momentum and energy at the wall, are employed. In this model, it is assumed that the particle fluctuations are determined by inter-particle collisions only and that the turbulence of the gas is unaffected by the presence of the particles. The model is developed in the context of, but not limited to, steady, fully developed flow. A numerical solution of the resulting governing equations provides concentration profiles generally observed in dilute pneumatic flow, velocity profiles in good agreement with the measurements of Tsuji, et al. (1984), and an explanation for the enhancement of turbulence that they observed.

  2. Small particle transport across turbulent nonisothermal boundary layers

    NASA Technical Reports Server (NTRS)

    Rosner, D. E.; Fernandez De La Mora, J.

    1982-01-01

    The interaction between turbulent diffusion, Brownian diffusion, and particle thermophoresis in the limit of vanishing particle inertial effects is quantitatively modeled for applications in gas turbines. The model is initiated with consideration of the particle phase mass conservation equation for a two-dimensional boundary layer, including the thermophoretic flux term directed toward the cold wall. A formalism of a turbulent flow near a flat plate in a heat transfer problem is adopted, and variable property effects are neglected. Attention is given to the limit of very large Schmidt numbers and the particle concentration depletion outside of the Brownian sublayer. It is concluded that, in the parameter range of interest, thermophoresis augments the high Schmidt number mass-transfer coefficient by a factor equal to the product of the outer sink and the thermophoretic suction.

  3. Smoothed Particle Hydrodynamics Model for Reactive Transport and Mineral Precipitation

    SciTech Connect

    Tartakovsky, Alexandre M.; Scheibe, Timothy D.; Redden, George; Meakin, Paul; Fang, Yilin

    2006-06-30

    A new Lagrangian particle model based on smoothed particle hydrodynamics was used to simulate pore scale precipitation reactions. The side-by-side injection of reacting solutions into two halves of a two-dimensional granular porous medium was simulated. Precipitation on grain surfaces occurred along a narrow zone in the middle of the domain, where the reacting solutes mixed to generate a supersaturated reaction product. The numerical simulations qualitatively reproduced the behavior observed in related laboratory experiments.

  4. Review of the facile (F/sub N/) method in particle transport theory

    SciTech Connect

    Garcia, R.D.M.

    1985-10-01

    The facile (F/sub N/) method for solving particle transport problems is reviewed. The fundamentals of the method are summarized, recent developments are discussed and several applications of the method are described in detail.

  5. Changes in particle transport as a result of resonant magnetic perturbations in DIII-D

    SciTech Connect

    Mordijck, S.; Doyle, E. J.; McKee, G. R.; Moyer, R.A.; Rhodes, T. L.; Zeng, L.; Commaux, Nicolas JC; Fenstermacher, M. E.; Gentle, T. K.; Reimerdes, H.; Schmitz, O.; Solomon, W. M.; Staebler, G. M.; Wang, G. Y.

    2012-01-01

    In this paper, we introduce the first direct perturbed particle transport measurements in resonant magnetic perturbation (RMP) H-mode plasmas. The perturbed particle transport increases as a result of application of RMP deep into the core. In the core, a large reduction in E x B shear to a value below the linear growth rate, in conjunction with increasing density fluctuations, is consistent with an increase in turbulent particle transport. In the edge, the changes in turbulent particle transport are less obvious. There is a clear correlation between the linear growth rates and the density fluctuations measured at different scales, but it is uncertain which is the cause and which is the consequence.

  6. Changes in particle transport as a result of resonant magnetic perturbations in DIII-D

    SciTech Connect

    Mordijck, S.; Doyle, E. J.; Rhodes, T. L.; Zeng, L.; Wang, G.; McKee, G. R.; Moyer, R. A.; Commaux, N.; Fenstermacher, M. E.; Gentle, K. W.; Reimerdes, H.; Schmitz, O.; Solomon, W. M.; Staebler, G. M.

    2012-05-15

    In this paper, we introduce the first direct perturbed particle transport measurements in resonant magnetic perturbation (RMP) H-mode plasmas. The perturbed particle transport increases as a result of application of RMP deep into the core. In the core, a large reduction in E Multiplication-Sign B shear to a value below the linear growth rate, in conjunction with increasing density fluctuations, is consistent with an increase in turbulent particle transport. In the edge, the changes in turbulent particle transport are less obvious. There is a clear correlation between the linear growth rates and the density fluctuations measured at different scales, but it is uncertain which is the cause and which is the consequence.

  7. Monte Carlo Particle Transport: Algorithm and Performance Overview

    SciTech Connect

    Gentile, N; Procassini, R; Scott, H

    2005-06-02

    Monte Carlo methods are frequently used for neutron and radiation transport. These methods have several advantages, such as relative ease of programming and dealing with complex meshes. Disadvantages include long run times and statistical noise. Monte Carlo photon transport calculations also often suffer from inaccuracies in matter temperature due to the lack of implicitness. In this paper we discuss the Monte Carlo algorithm as it is applied to neutron and photon transport, detail the differences between neutron and photon Monte Carlo, and give an overview of the ways the numerical method has been modified to deal with issues that arise in photon Monte Carlo simulations.

  8. Cilia-driven particle and fluid transport over mucus-free mice tracheae.

    PubMed

    Hussong, J; Lindken, R; Faulhammer, P; Noreikat, K; Sharp, K V; Kummer, W; Westerweel, J

    2013-02-01

    To date, there is only a fragmentary understanding of the fundamental mechanisms of airway mucociliary transport. Application of the latest measurement techniques can aid in deciphering the complex interplay between ciliary beat and airway surface liquid (ASL) transport. In the present study, direct, quasi-simultaneous measurements of the cilia-induced fluid and bead transport were performed to gain a better insight into both transport mechanisms. In this study cilia-induced periciliary liquid (PCL) transport is measured by means of micro Particle Image Velocimetry (μPIV) with neutrally buoyant tracers. Particle Tracking Velocimetry (PTV) with heavier polystyrene-ferrite beads is performed to simulate particle transport. Contrary to recent literature, in which the presence of mucus was deemed necessary to maintain periciliary liquid (PCL) transport, effective particle and fluid transport was measured in our experiments in the absence of mucus. In response to muscarine or ATP stimulation, maximum fluid transport rates of 250 μm/s at 15 μm distance to the tracheal epithelia were measured while bead transport rates over the epithelia surfaces reached 200 μm/s. We estimated that the mean bead transport is dominated by viscous drag compared to inertial fluid forces. Furthermore, mean bead transport velocities appear to be two orders of magnitude larger compared to bead sedimentation velocities. Therefore, beads are expected to closely follow the mean PCL flow in non-ciliated epithelium regions. Based on our results, we have shown that PCL transport can be directly driven by the cilia beat and that the PCL motion may be capable of driving bead transport by fluid drag.

  9. Model sensitivity and robustness in the estimation of larval transport: A study of particle tracking parameters

    NASA Astrophysics Data System (ADS)

    Simons, Rachel D.; Siegel, David A.; Brown, Kevin S.

    2013-06-01

    Many marine organisms spend their early lives as planktonic larvae dispersed by ocean currents. Predictions of larval transport are important for a wide range of applications including the interpretation of population genetics, fisheries management, and the planning of no-take marine protected areas. A popular method for predicting larval transport is through the use of coupled ocean circulation and particle tracking models, termed "biophysical" models. Although much research has been done on the sensitivity and uncertainty of ocean circulation models, the sensitivity of particle tracking models for the assessment of larval transport has been largely overlooked. This study investigates the sensitivity of larval transport predictions to three input parameters universally required for particle tracking in biophysical models; namely the number of particles released, the particle release depth, and the particle tracking time. Using a three-dimensional biophysical model of the Southern California Bight, estimates of larval transport are quantified using a two-dimensional vertically-integrated particle density distribution (PDD) and the difference between PDDs is assessed using the fraction of unexplained variance (FUV). Overall, our study shows that larval transport predictions are sensitive to changes in all three input parameters and that the sensitivity is affected by the strength of mixing in the system. For the number of particles released, the FUV falls off rapidly as the number of particles increases. A minimum number of particles is identified that guarantees robustness of model predictions; this number increases as the complexity of the circulation patterns increases. For the particle release depth, the FUV between PDDs grew linearly as particles are released farther apart. The FUV is also inversely proportional to the strength of vertical mixing as the FUV is smaller in the winter when a deep mixed layer and weak stratification are present and larger in the

  10. DANTSYS: A diffusion accelerated neutral particle transport code system

    SciTech Connect

    Alcouffe, R.E.; Baker, R.S.; Brinkley, F.W.; Marr, D.R.; O`Dell, R.D.; Walters, W.F.

    1995-06-01

    The DANTSYS code package includes the following transport codes: ONEDANT, TWODANT, TWODANT/GQ, TWOHEX, and THREEDANT. The DANTSYS code package is a modular computer program package designed to solve the time-independent, multigroup discrete ordinates form of the boltzmann transport equation in several different geometries. The modular construction of the package separates the input processing, the transport equation solving, and the post processing (or edit) functions into distinct code modules: the Input Module, one or more Solver Modules, and the Edit Module, respectively. The Input and Edit Modules are very general in nature and are common to all the Solver Modules. The ONEDANT Solver Module contains a one-dimensional (slab, cylinder, and sphere), time-independent transport equation solver using the standard diamond-differencing method for space/angle discretization. Also included in the package are solver Modules named TWODANT, TWODANT/GQ, THREEDANT, and TWOHEX. The TWODANT Solver Module solves the time-independent two-dimensional transport equation using the diamond-differencing method for space/angle discretization. The authors have also introduced an adaptive weighted diamond differencing (AWDD) method for the spatial and angular discretization into TWODANT as an option. The TWOHEX Solver Module solves the time-independent two-dimensional transport equation on an equilateral triangle spatial mesh. The THREEDANT Solver Module solves the time independent, three-dimensional transport equation for XYZ and RZ{Theta} symmetries using both diamond differencing with set-to-zero fixup and the AWDD method. The TWODANT/GQ Solver Module solves the 2-D transport equation in XY and RZ symmetries using a spatial mesh of arbitrary quadrilaterals. The spatial differencing method is based upon the diamond differencing method with set-to-zero fixup with changes to accommodate the generalized spatial meshing.

  11. Particle tracking approach for transport in three-dimensional discrete fracture networks: Particle tracking in 3-D DFNs

    SciTech Connect

    Makedonska, Nataliia; Painter, Scott L.; Bui, Quan M.; Gable, Carl W.; Karra, Satish

    2015-09-16

    The discrete fracture network (DFN) model is a method to mimic discrete pathways for fluid flow through a fractured low-permeable rock mass, and may be combined with particle tracking simulations to address solute transport. However, experience has shown that it is challenging to obtain accurate transport results in three-dimensional DFNs because of the high computational burden and difficulty in constructing a high-quality unstructured computational mesh on simulated fractures. We present a new particle tracking capability, which is adapted to control volume (Voronoi polygons) flow solutions on unstructured grids (Delaunay triangulations) on three-dimensional DFNs. The locally mass-conserving finite-volume approach eliminates mass balance-related problems during particle tracking. The scalar fluxes calculated for each control volume face by the flow solver are used to reconstruct a Darcy velocity at each control volume centroid. The groundwater velocities can then be continuously interpolated to any point in the domain of interest. The control volumes at fracture intersections are split into four pieces, and the velocity is reconstructed independently on each piece, which results in multiple groundwater velocities at the intersection, one for each fracture on each side of the intersection line. This technique enables detailed particle transport representation through a complex DFN structure. Verified for small DFNs, the new simulation capability enables numerical experiments on advective transport in large DFNs to be performed. As a result, we demonstrate this particle transport approach on a DFN model using parameters similar to those of crystalline rock at a proposed geologic repository for spent nuclear fuel in Forsmark, Sweden.

  12. Particle tracking approach for transport in three-dimensional discrete fracture networks: Particle tracking in 3-D DFNs

    DOE PAGES

    Makedonska, Nataliia; Painter, Scott L.; Bui, Quan M.; Gable, Carl W.; Karra, Satish

    2015-09-16

    The discrete fracture network (DFN) model is a method to mimic discrete pathways for fluid flow through a fractured low-permeable rock mass, and may be combined with particle tracking simulations to address solute transport. However, experience has shown that it is challenging to obtain accurate transport results in three-dimensional DFNs because of the high computational burden and difficulty in constructing a high-quality unstructured computational mesh on simulated fractures. We present a new particle tracking capability, which is adapted to control volume (Voronoi polygons) flow solutions on unstructured grids (Delaunay triangulations) on three-dimensional DFNs. The locally mass-conserving finite-volume approach eliminates massmore » balance-related problems during particle tracking. The scalar fluxes calculated for each control volume face by the flow solver are used to reconstruct a Darcy velocity at each control volume centroid. The groundwater velocities can then be continuously interpolated to any point in the domain of interest. The control volumes at fracture intersections are split into four pieces, and the velocity is reconstructed independently on each piece, which results in multiple groundwater velocities at the intersection, one for each fracture on each side of the intersection line. This technique enables detailed particle transport representation through a complex DFN structure. Verified for small DFNs, the new simulation capability enables numerical experiments on advective transport in large DFNs to be performed. As a result, we demonstrate this particle transport approach on a DFN model using parameters similar to those of crystalline rock at a proposed geologic repository for spent nuclear fuel in Forsmark, Sweden.« less

  13. Third-order TRANSPORT: A computer program for designing charged particle beam transport systems

    SciTech Connect

    Carey, D.C.; Brown, K.L.; Rothacker, F.

    1995-05-01

    TRANSPORT has been in existence in various evolutionary versions since 1963. The present version of TRANSPORT is a first-, second-, and third-order matrix multiplication computer program intended for the design of static-magnetic beam transport systems. This report discusses the following topics on TRANSPORT: Mathematical formulation of TRANSPORT; input format for TRANSPORT; summaries of TRANSPORT elements; preliminary specifications; description of the beam; physical elements; other transformations; assembling beam lines; operations; variation of parameters for fitting; and available constraints -- the FIT command.

  14. Interplanetary pitch angle scattering and coronal transport of solar energetic particles - New information from Helios

    NASA Technical Reports Server (NTRS)

    Bieber, J. W.; Earl, J. A.; Green, G.; Kunow, H.; Mueller-Mellin, R.; Wibberenz, G.

    1980-01-01

    In the present paper, solar particle data from the Kiel experiment on Helios 2 at 0.5 AU are compared with the predictions of a model describing the coherent interplanetary transport of neutral particles. Good agreement is established for an event in March 1978 involving 0.5 MeV electrons and 5 MeV protons.

  15. FACTORS IN GEOTROPOSPHERIC PARTICLE-GAS TRANSPORT OF SEMIVOLATILE ORGANIC COMPOUNDS

    EPA Science Inventory

    Semivolatile organic compounds (SVOCs) can exist in solid, liquid, or gas phases under ambient environmental conditions. The geotropospheric transport of SVOCs varies according to the particle type. Two classes of SVOCs and two types of particles were analyzed to determine possib...

  16. NANO-PARTICLE TRANSPORT AND DEPOSITION IN BIFURCATING TUBES WITH DIFFERENT INLET CONDITIONS

    EPA Science Inventory

    Transport and deposition of ultrafine particles in straight, bend and bifurcating tubes are considered for different inlet Reynolds numbers, velocity profiles, and particle sizes i.e., 1 nm= =150 nm. A commercial finite-volume code with user-supplied programs was validated with a...

  17. Particle back-transport and permeate flux behavior in crossflow membrane filters

    SciTech Connect

    Chellam, S.; Wiesner, M.R.

    1997-03-01

    Particle residence time distributions in a membrane channel are interpreted to elucidate mechanisms of particle transport and colloidal fouling in membrane filtration. A comparison of particle size distributions in the membrane feed suspensions and deposited cakes provides evidence for selective particle transport and accumulation on membranes. These data support a previously hypothesized minimum in particle back-transport from the membrane as a function of particle size. The back-transport of smaller particles is apparently due to Brownian diffusion, while larger macrocolloids are controlled by an orthokinetic mechanism such as shear-induced diffusion. In all cases, cake specific resistances measured in the dead-end mode were higher than those of the corresponding feed suspensions. Also, cake specific resistances measured under a crossflow were higher than those in the dead-end mode. Further, the specific resistance of particle deposits on membranes increased with shear rate and decreased as the initial permeation rate increased, suggesting that cake morphology is an important parameter in determining permeate flux. Thus, the effects of hydrodynamics on cake resistance needs to be established before a comprehensive model for crossflow filtration can be derived. 17 refs., 7 figs., 1 tab.

  18. Using ACE and Ulysses to investigate the heliographic transport of energetic particles

    NASA Astrophysics Data System (ADS)

    Robinson, Ian M.

    2002-03-01

    The Advanced Composition Explorer (ACE) and the Ulysses spacecraft follow radically different trajectories, allowing the Sun to be simultaneously studied from 2 different perspectives. Data from the low energy particle instruments carried by these spacecraft reveals energetic particles accelerated at the Sun can access large angular extents of the interplanetary medium. We look at a rare case when the heliographic transport of energetic electrons was apparently prevented and speculate upon the ability of the corona to inhibit the propagation of these particles.

  19. Sandia Computational Engine for Particle Transport for Radiation Effects v 1.4

    2014-01-24

    The SCEPTRE code solves the linear Boltzmann transport equation for general two- and three-dimensional geometries. SCEPTRE is capable of handling any particle type for which multigroup-Legendre cross sections are available. However, the code is designed primarily to model the transport of photons, electrons, and positrons through matter.

  20. Influence of clay particles on the transport and retention of titanium dioxide nanoparticles in quartz sand.

    PubMed

    Cai, Li; Tong, Meiping; Wang, Xueting; Kim, Hyunjung

    2014-07-01

    This study investigated the influence of two representative suspended clay particles, bentonite and kaolinite, on the transport of titanium dioxide nanoparticles (nTiO2) in saturated quartz sand in both NaCl (1 and 10 mM ionic strength) and CaCl2 solutions (0.1 and 1 mM ionic strength) at pH 7. The breakthrough curves of nTiO2 with bentonite or kaolinite were higher than those without the presence of clay particles in NaCl solutions, indicating that both types of clay particles increased nTiO2 transport in NaCl solutions. Moreover, the enhancement of nTiO2 transport was more significant when bentonite was present in nTiO2 suspensions relative to kaolinite. Similar to NaCl solutions, in CaCl2 solutions, the breakthrough curves of nTiO2 with bentonite were also higher than those without clay particles, while the breakthrough curves of nTiO2 with kaolinite were lower than those without clay particles. Clearly, in CaCl2 solutions, the presence of bentonite in suspensions increased nTiO2 transport, whereas, kaolinite decreased nTiO2 transport in quartz sand. The attachment of nTiO2 onto clay particles (both bentonite and kaolinite) were observed under all experimental conditions. The increased transport of nTiO2 in most experimental conditions (except for kaolinite in CaCl2 solutions) was attributed mainly to the clay-facilitated nTiO2 transport. The straining of larger nTiO2-kaolinite clusters yet contributed to the decreased transport (enhanced retention) of nTiO2 in divalent CaCl2 solutions when kaolinite particles were copresent in suspensions.

  1. Influence of clay particles on the transport and retention of titanium dioxide nanoparticles in quartz sand.

    PubMed

    Cai, Li; Tong, Meiping; Wang, Xueting; Kim, Hyunjung

    2014-07-01

    This study investigated the influence of two representative suspended clay particles, bentonite and kaolinite, on the transport of titanium dioxide nanoparticles (nTiO2) in saturated quartz sand in both NaCl (1 and 10 mM ionic strength) and CaCl2 solutions (0.1 and 1 mM ionic strength) at pH 7. The breakthrough curves of nTiO2 with bentonite or kaolinite were higher than those without the presence of clay particles in NaCl solutions, indicating that both types of clay particles increased nTiO2 transport in NaCl solutions. Moreover, the enhancement of nTiO2 transport was more significant when bentonite was present in nTiO2 suspensions relative to kaolinite. Similar to NaCl solutions, in CaCl2 solutions, the breakthrough curves of nTiO2 with bentonite were also higher than those without clay particles, while the breakthrough curves of nTiO2 with kaolinite were lower than those without clay particles. Clearly, in CaCl2 solutions, the presence of bentonite in suspensions increased nTiO2 transport, whereas, kaolinite decreased nTiO2 transport in quartz sand. The attachment of nTiO2 onto clay particles (both bentonite and kaolinite) were observed under all experimental conditions. The increased transport of nTiO2 in most experimental conditions (except for kaolinite in CaCl2 solutions) was attributed mainly to the clay-facilitated nTiO2 transport. The straining of larger nTiO2-kaolinite clusters yet contributed to the decreased transport (enhanced retention) of nTiO2 in divalent CaCl2 solutions when kaolinite particles were copresent in suspensions. PMID:24911544

  2. Test particle study of ion transport in drift type turbulence

    SciTech Connect

    Vlad, M.; Spineanu, F.

    2013-12-15

    Ion transport regimes in drift type turbulence are determined in the frame of a realistic model for the turbulence spectrum based on numerical simulations. The model includes the drift of the potential with the effective diamagnetic velocity, turbulence anisotropy, and dominant waves. The effects of the zonal flow modes are also analyzed. A semi-analytical method that is able to describe trajectory stochastic trapping or eddying is used for obtaining the transport coefficients as function of the parameters of the turbulence. Analytical approximations of the transport coefficients are derived from the results. They show the transition from Bohm to gyro-Bohm scaling as plasma size increases in very good agreement with the numerical simulations.

  3. Particle acceleration and transport in the solar atmosphere

    NASA Astrophysics Data System (ADS)

    Kontar, Eduard

    2016-07-01

    During periods of sporadic flare activity, the Sun releases energy stored in the magnetic field into the plasma of the solar atmosphere. This is an extremely efficient process, with a large fraction of the magnetic energy going into plasma particles. The solar flares are accompanied by prompt electromagnetic emission virtually over the entire electromagnetic spectrum from gamma-rays down to radio frequencies. The Sun, through its activity, also plays a driving role in the Sun-Earth system that substantially influences geophysical space. Solar flare energetic particles from the Sun are detected in interplanetary space by in-situ measurements making them a vital component of the single Sun-Earth system. Although a qualitative picture is generally agreed upon, many processes solar flare processes are poorly understood. Specifically, the processes of acceleration and propagation of energetic particles interacting on various physical scales remain major challenges in solar physics and basic plasma physics. In the talk, I will review the current understanding of solar flare energetic particles focusing on recent observational progress, which became possible due to the numerous spacecraft and ground-based observations.

  4. Gyrokinetic Particle Simulation of Turbulent Transport in Burning Plasmas

    SciTech Connect

    Ma, Kwan-Liu

    2011-12-21

    In this project, we have developed techniques for visualizing large-scale time-varying multivariate particle and field data produced by the GPS_TTBP team. Our basic approach to particle data visualization is to provide the user with an intuitive interactive interface for exploring the data. We have designed a multivariate filtering interface for scientists to effortlessly isolate those particles of interest for revealing structures in densely packed particles as well as the temporal behaviors of selected particles. With such a visualization system, scientists on the GPS-TTBP project can validate known relationships and temporal trends, and possibly gain new insights in their simulations. We have tested the system using over several millions of particles on a single PC. We will also need to address the scalability of the system to handle billions of particles using a cluster of PCs. To visualize the field data, we choose to use direct volume rendering. Because the data provided by PPPL is on a curvilinear mesh, several processing steps have to be taken. The mesh is curvilinear in nature, following the shape of a deformed torus. Additionally, in order to properly interpolate between the given slices we cannot use simple linear interpolation in Cartesian space but instead have to interpolate along the magnetic field lines given to us by the scientists. With these limitations, building a system that can provide an accurate visualization of the dataset is quite a challenge to overcome. In the end we use a combination of deformation methods such as deformation textures in order to fit a normal torus into their deformed torus, allowing us to store the data in toroidal coordinates in order to take advantage of modern GPUs to perform the interpolation along the field lines for us. The resulting new rendering capability produces visualizations at a quality and detail level previously not available to the scientists at the PPPL. In summary, in this project we have

  5. The absorption of trapped particles by the inner satellites of Jupiter and the radial diffusion coefficient of particle transport

    NASA Technical Reports Server (NTRS)

    Mogro-Campero, A.; Fillius, W.

    1976-01-01

    The process of trapped particle absorption by the inner Jovian satellites is considered in detail taking into account both the particle and satellite motions in a magnetic dipole field which is displaced from the center of the planet and tilted with respect to the planetary rotation axis. An expression is derived for computing the sweeping time at a given satellite, defined as the time required for the satellite to sweep up a given fraction of the trapped particles within its sweeping region. By making use of the sweeping time and the radial diffusion equation of particle transport approximate expressions for the diffusion coefficient are derived. Measurements obtained by Pioneer 10 are then used to obtain estimates of the diffusion coefficient at the orbits of Io and Europa. We find that the diffusion coefficient is a function of energy and magnetic latitude for electrons in the energy range 0.7-14 MeV.

  6. Mechanism for Particle Transport and Size Sorting via Low-Frequency Vibrations

    NASA Technical Reports Server (NTRS)

    Sherrit, Stewart; Scott, James S.; Bar-Cohen, Yoseph; Badescu, Mircea; Bao, Xiaoqi

    2010-01-01

    There is a need for effective sample handling tools to deliver and sort particles for analytical instruments that are planned for use in future NASA missions. Specifically, a need exists for a compact mechanism that allows transporting and sieving particle sizes of powdered cuttings and soil grains that may be acquired by sampling tools such as a robotic scoop or drill. The required tool needs to be low mass and compact to operate from such platforms as a lander or rover. This technology also would be applicable to sample handling when transporting samples to analyzers and sorting particles by size.

  7. Vertical Transport of Aerosol Particles across Mountain Topography near the Los Angeles Basin

    NASA Astrophysics Data System (ADS)

    Murray, J. J.; Schill, S.; Freeman, S.; Bertram, T. H.; Lefer, B. L.

    2015-12-01

    Transport of aerosol particles is known to affect air quality and is largely dependent on the characteristic topography of the surrounding region. To characterize this transport, aerosol number distributions were collected with an Ultra-High Sensitivity Aerosol Spectrometer (UHSAS, DMT) during the 2015 NASA Student Airborne Research Program (SARP) in and around the Los Angeles Basin in Southern California. Increases in particle number concentration and size were observed over mountainous terrain north of Los Angeles County. Chemical analysis and meteorological lagrangian trajectories suggest orographic lifting processes, known as the "chimney effect". Implications for spatial transport and distribution will be discussed.

  8. Diffusion in pulsar wind nebulae: an investigation using magnetohydrodynamic and particle transport models

    NASA Astrophysics Data System (ADS)

    Porth, O.; Vorster, M. J.; Lyutikov, M.; Engelbrecht, N. E.

    2016-08-01

    We study the transport of high-energy particles in pulsar wind nebulae (PWN) using three-dimensional magnetohydrodynamic (MHD) and test-particle simulations, as well as a Fokker-Planck particle transport model. The latter includes radiative and adiabatic losses, diffusion, and advection on the background flow of the simulated MHD nebula. By combining the models, the spatial evolution of flux and photon index of the X-ray synchrotron emission is modelled for the three nebulae G21.5-0.9, the inner regions of Vela, and 3C 58, thereby allowing us to derive governing parameters: the magnetic field strength, average flow velocity, and spatial diffusion coefficient. For comparison, the nebulae are also modelled with the semi-analytic Kennel & Coroniti model but the Porth et al. model generally yields better fits to the observational data. We find that high velocity fluctuations in the turbulent nebula (downstream of the termination shock) give rise to efficient diffusive transport of particles, with average Péclet number close to unity, indicating that both advection and diffusion play an important role in particle transport. We find that the diffusive transport coefficient of the order of ˜ 2 × 1027(Ls/0.42 Ly) cm2 s- 1 (Ls is the size of the termination shock) is independent of energy up to extreme particle Lorentz factors of γp ˜ 1010.

  9. The fluctuation energy balance in non-suspended fluid-mediated particle transport

    SciTech Connect

    Pähtz, Thomas; Durán, Orencio; Ho, Tuan-Duc; Valance, Alexandre; Kok, Jasper F.

    2015-01-15

    Here, we compare two extreme regimes of non-suspended fluid-mediated particle transport, transport in light and heavy fluids (“saltation” and “bedload,” respectively), regarding their particle fluctuation energy balance. From direct numerical simulations, we surprisingly find that the ratio between collisional and fluid drag dissipation of fluctuation energy is significantly larger in saltation than in bedload, even though the contribution of interparticle collisions to transport of momentum and energy is much smaller in saltation due to the low concentration of particles in the transport layer. We conclude that the much higher frequency of high-energy particle-bed impacts (“splash”) in saltation is the cause for this counter-intuitive behavior. Moreover, from a comparison of these simulations to particle tracking velocimetry measurements which we performed in a wind tunnel under steady transport of fine and coarse sand, we find that turbulent fluctuations of the flow produce particle fluctuation energy at an unexpectedly high rate in saltation even under conditions for which the effects of turbulence are usually believed to be small.

  10. PTV measurements of Lagrangian particle transport by surface gravity wave groups

    NASA Astrophysics Data System (ADS)

    van den Bremer, Ton; Whittaker, Colin; Raby, Alison; Taylor, Paul

    2015-11-01

    We present detailed PTV (particle tracking velocimetry) measurements of the Lagrangian transport and trajectories of neutrally buoyant particles underneath two-dimensional surface gravity wave groups in a laboratory flume. By focussing our attention on wave groups of moderate steepness, we confirm the predictions of standard second-order multi-chromatic wave theory, in which the body of fluid satisfies the potential flow equations. Particles near the surface are transported forwards and their motion is dominated by Stokes drift. Particles at sufficient depth are transported backwards by the Eulerian return current that was first described by Longuet-Higgins & Stewart (1962) and forms an inseparable counterpart of Stokes drift for surface wave groups ensuring the (irrotational) mass balance holds. Finally, we provide experimental validation of a simple scaling relationship, derived based under the assumption of separation of scales, for the transition depth: the depth above which Lagrangian particles are transported forwards by the Stokes drift and below which such particles are transported backwards by the return current. We present results for a range of effective water depths.

  11. Focused transport of energetic particles along magnetic field lines draped around a coronal mass ejection

    NASA Technical Reports Server (NTRS)

    Tan, L. C.; Mason, G. M.; Lee, M. A.; Klecker, B.; Ipavich, F. M.

    1992-01-01

    Evidence is presented for focused transport of energetic particles along magnetic field lines draped around a coronal mass ejection. This evidence was obtained with the University of Maryland/Max-Planck-Institute experiment on the ISEE-3 spacecraft during the decay phase of the June 6, 1979, solar particle event. During the early portion of the decay phase of this event, interplanetary magnetic field lines were apparently draped around a coronal mass ejection, leading to a small focusing length on the western flank where ISEE 3 was located. A period of very slow decrease of particle intensity was observed, along with large sunward anisotropy in the solar wind frame, which is inconsistent with predictions of the standard Fokker-Planck equation models for diffusive transport. It was found possible to fit the observations, assuming that focused transport dominates and that the particle pitch angle scattering is isotropic.

  12. Transport of spherical colloids in layered phases of binary mixtures with rod-like particles.

    PubMed

    Piedrahita, Mauricio; Cuetos, Alejandro; Martínez-Haya, Bruno

    2015-05-01

    The transport properties of colloids in anisotropic media constitute a general problem of fundamental interest in experimental sciences, with a broad range of technological applications. This work investigates the transport of soft spherical colloids in binary mixtures with rod-like particles by means of Monte Carlo and Brownian Dynamics simulations. Layered phases are considered, that range from smectic phases to lamellar phases, depending on the molar fraction of the spherical particles. The investigation serves to characterize the distinct features of transport within layers versus those of transport across neighboring layers, both of which are neatly differentiated. The insertion of particles into layers and the diffusion across them occur at a smaller rate than the intralayer diffusion modulated by the formation of transitory cages in its initial stages. Collective events, in which two or more colloids diffuse across layers in a concerted way, are described as a non-negligible process in these fluids.

  13. Analysis of Particle Transport Using a Particulate Tracer Modeling

    NASA Astrophysics Data System (ADS)

    Wang, P.; Linker, L. C.; Lung, W.; Batiuk, R. A.

    2002-05-01

    Understanding the transport of dissolved and particulate materials in the Chesapeake Bay estuary is critical to allocating nutrient and sediment load reduction goals to the seven watershed states. A computer simulation of a particulate conservative tracer was conducted to help determine the transport mechanism. Tracers were loaded daily at the fall-line of Potomac River (a middle Bay's tributary). The settling rate is set at 0.1 m/day, with the assumption of neither scour nor re-suspension of tracer from the bed to allow continuous accumulation of tracers on bed. The low settling rate was used to allow tracer to transport widely in the estuary to provide information on the transport of fine particulates such as dead algae. After the tracers reach the mouth of Potomac River, most of them are further transported into the lower main-stem Bay. Flood tide is the main force for tracers transported north to the upper main-stem Bay and to the upstream of non-source rivers. In the main stem of the Bay, there exist concentration gradients from the Potomac River mouth to the opposite shore (the Maryland and Virginia eastern shore), to the lower Bay, and to the upper Bay. Concentration gradients also exist from the fall-line to the mouth in the source river, and from the mouth to the upstream in non-source rivers. These gradients are usually disturbed across trenches, due to a so-called "trench effect". A trench either deposits more or less tracers than its shallower sides, depending on the trench to be hydrologically landward from the source (i.e., the Potomac fall line) or the sub-source (e.g., the Rappahannock River mouth for the trench in the upstream of Rappahannock River), or hydrologically seaward from the source or the sub-source. Depending on the layer (saline water-rich or fresh water-rich) in which tracers reside and the direction (landward or seaward) along which tracers transport, the transport/deposit of tracer may be favored along trench over its shallower sides

  14. Particle transport and heat loads in NIO1.

    PubMed

    Fonnesu, N; Cavenago, M; Serianni, G; Veltri, P

    2016-02-01

    NIO1 is a compact radio frequency ion source designed to generate a 60 kV-135 mA hydrogen negative ion beam and it aims at continuous operation, which implies a detailed thermo-mechanical analysis of the beam-facing components, in particular, the accelerator grids. A 3D analysis of the entire NIO1 beam has been performed for the first time with a fully 3D version of EAMCC, a relativistic particle tracking code for the calculation of the grid power deposition induced by particle impacts. According to the results presented in this paper, secondary and co-extracted electrons cause a non-negligible heat load on the grids, where different high-power density regions, within reasonable sustainable standard limits, are calculated.

  15. Particle transport and heat loads in NIO1.

    PubMed

    Fonnesu, N; Cavenago, M; Serianni, G; Veltri, P

    2016-02-01

    NIO1 is a compact radio frequency ion source designed to generate a 60 kV-135 mA hydrogen negative ion beam and it aims at continuous operation, which implies a detailed thermo-mechanical analysis of the beam-facing components, in particular, the accelerator grids. A 3D analysis of the entire NIO1 beam has been performed for the first time with a fully 3D version of EAMCC, a relativistic particle tracking code for the calculation of the grid power deposition induced by particle impacts. According to the results presented in this paper, secondary and co-extracted electrons cause a non-negligible heat load on the grids, where different high-power density regions, within reasonable sustainable standard limits, are calculated. PMID:26932077

  16. Low Mach Code with Particle Transport Version 1.0

    2010-08-09

    Computational technique is based on the firect numerical simulation of the particulate flows using distributed Lagrange multiplier technique (Kanarska et al. 2010 submitted to Computers and Fluids journal). Each particle is explicitly resolved on the Eulerian grid as a separate domain, using solid volume of fractions. The fluid equations are solved through the entire computational domain, and, Lagrange multiplier constrains are applied inside the solid domain to satisfy rigidity contrains.

  17. Nonlinear mechanisms for drift wave saturation and induced particle transport

    SciTech Connect

    Dimits, A.M. . Lab. for Plasma Research); Lee, W.W. . Plasma Physics Lab.)

    1989-12-01

    A detailed theoretical study of the nonlinear dynamics of gyrokinetic particle simulations of electrostatic collisionless and weakly collisional drift waves is presented. In previous studies it was shown that, in the nonlinearly saturated phase of the evolution, the saturation levels and especially the particle fluxes have an unexpected dependence on collisionality. In this paper, the explanations for these collisionality dependences are found to be as follows: The saturation level is determined by a balance between the electron and ion fluxes. The ion flux is small for levels of the potential below an E {times} B-trapping threshold and increases sharply once this threshold is crossed. Due to the presence of resonant electrons, the electron flux has a much smoother dependence on the potential. In the 2-1/2-dimensional ( pseudo-3D'') geometry, the electrons are accelerated away from the resonance as they diffuse spatially, resulting in an inhibition of their diffusion. Collisions and three-dimensional effects can repopulate the resonance thereby increasing the value of the particle flux. 30 refs., 32 figs., 2 tabs.

  18. Transport and fate of microplastic particles in wastewater treatment plants.

    PubMed

    Carr, Steve A; Liu, Jin; Tesoro, Arnold G

    2016-03-15

    Municipal wastewater treatment plants (WWTPs) are frequently suspected as significant point sources or conduits of microplastics to the environment. To directly investigate these suspicions, effluent discharges from seven tertiary plants and one secondary plant in Southern California were studied. The study also looked at influent loads, particle size/type, conveyance, and removal at these wastewater treatment facilities. Over 0.189 million liters of effluent at each of the seven tertiary plants were filtered using an assembled stack of sieves with mesh sizes between 400 and 45 μm. Additionally, the surface of 28.4 million liters of final effluent at three tertiary plants was skimmed using a 125 μm filtering assembly. The results suggest that tertiary effluent is not a significant source of microplastics and that these plastic pollutants are effectively removed during the skimming and settling treatment processes. However, at a downstream secondary plant, an average of one micro-particle in every 1.14 thousand liters of final effluent was counted. The majority of microplastics identified in this study had a profile (color, shape, and size) similar to the blue polyethylene particles present in toothpaste formulations. Existing treatment processes were determined to be very effective for removal of microplastic contaminants entering typical municipal WWTPs.

  19. Coupled Particle Transport and Pattern Formation in a Nonlinear Leaky-Box Model

    NASA Technical Reports Server (NTRS)

    Barghouty, A. F.; El-Nemr, K. W.; Baird, J. K.

    2009-01-01

    Effects of particle-particle coupling on particle characteristics in nonlinear leaky-box type descriptions of the acceleration and transport of energetic particles in space plasmas are examined in the framework of a simple two-particle model based on the Fokker-Planck equation in momentum space. In this model, the two particles are assumed coupled via a common nonlinear source term. In analogy with a prototypical mathematical system of diffusion-driven instability, this work demonstrates that steady-state patterns with strong dependence on the magnetic turbulence but a rather weak one on the coupled particles attributes can emerge in solutions of a nonlinearly coupled leaky-box model. The insight gained from this simple model may be of wider use and significance to nonlinearly coupled leaky-box type descriptions in general.

  20. Random walk particle tracking simulations of non-Fickian transport in heterogeneous media

    SciTech Connect

    Srinivasan, G. Tartakovsky, D.M. Dentz, M. Viswanathan, H.; Berkowitz, B.; Robinson, B.A.

    2010-06-01

    Derivations of continuum nonlocal models of non-Fickian (anomalous) transport require assumptions that might limit their applicability. We present a particle-based algorithm, which obviates the need for many of these assumptions by allowing stochastic processes that represent spatial and temporal random increments to be correlated in space and time, be stationary or non-stationary, and to have arbitrary distributions. The approach treats a particle trajectory as a subordinated stochastic process that is described by a set of Langevin equations, which represent a continuous time random walk (CTRW). Convolution-based particle tracking (CBPT) is used to increase the computational efficiency and accuracy of these particle-based simulations. The combined CTRW-CBPT approach enables one to convert any particle tracking legacy code into a simulator capable of handling non-Fickian transport.

  1. Transport equations for subdiffusion with nonlinear particle interaction.

    PubMed

    Straka, P; Fedotov, S

    2015-02-01

    We show how the nonlinear interaction effects 'volume filling' and 'adhesion' can be incorporated into the fractional subdiffusive transport of cells and individual organisms. To this end, we use microscopic random walk models with anomalous trapping and systematically derive generic non-Markovian and nonlinear governing equations for the mean concentrations of the subdiffusive cells or organisms. We uncover an interesting interaction between the nonlinearities and the non-Markovian nature of the transport. In the subdiffusive case, this interaction manifests itself in a nontrivial combination of nonlinear terms with fractional derivatives. In the long time limit, however, these equations simplify to a form without fractional operators. This provides an easy method for the study of aggregation phenomena. In particular, this enables us to show that volume filling can prevent "anomalous aggregation," which occurs in subdiffusive systems with a spatially varying anomalous exponent.

  2. Surface transport and stable trapping of particles and cells by an optical waveguide loop.

    PubMed

    Hellesø, Olav Gaute; Løvhaugen, Pål; Subramanian, Ananth Z; Wilkinson, James S; Ahluwalia, Balpreet Singh

    2012-09-21

    Waveguide trapping has emerged as a useful technique for parallel and planar transport of particles and biological cells and can be integrated with lab-on-a-chip applications. However, particles trapped on waveguides are continuously propelled forward along the surface of the waveguide. This limits the practical usability of the waveguide trapping technique with other functions (e.g. analysis, imaging) that require particles to be stationary during diagnosis. In this paper, an optical waveguide loop with an intentional gap at the centre is proposed to hold propelled particles and cells. The waveguide acts as a conveyor belt to transport and deliver the particles/cells towards the gap. At the gap, the diverging light fields hold the particles at a fixed position. The proposed waveguide design is numerically studied and experimentally implemented. The optical forces on the particle at the gap are calculated using the finite element method. Experimentally, the method is used to transport and trap micro-particles and red blood cells at the gap with varying separations. The waveguides are only 180 nm thick and thus could be integrated with other functions on the chip, e.g. microfluidics or optical detection, to make an on-chip system for single cell analysis and to study the interaction between cells. PMID:22814473

  3. Surface transport and stable trapping of particles and cells by an optical waveguide loop.

    PubMed

    Hellesø, Olav Gaute; Løvhaugen, Pål; Subramanian, Ananth Z; Wilkinson, James S; Ahluwalia, Balpreet Singh

    2012-09-21

    Waveguide trapping has emerged as a useful technique for parallel and planar transport of particles and biological cells and can be integrated with lab-on-a-chip applications. However, particles trapped on waveguides are continuously propelled forward along the surface of the waveguide. This limits the practical usability of the waveguide trapping technique with other functions (e.g. analysis, imaging) that require particles to be stationary during diagnosis. In this paper, an optical waveguide loop with an intentional gap at the centre is proposed to hold propelled particles and cells. The waveguide acts as a conveyor belt to transport and deliver the particles/cells towards the gap. At the gap, the diverging light fields hold the particles at a fixed position. The proposed waveguide design is numerically studied and experimentally implemented. The optical forces on the particle at the gap are calculated using the finite element method. Experimentally, the method is used to transport and trap micro-particles and red blood cells at the gap with varying separations. The waveguides are only 180 nm thick and thus could be integrated with other functions on the chip, e.g. microfluidics or optical detection, to make an on-chip system for single cell analysis and to study the interaction between cells.

  4. MCNPX Monte Carlo simulations of particle transport in SiC semiconductor detectors of fast neutrons

    NASA Astrophysics Data System (ADS)

    Sedlačková, K.; Zat'ko, B.; Šagátová, A.; Pavlovič, M.; Nečas, V.; Stacho, M.

    2014-05-01

    The aim of this paper was to investigate particle transport properties of a fast neutron detector based on silicon carbide. MCNPX (Monte Carlo N-Particle eXtended) code was used in our study because it allows seamless particle transport, thus not only interacting neutrons can be inspected but also secondary particles can be banked for subsequent transport. Modelling of the fast-neutron response of a SiC detector was carried out for fast neutrons produced by 239Pu-Be source with the mean energy of about 4.3 MeV. Using the MCNPX code, the following quantities have been calculated: secondary particle flux densities, reaction rates of elastic/inelastic scattering and other nuclear reactions, distribution of residual ions, deposited energy and energy distribution of pulses. The values of reaction rates calculated for different types of reactions and resulting energy deposition values showed that the incident neutrons transfer part of the carried energy predominantly via elastic scattering on silicon and carbon atoms. Other fast-neutron induced reactions include inelastic scattering and nuclear reactions followed by production of α-particles and protons. Silicon and carbon recoil atoms, α-particles and protons are charged particles which contribute to the detector response. It was demonstrated that although the bare SiC material can register fast neutrons directly, its detection efficiency can be enlarged if it is covered by an appropriate conversion layer. Comparison of the simulation results with experimental data was successfully accomplished.

  5. Large Eddy Simulation of Transient Flow, Solidification, and Particle Transport Processes in Continuous-Casting Mold

    NASA Astrophysics Data System (ADS)

    Liu, Zhongqiu; Li, Linmin; Li, Baokuan; Jiang, Maofa

    2014-07-01

    The current study developed a coupled computational model to simulate the transient fluid flow, solidification, and particle transport processes in a slab continuous-casting mold. Transient flow of molten steel in the mold is calculated using the large eddy simulation. An enthalpy-porosity approach is used for the analysis of solidification processes. The transport of bubble and non-metallic inclusion inside the liquid pool is calculated using the Lagrangian approach based on the transient flow field. A criterion of particle entrapment in the solidified shell is developed using the user-defined functions of FLUENT software (ANSYS, Inc., Canonsburg, PA). The predicted results of this model are compared with the measurements of the ultrasonic testing of the rolled steel plates and the water model experiments. The transient asymmetrical flow pattern inside the liquid pool exhibits quite satisfactory agreement with the corresponding measurements. The predicted complex instantaneous velocity field is composed of various small recirculation zones and multiple vortices. The transport of particles inside the liquid pool and the entrapment of particles in the solidified shell are not symmetric. The Magnus force can reduce the entrapment ratio of particles in the solidified shell, especially for smaller particles, but the effect is not obvious. The Marangoni force can play an important role in controlling the motion of particles, which increases the entrapment ratio of particles in the solidified shell obviously.

  6. GYROKINETIC PARTICLE SIMULATION OF TURBULENT TRANSPORT IN BURNING PLASMAS

    SciTech Connect

    Horton, Claude Wendell

    2014-06-10

    The SciDAC project at the IFS advanced the state of high performance computing for turbulent structures and turbulent transport. The team project with Prof Zhihong Lin [PI] at Univ California Irvine produced new understanding of the turbulent electron transport. The simulations were performed at the Texas Advanced Computer Center TACC and the NERSC facility by Wendell Horton, Lee Leonard and the IFS Graduate Students working in that group. The research included a Validation of the electron turbulent transport code using the data from a steady state university experiment at the University of Columbia in which detailed probe measurements of the turbulence in steady state were used for wide range of temperature gradients to compare with the simulation data. These results were published in a joint paper with Texas graduate student Dr. Xiangrong Fu using the work in his PhD dissertation. X.R. Fu, W. Horton, Y. Xiao, Z. Lin, A.K. Sen and V. Sokolov, “Validation of electron Temperature gradient turbulence in the Columbia Linear Machine, Phys. Plasmas 19, 032303 (2012).

  7. Molecular approach to intracellular cargo transport

    NASA Astrophysics Data System (ADS)

    Yildiz, Ahmet

    2010-03-01

    Landmark discoveries in the study of cytoplasmic motors have been made through advances in single molecule biophysics and detailed mechanistic models exist for kinesin and dynein. However, the function of motors in physiological conditions has not been carefully tested. In cells, more than few dyneins can attach to the same cargo and interact with the opposite polarity motors of kinesin. To study the molecular crosstalk between the motors, we have used intraflagellar transport (IFT) in Chlamydomonas reinhardtii as a model system. Ultrahigh spatio-temporal tracking of single cargo movement showed that IFT particles move for long distances unidirectionally with 8 nm increments, agreeing with measured step sizes of kinesin and dynein. To measure how many motors transport each cargo, we have linked large polystyrene beads to internal IFT particles through a transmembrane protein. Force measurements indicated that, on average, 3-4 motors transport cargoes in each direction. The results showed that IFT motors are tightly coordinated and might be involved in recycling each other to the appropriate end of the flagellum.

  8. Atmospheric fate and transport of fine volcanic ash: Does particle shape matter?

    NASA Astrophysics Data System (ADS)

    White, C. M.; Allard, M. P.; Klewicki, J.; Proussevitch, A. A.; Mulukutla, G.; Genareau, K.; Sahagian, D. L.

    2013-12-01

    Volcanic ash presents hazards to infrastructure, agriculture, and human and animal health. In particular, given the economic importance of intercontinental aviation, understanding how long ash is suspended in the atmosphere, and how far it is transported has taken on greater importance. Airborne ash abrades the exteriors of aircraft, enters modern jet engines and melts while coating interior engine parts causing damage and potential failure. The time fine ash stays in the atmosphere depends on its terminal velocity. Existing models of ash terminal velocities are based on smooth, quasi-spherical particles characterized by Stokes velocity. Ash particles, however, violate the various assumptions upon which Stokes flow and associated models are based. Ash particles are non-spherical and can have complex surface and internal structure. This suggests that particle shape may be one reason that models fail to accurately predict removal rates of fine particles from volcanic ash clouds. The present research seeks to better parameterize predictive models for ash particle terminal velocities, diffusivity, and dispersion in the atmospheric boundary layer. The fundamental hypothesis being tested is that particle shape irreducibly impacts the fate and transport properties of fine volcanic ash. Pilot studies, incorporating modeling and experiments, are being conducted to test this hypothesis. Specifically, a statistical model has been developed that can account for actual volcanic ash size distributions, complex ash particle geometry, and geometry variability. Experimental results are used to systematically validate and improve the model. The experiments are being conducted at the Flow Physics Facility (FPF) at UNH. Terminal velocities and dispersion properties of fine ash are characterized using still air drop experiments in an unconstrained open space using a homogenized mix of source particles. Dispersion and sedimentation dynamics are quantified using particle image

  9. Development of a particle injection system for impurity transport study in KSTAR

    SciTech Connect

    Lee, H. Y.; Hong, Joohwan; Lee, Seung Hun; Jang, Siwon; Jang, Juhyeok; Jeon, Taemin; Park, Jae Sun; Choe, Wonho; Hong, Suk-Ho

    2014-11-15

    A solid particle injection system is developed for KSTAR. The system has a compact size, compatibility with a strong magnetic field and high vacuum environment, and the capability to inject a small amount of solid particles with a narrow injection angle. The target flight-distance of 10 cm has been achieved with a particle loss rate of less than 10%. Solid impurity particles such as tungsten and carbon will be injected by this system at the midplane in KSTAR. The impurity transport feature will be studied with a soft X-ray array, a vacuum ultra-violet diagnostic, and Stand Alone Non-Corona code.

  10. Wave induced transport and mixing of buoyant particles

    NASA Astrophysics Data System (ADS)

    Drivdal, Magnus; Broström, Göran; Christensen, Kai H.

    2014-05-01

    The modeling of wave-current and wave-turbulence interactions have received much attention during recent years. Both the breaking of surface waves and the inclusion of the Stokes shear production have been shown to increase the upper ocean turbulence. Furthermore the Coriolis force acting on the Stokes drift redistributes the momentum in the upper ocean, leading to a deflection of the currents. An important application affected by these processes that still needs to be studied is the mixing and drift of particles. Using an ocean column model, modified to take surface wave effects into account, we investigate how the increased mixing by wave breaking and Stokes shear production as well as the stronger veering by the Coriolis-Stokes force effects the drift of suspended particles. Here the suspended particles are buoyant tracers that can represent oil droplets or plankton, for example fish eggs and larvae. The energy and momentum fluxes as well as the Stokes drift depend on the directional wave spectrum that can be obtained from a wave model or from observations. Comparing with classical Ekman theory some physical effects on the system are studied, and as a realistic test case we use the model to study the oil drift after an offshore oil spill that took place outside the western coast of Norway in 2007. During this accident the average net drift of oil was observed to be approximately 0.1% of the wind speed at an angle of about 90-120 degrees to the right, far slower and more deflected away from the wind direction than predicted by both numerical and empirical models. With wind and wave forcing from ECMWF reanalysis data, it is shown that the wave effects are important for the resultant drift in this case, and has the potential to improve drift forecasting.

  11. Fermion particle production in semiclassical Boltzmann-Vlasov transport theory

    SciTech Connect

    Dawson, John F.; Mihaila, Bogdan; Cooper, Fred

    2009-07-01

    We present numerical solutions of the semiclassical Boltzmann-Vlasov equation for fermion particle-antiparticle production by strong electric fields in boost-invariant coordinates in (1+1) and (3+1) dimensional QED. We compare the Boltzmann-Vlasov results with those of recent quantum field theory calculations and find good agreement. We conclude that extending the Boltzmann-Vlasov approach to the case of QCD should allow us to do a thorough investigation of how backreaction affects recent results on the dependence of the transverse momentum distribution of quarks and antiquarks on a second Casimir invariant of color SU(3)

  12. Radiative Transport for a Smoothed Particle Hydrodynamic Code

    NASA Astrophysics Data System (ADS)

    Lang, Bernd; Kessel-Deynet, Olaf; Burkert, Andreas

    One crude approximation to describe the effect of Radiative Transport in SPH simulations is to introduce a density dependent polytropic index in the equation of state (Matthew R. Bate 1998), which is larger than one if the medium becomes optically thick. By doing this one fixes the system to a special density-temperature dependence. But in principle the system should have the possibility to realize a variety of different density-temperature dependencies if radiative transport is involved and arbitrary heating and cooling functions can be used. We combine the advantages of the SPH Code with an algorithm describing a flux limited diffusive radiative transport to develop a RHD-Code. Flux limited diffusion involves the Rosseland-means of the absorption and scattering coefficients. To calculate this coefficients we use the model from Preibisch et al. 1993. This will restrict our simulations to low temperatures (T <= 1000 K) and high densities (ρ >= 103 cm-3) but on the other hand keeps the code as simple and as fast as possible. For a given energy-density distribution, the radiation field evolves towards the equilibrium solution on a time-scale much smaller than the typical dynamical time-step for the hydrodynamic equations. So the RT equations have to be solved implicit. To do this we use the nice convergence features of the Successive Over-Relaxing (SOR) method. The focus of the simulations than will be on the prestellar phase where molecular cloud cores become optically thick. The central temperature is still low (T = 10 dots 500 K) and thus the ionization and dissociation degree is low and nearly constant.

  13. Gyrokinetic Particle Simulation of Turbulent Transport in Burning Plasmas

    SciTech Connect

    Diamond, P.H.; Lin, Z.; Wang, W.; Horton, W.; Klasky, S.; Decyk, V.; Ma, K.-L.; Chames, J.; Adams, M.

    2011-09-21

    The three-year project GPS-TTBP resulted in over 152 publications and 135 presentations. This summary focuses on the scientific progress made by the project team. A major focus of the project was on the physics intrinsic rotation in tokamaks. Progress included the first ever flux driven study of net intrinsic spin-up, mediated by boundary effects (in collaboration with CPES), detailed studies of the microphysics origins of the Rice scaling, comparative studies of symmetry breaking mechanisms, a pioneering study of intrinsic torque driven by trapped electron modes, and studies of intrinsic rotation generation as a thermodynamic engine. Validation studies were performed with C-Mod, DIII-D and CSDX. This work resulted in very successful completion of the FY2010 Theory Milestone Activity for OFES, and several prominent papers of the 2008 and 2010 IAEA Conferences. A second major focus was on the relation between zonal flow formation and transport non-locality. This culminated in the discovery of the ExB staircase - a conceptually new phenomenon. This also makes useful interdisciplinary contact with the physics of the PV staircase, well-known in oceans and atmospheres. A third topic where progress was made was in the simulation and theory of turbulence spreading. This work, now well cited, is important for understanding the dynamics of non-locality in turbulent transport. Progress was made in studies of conjectured non-diffusive transport in trapped electron turbulence. Pioneering studies of ITB formation, coupling to intrinsic rotation and hysteresis were completed. These results may be especially significant for future ITER operation. All told, the physics per dollar performance of this project was quite good. The intense focus was beneficial and SciDAC resources were essential to its success.

  14. Modeling nitrogen transport and transformation in aquifers using a particle-tracking approach

    NASA Astrophysics Data System (ADS)

    Cui, Zhengtao; Welty, Claire; Maxwell, Reed M.

    2014-09-01

    We have integrated multispecies biodegradation and geochemical reactions into an existing particle-tracking code to simulate reactive transport in three-dimensional variably saturated media, with a focus on nitrification and denitrification processes. This new numerical model includes reactive air-phase transport so that gases such as N2 and CO2 can be tracked. Although nitrogen biodegradation is the primary problem addressed here, the method presented is also applicable to other reactive multispecies transport problems. We verified the model by comparison with (1) analytical solutions for saturated one- and two-dimensional cases; (2) a finite element model for a one-dimensional unsaturated case; and (3) laboratory observations for a one-dimensional saturated case. Good agreement between the new code and the verification problems is demonstrated. The new model can simulate nitrogen transport and transformation in a heterogeneous permeability field where sharp concentration gradients are present. An example application to nitrogen species biodegradation and transport of a plume emanating from a leaking sewer in a heterogeneous, variably saturated aquifer is presented to illustrate this capability. This example is a novel application of coupling unsaturated/saturated zone transport with nitrogen species biodegradation. The code has the computational advantages of particle-tracking algorithms, including local and global mass conservation and minimal numerical dispersion. We also present new methods for improving particle code efficiency by implementing the concept of tracking surplus/deficit particles and particle recycling in order to control the growth of particle numbers. The new model retains the advantages of the particle tracking approach such as allowing relatively low spatial and temporal resolutions to be used, while incorporating the robustness of grid-based Monod kinetics to simulate biogeochemical reactions.

  15. A Pipeline Transport Correlation for Slurries with Small but Dense Particles

    SciTech Connect

    Poloski, Adam P; Etchells, Arthur W; Chun, Jaehun; Adkins, Harold E; Casella, Andrew M; Minette, Michael J; Yokuda, Satoru T

    2010-04-01

    Most correlations/models for minimum transport or critical velocity of slurry were developed for slurries composed of particles greater than ~100-200 µm diameter with narrow particle-size distributions which is typical of the minerals industry. Many other process industries handle smaller particles. In particular waste slurries at the U.S. Department of Energy's Hanford Site have broad size distributions and significant fractions of smaller particles. Despite the size of these wastes, recent PNNL studies indicate that the small particles might be of sufficient density to pose a significant risk for pipeline deposition and plugging. To allow predictive assessment of deposition of fine dense particles for waste slurry transport at the U.S. DOE Hanford site, a pipeline-transport correlation for critical velocity was developed using a simple power-law between two dimensionless numbers important for slurry transport, the deposition Froude and Archimedes numbers. The correlation accords well with experimental data for slurries with Archimedes numbers <80 and is an adequate pipeline design guide for processing Hanford waste slurry.

  16. Angular momentum transport and particle acceleration during magnetorotational instability in a kinetic accretion disk.

    PubMed

    Hoshino, Masahiro

    2015-02-13

    Angular momentum transport and particle acceleration during the magnetorotational instability (MRI) in a collisionless accretion disk are investigated using three-dimensional particle-in-cell simulation. We show that the kinetic MRI can provide not only high-energy particle acceleration but also enhancement of angular momentum transport. We find that the plasma pressure anisotropy inside the channel flow with p(∥)>p(⊥) induced by active magnetic reconnection suppresses the onset of subsequent reconnection, which, in turn, leads to high-magnetic-field saturation and enhancement of the Maxwell stress tensor of angular momentum transport. Meanwhile, during the quiescent stage of reconnection, the plasma isotropization progresses in the channel flow and the anisotropic plasma with p(⊥)>p(∥) due to the dynamo action of MRI outside the channel flow contribute to rapid reconnection and strong particle acceleration. This efficient particle acceleration and enhanced angular momentum transport in a collisionless accretion disk may explain the origin of high-energy particles observed around massive black holes.

  17. The role of unsteady forces for sediment particles in bedload transport

    NASA Astrophysics Data System (ADS)

    Liu, Detian; Liu, Xiaofeng; Fu, Xudong

    2016-04-01

    In engineering, bedload transport is usually predicted by a variety of formulas, and huge uncertainty is found from case to case. One of the fundamental reasons is the lack of fully understanding the dynamic behavior of bedload particles. We explore the dynamic characteristics of sediment particles transported in turbulent open-channel flows. A numerical model of sediment transport is built by combining the large eddy simulation (LES) with discrete element model (DEM) using a fully four-way coupling method. Particular attention is paid to the hydrodynamic forces acting on bedload particles. The result shows that, in addition to drag force, the unsteady forces (i.e. Basset history force and added mass force) are important (40%~60% in the summation of all the time-averaged magnitude of forces) for fine sediment particles (with a diameter of 0.5 mm), which are usually ignored for computational complexity. While the lift force has been found to be significant for gravel particles (with a diameter of 31 mm)[1], it is not relatively dominant for such fine particles (less than 3% in the summation). This helps explaining why the prediction of the same formula change greatly from case to case. The comparison with experimental data also shows great potential of the current LES-DEM model for fundamental research in bedload transport. Reference: [1] Nino, Y., & Garcia, M. (1994). Gravel saltation 2. Modeling. Water Resources Research, 30(6), 1915-1924.

  18. Angular momentum transport and particle acceleration during magnetorotational instability in a kinetic accretion disk.

    PubMed

    Hoshino, Masahiro

    2015-02-13

    Angular momentum transport and particle acceleration during the magnetorotational instability (MRI) in a collisionless accretion disk are investigated using three-dimensional particle-in-cell simulation. We show that the kinetic MRI can provide not only high-energy particle acceleration but also enhancement of angular momentum transport. We find that the plasma pressure anisotropy inside the channel flow with p(∥)>p(⊥) induced by active magnetic reconnection suppresses the onset of subsequent reconnection, which, in turn, leads to high-magnetic-field saturation and enhancement of the Maxwell stress tensor of angular momentum transport. Meanwhile, during the quiescent stage of reconnection, the plasma isotropization progresses in the channel flow and the anisotropic plasma with p(⊥)>p(∥) due to the dynamo action of MRI outside the channel flow contribute to rapid reconnection and strong particle acceleration. This efficient particle acceleration and enhanced angular momentum transport in a collisionless accretion disk may explain the origin of high-energy particles observed around massive black holes. PMID:25723200

  19. Time-Dependent, Parallel Neutral Particle Transport Code System.

    2009-09-10

    Version 00 PARTISN (PARallel, TIme-Dependent SN) is the evolutionary successor to CCC-547/DANTSYS. The PARTISN code package is a modular computer program package designed to solve the time-independent or dependent multigroup discrete ordinates form of the Boltzmann transport equation in several different geometries. The modular construction of the package separates the input processing, the transport equation solving, and the post processing (or edit) functions into distinct code modules: the Input Module, the Solver Module, and themore » Edit Module, respectively. PARTISN is the evolutionary successor to the DANTSYSTM code system package. The Input and Edit Modules in PARTISN are very similar to those in DANTSYS. However, unlike DANTSYS, the Solver Module in PARTISN contains one, two, and three-dimensional solvers in a single module. In addition to the diamond-differencing method, the Solver Module also has Adaptive Weighted Diamond-Differencing (AWDD), Linear Discontinuous (LD), and Exponential Discontinuous (ED) spatial differencing methods. The spatial mesh may consist of either a standard orthogonal mesh or a block adaptive orthogonal mesh. The Solver Module may be run in parallel for two and three dimensional problems. One can now run 1-D problems in parallel using Energy Domain Decomposition (triggered by Block 5 input keyword npeg>0). EDD can also be used in 2-D/3-D with or without our standard Spatial Domain Decomposition. Both the static (fixed source or eigenvalue) and time-dependent forms of the transport equation are solved in forward or adjoint mode. In addition, PARTISN now has a probabilistic mode for Probability of Initiation (static) and Probability of Survival (dynamic) calculations. Vacuum, reflective, periodic, white, or inhomogeneous boundary conditions are solved. General anisotropic scattering and inhomogeneous sources are permitted. PARTISN solves the transport equation on orthogonal (single level or block-structured AMR) grids in 1-D

  20. Kinetic phenomena in charged particle transport in gases and plasmas

    SciTech Connect

    Petrovic, Zoran Lj.; Dujko, Sasa; Sasic, Olivera; Stojanovic, Vladimir; Malovic, Gordana

    2012-05-25

    The key difference between equilibrium (thermal) and non-equilibrium (low temperature - a.k.a. cold) plasmas is in the degree in which the shape of the cross sections influences the electron energy distribution function (EEDF). In this paper we will discuss the issue of kinetic phenomena from two different angles. The first will be how to take advantage of the strong influence and use low current data to obtain the cross sections. This is also known as the swarm technique and the product of a ''swarm analysis'' is a set of cross sections giving good number, momentum and energy balances of electrons or other charged particles. At the same time understanding the EEDF is based on the cross section data. Nevertheless sometimes the knowledge of the cross sections and even the behaviour of individual particles are insufficient to explain collective behaviour of the ensemble. The resulting ''kinetic'' effects may be used to favour certain properties of non-equilibrium plasmas and even may be used as the basis of some new plasma applications.

  1. Hydrodynamic controls on particle transport through heterogeneous porous media

    SciTech Connect

    Silliman, S.E.

    1992-09-30

    The initial stages of this project have been focused on equipment development and preliminary experimental efforts. Among the accomplishments to date are the development of a successful flow cell design, proof of the utility of the UV resin, adjustment of the Laser Particle Counter to produce reliable readings, installation of a low particle content water supply, installation of a microscope for viewing discharge samples, development of a fiber/rod optic system for freezing the UV resin in situ and performance of initial experiments on layered and complex heterogeneities. The work is currently following very closely the original schedule for research efforts. Continuing efforts in year one will include continued efforts in simple and complex heterogeneity in two-dimensions, extension into three-dimensions, consideration of the most appropriate methods for creating geologically realistic structures in the laboratory, interaction with other SSP research programs and organization of the spring meeting on intermediate-scale experimentation to be held at Notre Dame. Efforts in year two will be focused on three-dimensional experiments in saturated media, extension of results into unsaturated media, development of techniques for unsaturated media characterization, and development of research ties with outside research interests.

  2. Understanding Particle Defect Transport in an Ultra-Clean Sputter Coating Process

    SciTech Connect

    Walton, C; Kearney, P; Folta, J; Sweeney, D; Mirkarimi, P

    2003-03-24

    Low-defect mask blanks remain a key technical challenge to Extreme Ultraviolet Lithography (EUVL). The mask blank is ion-beam sputter-coated with an 81-layer Mo/Si multilayer stack for high reflectance at {lambda} = 13.4nm. The current mask coating process can achieve a median added defect level of 0.05 defects/cm{sup 2} (12 added defects 90nm or larger on a 200mm Si-wafer test substrate), but this must be reduced by about a factor of 10 to meet mask cost requirements for EUVL. To further reduce the particle defect level, we have studied pathways for particle transport, using test particles and particles native to the coating process, and combined the results into a computational model of particle transport in an ion-beam sputter system. At process pressure, gas drag is negligible for particles above 100nm, so particles travel ballistically until they hit a surface. Bounce from chamber walls allows particles to reach all surfaces in the chamber if they have initial velocities above {approx}100m/s. The ion beam has sufficient momentum to entrain slower particles and accelerate them toward the sputter target, where some can bounce to the substrate. The model shows preliminary agreement with experimental defect distributions on witness wafers at various positions within the coating chamber.

  3. Analysis of non-spherical particle transport in complex internal shear flows

    NASA Astrophysics Data System (ADS)

    Feng, Y.; Kleinstreuer, C.

    2013-09-01

    Focusing on ellipsoidal particles of different aspect ratios, the motion characteristics, including critical angle and stable vs. unstable rotational periods, are computationally analyzed in developing and fully developed tubular flows. As an application of particle transport and deposition, the one-way coupled Euler-Lagrange method enhanced by Euler's rotation equations is then employed to simulate laminar-turbulent flow in a subject-specific lung-airway model. First, to gain some basic insight into the dynamics of non-spherical particles, tubular flow is considered where the trajectories of ellipsoidal fibers with randomly initialized incidence angles were released at different inlet-plane positions, computed and visualized. Local and overall particle deposition results are compared between spheres, ellipsoidal fibers, and sphere-equivalent particles for which a revised Stokes diameter was developed. Concerning non-spherical particle transport and deposition in a subject-specific respiratory system, the validated computer simulation model provides realistic and accurate particle-deposition results. Specifically, slender non-spherical particles (i.e., those with higher aspect ratios) are potentially more harmful than thicker ones due to their ability to penetrate into deeper lung regions when somewhat aligned with the major flow field. Furthermore, non-spherical particle deposition is enhanced as the breathing rate increases.

  4. Ciliary intraflagellar transport protein 80 balances canonical versus non-canonical hedgehog signaling for osteoblast differentiation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Mutation of different IFT proteins cause numerous different clinical bone disorders accompanied with or without the disruption of cilia formation. Currently, there is no any effective treatment for these disorders due to lack of understanding in the function and mechanism of these proteins. IFT80 is...

  5. Probabilistic settling in the Local Exchange Model of turbulent particle transport.

    PubMed

    McNair, James N

    2006-07-21

    The Local Exchange Model (LEM) is a stochastic diffusion model of particle transport in turbulent flowing water. It was developed mainly for application to particles of near-neutral buoyancy that are strongly influenced by turbulent eddies. Turbulence can rapidly transfer such particles to the bed, where settlement can then occur by, for example, sticking to biofilms (e.g., fine particulate organic matter, or FPOM) or attaching to the substrate behaviorally (e.g., benthic invertebrates). Previous papers on the LEM have addressed the problems of how long (time) and far (distance) a suspended particle will be transported before hitting the bed for the first time. These are the hitting-time and hitting-distance problems, respectively. Hitting distances predicted by the LEM for FPOM in natural streams tend to be much shorter than the distances at which most particles actually settle, suggesting that particles usually do not settle the first time they hit the bed. The present paper extends the LEM so it can address probabilistic settling, where a particle encountering the bed can either remain there for a positive length of time (i.e., settle) or immediately reflect back into the water column, each with positive probability. Previous results for the LEM are generalized by deducing a single set of equations governing the probability distribution and moments of a broad class of quantities that accumulate during particle trajectories terminated by hitting or settling on the bed (e.g., transport time, transport distance, cumulative energy expenditure during transport). Key properties of the settling-time and settling-distance distributions are studied numerically and compared with the observed FPOM settling-distance distribution for a natural stream. Some remaining limitations of the LEM and possible means of overcoming them are discussed.

  6. Perpendicular Diffusion in the Transport of Solar Energetic Particles from Unconnected Sources: The Counter-streaming Particle Beams Revisited

    NASA Astrophysics Data System (ADS)

    He, H.-Q.

    2015-12-01

    In some solar energetic particle (SEP) events, a counter-streaming particle beam with a deep depression of flux at ∼ 90^\\circ pitch angle during the beginning phase is observed. Two different interpretations exist within the community to explain this interesting phenomenon. One explanation invokes the hypothesis of an outer reflecting boundary or a magnetic mirror beyond the observer. The other one considers the effect of perpendicular diffusion on the transport process of SEPs in interplanetary space. In this work, we revisit the problem of counter-streaming particle beams observed in SEP events and discuss the possible mechanisms responsible for the formation of this phenomenon. We clarify some results in previous works.

  7. Modeling and Simulation of Cardiogenic Embolic Particle Transport to the Brain

    NASA Astrophysics Data System (ADS)

    Mukherjee, Debanjan; Jani, Neel; Shadden, Shawn C.

    2015-11-01

    Emboli are aggregates of cells, proteins, or fatty material, which travel along arteries distal to the point of their origin, and can potentially block blood flow to the brain, causing stroke. This is a prominent mechanism of stroke, accounting for about a third of all cases, with the heart being a prominent source of these emboli. This work presents our investigations towards developing numerical simulation frameworks for modeling the transport of embolic particles originating from the heart along the major arteries supplying the brain. The simulations are based on combining discrete particle method with image based computational fluid dynamics. Simulations of unsteady, pulsatile hemodynamics, and embolic particle transport within patient-specific geometries, with physiological boundary conditions, are presented. The analysis is focused on elucidating the distribution of particles, transport of particles in the head across the major cerebral arteries connected at the Circle of Willis, the role of hemodynamic variables on the particle trajectories, and the effect of considering one-way vs. two-way coupling methods for the particle-fluid momentum exchange. These investigations are aimed at advancing our understanding of embolic stroke using computational fluid dynamics techniques. This research was supported by the American Heart Association grant titled ``Embolic Stroke: Anatomic and Physiologic Insights from Image-Based CFD.''

  8. Initial Motion and Bedload Transport Distance Determined by Particle Tracking in a Large Regulated River

    NASA Astrophysics Data System (ADS)

    May, C. L.; Smith Pryor, B.; Lisle, T. E.

    2012-12-01

    Reservoir releases on large regulated rivers are increasingly being used to rejuvenate riverine habitat downstream of dams. Determining the effective flow level is complicated by the trade-off between mobilizing bed particles and retaining coarse sediment in rivers with low sediment supply. This study determined mobilization and transport distance of bed particles using motion-sensing radio transmitting particles that approximated the reach-average D84 grain size. The distribution of shear stress at initial motion varied substantially between flood events, and suggests that the sequence of flood events and the history of underthreshold flows may be an important determinant of bed strength and thus particle mobility. In addition, particle activity was greatest on the rising limb of each flood and was maximized at near bank-full flow. Travel distances did not vary between floods when scaled by transport event duration, and a negative exponential distribution was a good fit to the data. Results of this study provide important insight into individual particle movement, which can be used to inform flow releases and understand the effects of flood magnitude on particle mobility and transport.

  9. Commuter exposure to inhalable, thoracic and alveolic particles in various transportation modes in Delhi.

    PubMed

    Kumar, Pramod; Gupta, N C

    2016-01-15

    A public health concern is to understand the linkages between specific pollution sources and adverse health impacts. Commuting can be viewed as one of the significant-exposure activity in high-vehicle density areas. This paper investigates the commuter exposure to inhalable, thoracic and alveolic particles in various transportation modes in Delhi, India. Air pollution levels are significantly contributed by automobile exhaust and also in-vehicle exposure can be higher sometime than ambient levels. Motorcycle, auto rickshaw, car and bus were selected to study particles concentration along two routes in Delhi between Kashmere Gate and Dwarka. The bus and auto rickshaw were running on compressed natural gas (CNG) while the car and motorcycle were operated on gasoline fuel. Aerosol spectrometer was employed to measure inhalable, thoracic and alveolic particles during morning and evening rush hours for five weekdays. From the study, we observed that the concentration levels of these particles were greatly influenced by transportation modes. Concentrations of inhalable particles were found higher during morning in auto rickshaw (332.81 ± 90.97 μg/m(3)) while the commuter of bus exhibited higher exposure of thoracic particles (292.23 ± 110.45 μg/m(3)) and car commuters were exposed to maximum concentrations of alveolic particles (222.37 ± 26.56 μg/m(3)). We observed that in evening car commuters experienced maximum concentrations of all sizes of particles among the four commuting modes. Interestingly, motorcycle commuters were exposed to lower levels of inhalable and thoracic particles during morning and evening hours as compared to other modes of transport. The mean values were found greater than the median values for all the modes of transport suggesting that positive skewed distributions are characteristics of naturally occurring phenomenon.

  10. Commuter exposure to inhalable, thoracic and alveolic particles in various transportation modes in Delhi.

    PubMed

    Kumar, Pramod; Gupta, N C

    2016-01-15

    A public health concern is to understand the linkages between specific pollution sources and adverse health impacts. Commuting can be viewed as one of the significant-exposure activity in high-vehicle density areas. This paper investigates the commuter exposure to inhalable, thoracic and alveolic particles in various transportation modes in Delhi, India. Air pollution levels are significantly contributed by automobile exhaust and also in-vehicle exposure can be higher sometime than ambient levels. Motorcycle, auto rickshaw, car and bus were selected to study particles concentration along two routes in Delhi between Kashmere Gate and Dwarka. The bus and auto rickshaw were running on compressed natural gas (CNG) while the car and motorcycle were operated on gasoline fuel. Aerosol spectrometer was employed to measure inhalable, thoracic and alveolic particles during morning and evening rush hours for five weekdays. From the study, we observed that the concentration levels of these particles were greatly influenced by transportation modes. Concentrations of inhalable particles were found higher during morning in auto rickshaw (332.81 ± 90.97 μg/m(3)) while the commuter of bus exhibited higher exposure of thoracic particles (292.23 ± 110.45 μg/m(3)) and car commuters were exposed to maximum concentrations of alveolic particles (222.37 ± 26.56 μg/m(3)). We observed that in evening car commuters experienced maximum concentrations of all sizes of particles among the four commuting modes. Interestingly, motorcycle commuters were exposed to lower levels of inhalable and thoracic particles during morning and evening hours as compared to other modes of transport. The mean values were found greater than the median values for all the modes of transport suggesting that positive skewed distributions are characteristics of naturally occurring phenomenon. PMID:26439646

  11. Comprehensive computer model for magnetron sputtering. II. Charged particle transport

    SciTech Connect

    Jimenez, Francisco J. Dew, Steven K.; Field, David J.

    2014-11-01

    Discharges for magnetron sputter thin film deposition systems involve complex plasmas that are sensitively dependent on magnetic field configuration and strength, working gas species and pressure, chamber geometry, and discharge power. The authors present a numerical formulation for the general solution of these plasmas as a component of a comprehensive simulation capability for planar magnetron sputtering. This is an extensible, fully three-dimensional model supporting realistic magnetic fields and is self-consistently solvable on a desktop computer. The plasma model features a hybrid approach involving a Monte Carlo treatment of energetic electrons and ions, along with a coupled fluid model for thermalized particles. Validation against a well-known one-dimensional system is presented. Various strategies for improving numerical stability are investigated as is the sensitivity of the solution to various model and process parameters. In particular, the effect of magnetic field, argon gas pressure, and discharge power are studied.

  12. Applications to particle transport in the Earth`s aurora

    SciTech Connect

    Jasperse, J.R.

    1994-12-31

    The visual display of light called the aurora borealis occurs when energetic (1 to 100-keV) electrons, protons, and hydrogen atoms from the Earth`s magnetosphere enter the Earth`s upper atmosphere and collide with the ambient neutral particles. Two kinds of auroras occur in nature: those excited by incident electrons and those excited by incident protons and hydrogen atoms. In this paper, we consider only the latter. The proton-hydrogen aurora may be divided into two altitude regions: high altitudes ({approximately}250 to {approximately}600 km) where charge-changing collisions dominate and energy-loss collisions may be neglected and low altitudes ({approximately}100 to {approximately}250 km) where energy-loss collisions also become important and cause rapid energy degradation. The focus of this review is on the high-altitude region where the one-group approximation is valid.

  13. Colloidal particle transport in unsaturated porous media: Influence of flow velocity and ionic strength on colloidal particle retention

    NASA Astrophysics Data System (ADS)

    Predelus, Dieuseul; Coutinho, Paiva Artur; Lassabatere, Laurent; Winiarsky, Thierry; Angulo Jaramillo, Rafael

    2014-05-01

    Recently, anthropogenic colloidal particles are increasingly present into the environment. They can carry contaminants or constitute themselves a risk for the environment. Several factors can influence the fate of colloidal particles in soils. This work presents the investigation of effects of flow velocity and ionic strength on colloidal particles retention in unsaturated porous media. Experiments were carried out in laboratory column (D = 10 cm, L = 30 cm) with compacted mixture sand-gravel from a fluvioglacial basin of Lyon, France. Fluorescents nanoparticles (D = 50 to 60 nm) of silica doped with fluorescent organic molecules (fluorescein) have been used to simulate colloid particle transport. A solution of a non-reactive tracer, Br-, was used to determine the water flow behavior. Three different unsaturated water flow velocities (i.e. V = 0.025, 0.064 and 0.127 cm/min) and five ionic strengths (i.e. IS = 1, 5, 50, 100 and 200 mM at pH=8.5) have been tested for the case of a pulse injection of a colloidal particle solution at a concentration of 2 mg/L. Breakthrough curves are modeled by the non-equilibrium transfer model MIM (mobile and immobile water fraction), taking into account a sink term to reflect the colloidal particles adsorption. Results show that, when the flow velocity increases, the colloidal particle retention decreases. The decrease in flow velocity allows a better homogenization of the flow. In addition, colloidal entrapment is favored by the fact that their pore velocity is reduced. The retention of colloidal particle is function of ionic strength as well. Indeed, when the ionic strength increases, the retention increases. However for ionic strength higher than 50 mM, the retention decreases suggesting that there is a threshold value for the ionic strength with respect to the retention of colloidal particles. The retention profiles at the end of experiments indicate that the colloidal particles are retained at the inlet of the columns

  14. Physical considerations relevant to HZE-particle transport in matter.

    PubMed

    Schimmerling, W

    1988-06-01

    High-energy, highly charged (HZE) heavy nuclei may seem at first sight to be an exotic type of radiation, only remotely connected with nuclear power generation. On closer examination it becomes evident that heavy-ion accelerators are being seriously considered for driving inertial confinement fusion reactors, and high-energy heavy nuclei in the cosmic radiation are likely to place significant constraints on satellite power system deployment and space-based power generation. The use of beams of heavy nuclei in an increasing number of current applications, as well as their importance for the development of the state of the art of the future, makes it necessary to develop at the same time a good understanding of their transport through matter.

  15. Physical considerations relevant to HZE-particle transport in matter.

    PubMed

    Schimmerling, W

    1988-06-01

    High-energy, highly charged (HZE) heavy nuclei may seem at first sight to be an exotic type of radiation, only remotely connected with nuclear power generation. On closer examination it becomes evident that heavy-ion accelerators are being seriously considered for driving inertial confinement fusion reactors, and high-energy heavy nuclei in the cosmic radiation are likely to place significant constraints on satellite power system deployment and space-based power generation. The use of beams of heavy nuclei in an increasing number of current applications, as well as their importance for the development of the state of the art of the future, makes it necessary to develop at the same time a good understanding of their transport through matter. PMID:11539070

  16. Calculation of radiation therapy dose using all particle Monte Carlo transport

    DOEpatents

    Chandler, W.P.; Hartmann-Siantar, C.L.; Rathkopf, J.A.

    1999-02-09

    The actual radiation dose absorbed in the body is calculated using three-dimensional Monte Carlo transport. Neutrons, protons, deuterons, tritons, helium-3, alpha particles, photons, electrons, and positrons are transported in a completely coupled manner, using this Monte Carlo All-Particle Method (MCAPM). The major elements of the invention include: computer hardware, user description of the patient, description of the radiation source, physical databases, Monte Carlo transport, and output of dose distributions. This facilitated the estimation of dose distributions on a Cartesian grid for neutrons, photons, electrons, positrons, and heavy charged-particles incident on any biological target, with resolutions ranging from microns to centimeters. Calculations can be extended to estimate dose distributions on general-geometry (non-Cartesian) grids for biological and/or non-biological media. 57 figs.

  17. Calculation of radiation therapy dose using all particle Monte Carlo transport

    DOEpatents

    Chandler, William P.; Hartmann-Siantar, Christine L.; Rathkopf, James A.

    1999-01-01

    The actual radiation dose absorbed in the body is calculated using three-dimensional Monte Carlo transport. Neutrons, protons, deuterons, tritons, helium-3, alpha particles, photons, electrons, and positrons are transported in a completely coupled manner, using this Monte Carlo All-Particle Method (MCAPM). The major elements of the invention include: computer hardware, user description of the patient, description of the radiation source, physical databases, Monte Carlo transport, and output of dose distributions. This facilitated the estimation of dose distributions on a Cartesian grid for neutrons, photons, electrons, positrons, and heavy charged-particles incident on any biological target, with resolutions ranging from microns to centimeters. Calculations can be extended to estimate dose distributions on general-geometry (non-Cartesian) grids for biological and/or non-biological media.

  18. A comparison of total reaction cross section models used in particle and heavy ion transport codes

    NASA Astrophysics Data System (ADS)

    Sihver, Lembit; Lantz, M.; Takechi, M.; Kohama, A.; Ferrari, A.; Cerutti, F.; Sato, T.

    To be able to calculate the nucleon-nucleus and nucleus-nucleus total reaction cross sections with precision is very important for studies of basic nuclear properties, e.g. nuclear structure. This is also of importance for particle and heavy ion transport calculations because, in all particle and heavy ion transport codes, the probability function that a projectile particle will collide within a certain distance x in the matter depends on the total reaction cross sections. Furthermore, the total reaction cross sections will also scale the calculated partial fragmentation cross sections. It is therefore crucial that accurate total reaction cross section models are used in the transport calculations. In this paper, different models for calculating nucleon-nucleus and nucleus-nucleus total reaction cross sections are compared and discussed.

  19. Particle trapping and transport achieved via an adjustable acoustic field above a phononic crystal plate

    NASA Astrophysics Data System (ADS)

    Wang, T.; Ke, M.; Qiu, C.; Liu, Z.

    2016-06-01

    We present the design for an acoustic system that can achieve particle trapping and transport using the acoustic force field above a phononic crystal plate. The phononic crystal plate comprised a thin brass plate with periodic slits alternately embedded with two kinds of elastic inclusions. Enhanced acoustic transmission and localized acoustic fields were achieved when the structure was excited by external acoustic waves. Because of the different resonant frequencies of the two elastic inclusions, the acoustic field could be controlled via the working frequency. Particles were transported between adjacent traps under the influence of the adjustable acoustic field. This device provides a new and versatile avenue for particle manipulation that would complement other means of particle manipulation.

  20. The impact of fuel particle size distribution on neutron transport in stochastic media

    SciTech Connect

    Liang, C.; Pavlou, A. T.; Ji, W.

    2013-07-01

    This paper presents a study of the particle size distribution impact on neutron transport in three-dimensional stochastic media. An eigenvalue problem is simulated in a cylindrical container consisting of fissile fuel particles with five different size distributions: constant, uniform, power, exponential and Gaussian. We construct 15 cases by altering the fissile particle volume packing fraction and its optical thickness, but keeping the mean chord length of the spherical fuel particle the same at different size distributions. The tallied effective multiplication factor (k{sub eff}) and flux distribution along axial and radial directions are compared between different size distributions. At low packing fraction and low optical thickness, the size distribution has a significant impact on radiation transport in stochastic media, which can cause as high as {approx}270 pcm difference in k{sub eff} value and {approx}2.6% relative error difference in peak flux. As the packing fraction and optical thickness increase, the impact gradually dissipates. (authors)

  1. Particle-facilitated transport of lindane in water-saturated tropical lateritic porous media.

    PubMed

    Ngueleu, Stéphane K; Grathwohl, Peter; Cirpka, Olaf A

    2014-07-01

    The persistent insecticide lindane [(1α,2α,3β,4α,5α,6β)-1,2,3,4,5,6-hexachlorocyclohexane] is still in use in many tropical countries and remains a threat to soil and water quality. We studied the sorption and transport of lindane onto and through lateritic soils in both the absence and presence of lignite particles, onto which lindane may preferably sorb. We determined a linear distribution coefficient of lindane onto the soil matrix of 3.38 ± 0.16 L kg. Soil particles were not released from the porous medium on changing ionic strength, and also transport of lindane was not affected by changes in ionic strength. We fitted coupled transport models for lindane and the particles to the data, revealing that: (i) sorption kinetics of lindane onto the matrix is described best by intraparticle diffusion; (ii) 20% of the total porosity of the lateritic sample is intraparticle porosity; and (iii) only lignite particles with a median diameter <0.45 μm were not retained in the porous medium and thus facilitated the transport of lindane. We conclude that although lindane and similar pollutants may sorb on tropical lateritic porous media, their transport may be facilitated by particles with high organic-C content or dissolved organic C (DOC). This may be of relevance in farmlands and swamp groundwater systems where DOC, produced by leaching or slow biodegradation of surface organic matter, could cause rapid groundwater contamination by sorbing pollutants. Moreover, the results of this study can help to understand nanoparticle behavior in lateritic soils as the size of particles that facilitate lindane transport approaches the nanoparticle size range.

  2. Mobilization and preferential transport of soil particles during infiltration: A core-scale modeling approach

    NASA Astrophysics Data System (ADS)

    Majdalani, Samer; Michel, Eric; di Pietro, Liliana; Angulo-Jaramillo, Rafael; Rousseau, Marine

    2007-05-01

    Understanding particle movement in soils is a major concern for both geotechnics and soil physics with regard to environmental protection and water resources management. This paper describes a model for mobilization and preferential transport of soil particles through structured soils. The approach combines a kinematic-dispersive wave model for preferential water flow with a convective-dispersive equation subject to a source/sink term for particle transport and mobilization. Particle detachment from macropore walls is considered during both the steady and transient water flow regimes. It is assumed to follow first-order kinetics with a varying detachment efficiency, which depends on the history of the detachment process. Estimates of model parameters are obtained by comparing simulations with experimental particle breakthrough curves obtained during infiltrations through undisturbed soil columns. Both water flux and particle concentrations are satisfactorily simulated by the model. Particle mobilization parameters favoring both attachment and detachment of particles are related to the incoming solution ionic strength by a Fermi-type function.

  3. Productivity control of fine particle transport to equatorial Pacific sediment

    NASA Astrophysics Data System (ADS)

    Thomas, E.; Turekian, K. K.; Wei, K.-Y.

    2000-09-01

    Accumulation rates of 3He (from cosmic dust), 230Th (produced in the water column), barite (produced in the water column during decay of organic matter), and Fe and Ti (arriving with wind-borne dust) all are positively correlated in an equatorial Pacific core (TT013-PC72; 01.1°N, 139.4°W; water depth 4298 m). These accumulation rates are also positively correlated with the accumulation rates of noncarbonate material. They are not significantly correlated to the mass accumulation rate of carbonate, which makes up the bulk of the sediment. The fluctuations in accumulation rates of these various components from different sources thus must result from variations in some process within the oceans and not from variations in their original sources. Sediment focusing by oceanic bottom currents has been proposed as this process [Marcantonio et al., 1996]. We argue that the variations in the accumulation rates of all these components are dominantly linked to changes in productivity and particle scavenging (3He, 230Th, Fe, Ti) by fresh phytoplankton detritus (which delivers Ba upon its decay) in the equatorial Pacific upwelling region. We speculate that as equatorial Pacific productivity is a major component of global oceanic productivity, its variations over time might be reflected in variations in atmospheric levels of methanesulfonic acid (an atmospheric reaction product of dimethyl sulfide, which is produced by oceanic phytoplankton) and recorded in Antarctic ice cores.

  4. Transport equations for low-energy solar particles in evolving interplanetary magnetic fields

    NASA Technical Reports Server (NTRS)

    Ng, C. K.

    1988-01-01

    Two new forms of a simplified Fokker-Planck equation are derived for the transport of low-energy solar energetic particles in an evolving interplanetary magnetic field, carried by a variable radial solar wind. An idealized solution suggests that the 'invariant' anisotropy direction reported by Allum et al. (1974) may be explained within the conventional theoretical framework. The equations may be used to relate studies of solar particle propagation to solar wind transients, and vice versa.

  5. Particle transport after pellet injection in the TJ-II stellarator

    NASA Astrophysics Data System (ADS)

    Velasco, J. L.; McCarthy, K. J.; Panadero, N.; Satake, S.; López-Bruna, D.; Alonso, A.; Calvo, I.; Dinklage, A.; Estrada, T.; Fontdecaba, J. M.; Hernández, J.; García, R.; Medina, F.; Ochando, M.; Pastor, I.; Perfilov, S.; Sánchez, E.; Soleto, A.; Van Milligen, B. Ph; Zhezhera, A.; the TJ-II Team

    2016-08-01

    We study radial particle transport in stellarator plasmas using cryogenic pellet injection. By means of perturbative experiments, we estimate the experimental particle flux and compare it with neoclassical simulations. Experimental evidence is obtained of the fact that core depletion in helical devices can be slowed-down even by pellets that do not reach the core region. This phenomenon is well captured by neoclassical predictions with DKES and FORTEC-3D.

  6. Transport of particles and microorganisms in microfluidic channels using rectified ac electro-osmotic flow

    PubMed Central

    Wu, Wen-I; Selvaganapathy, P. Ravi; Ching, Chan Y.

    2011-01-01

    A new method is demonstrated to transport particles, cells, and other microorganisms using rectified ac electro-osmotic flows in open microchannels. The rectified flow is obtained by synchronous zeta potential modulation with the driving potential in the microchannel. Experiments were conducted to transport both neutral, charged particles, and microorganisms of various sizes. A maximum speed of 50 μm∕s was obtained for 8 μm polystyrene beads, without any electrolysis, using a symmetrical square waveform driving electric field of 5 V∕mm at 10 Hz and a 360 V gate potential with its polarity synchronized with the driving potential (phase lag=0°). PMID:21522497

  7. Self-propelled particles that transport cargo through flowing blood and halt hemorrhage.

    PubMed

    Baylis, James R; Yeon, Ju Hun; Thomson, Max H; Kazerooni, Amir; Wang, Xu; St John, Alex E; Lim, Esther B; Chien, Diana; Lee, Anna; Zhang, Jesse Q; Piret, James M; Machan, Lindsay S; Burke, Thomas F; White, Nathan J; Kastrup, Christian J

    2015-10-01

    Delivering therapeutics deep into damaged tissue during bleeding is challenging because of the outward flow of blood. When coagulants cannot reach and clot blood at its source, uncontrolled bleeding can occur and increase surgical complications and fatalities. Self-propelling particles have been proposed as a strategy for transporting agents upstream through blood. Many nanoparticle and microparticle systems exhibiting autonomous or collective movement have been developed, but propulsion has not been used successfully in blood or used in vivo to transport therapeutics. We show that simple gas-generating microparticles consisting of carbonate and tranexamic acid traveled through aqueous solutions at velocities of up to 1.5 cm/s and delivered therapeutics millimeters into the vasculature of wounds. The particles transported themselves through a combination of lateral propulsion, buoyant rise, and convection. When loaded with active thrombin, these particles worked effectively as a hemostatic agent and halted severe hemorrhage in multiple animal models of intraoperative and traumatic bleeding. Many medical applications have been suggested for self-propelling particles, and the findings of this study show that the active self-fueled transport of particles can function in vivo to enhance drug delivery. PMID:26601282

  8. Self-propelled particles that transport cargo through flowing blood and halt hemorrhage

    PubMed Central

    Baylis, James R.; Yeon, Ju Hun; Thomson, Max H.; Kazerooni, Amir; Wang, Xu; St. John, Alex E.; Lim, Esther B.; Chien, Diana; Lee, Anna; Zhang, Jesse Q.; Piret, James M.; Machan, Lindsay S.; Burke, Thomas F.; White, Nathan J.; Kastrup, Christian J.

    2015-01-01

    Delivering therapeutics deep into damaged tissue during bleeding is challenging because of the outward flow of blood. When coagulants cannot reach and clot blood at its source, uncontrolled bleeding can occur and increase surgical complications and fatalities. Self-propelling particles have been proposed as a strategy for transporting agents upstream through blood. Many nanoparticle and microparticle systems exhibiting autonomous or collective movement have been developed, but propulsion has not been used successfully in blood or used in vivo to transport therapeutics. We show that simple gas-generating microparticles consisting of carbonate and tranexamic acid traveled through aqueous solutions at velocities of up to 1.5 cm/s and delivered therapeutics millimeters into the vasculature of wounds. The particles transported themselves through a combination of lateral propulsion, buoyant rise, and convection. When loaded with active thrombin, these particles worked effectively as a hemostatic agent and halted severe hemorrhage in multiple animal models of intraoperative and traumatic bleeding. Many medical applications have been suggested for self-propelling particles, and the findings of this study show that the active self-fueled transport of particles can function in vivo to enhance drug delivery. PMID:26601282

  9. Energetic particle transport in the presence of magnetic turbulence: influence of spectral extension and intermittency

    NASA Astrophysics Data System (ADS)

    Pucci, F.; Malara, F.; Perri, S.; Zimbardo, G.; Sorriso-Valvo, L.; Valentini, F.

    2016-07-01

    The transport of energetic particles in the presence of magnetic turbulence is an important but unsolved problem of space physics and astrophysics. Here, we aim at advancing the understanding of energetic particle transport by means of a new numerical model of synthetic magnetic turbulence. The model builds up a turbulent magnetic field as a superposition of space-localized fluctuations at different spatial scales. The resulting spectrum is isotropic with an adjustable spectral index. The model allows us to reproduce a spectrum broader than four decades, and to regulate the level of intermittency through a technique based on the p-model. Adjusting the simulation parameters close to solar wind conditions at 1 au, we inject ˜1 MeV protons in the turbulence realization and compute the parallel and perpendicular diffusion coefficients as a function of spectral extension, turbulence level, and intermittency. While a number of previous results are recovered in the appropriate limits, including anomalous transport regimes for low turbulence levels, we find that long spectral extensions tend to reduce the diffusion coefficients. Furthermore, we find for the first time that intermittency has an influence on parallel transport but not on perpendicular transport, with the parallel diffusion coefficient increasing with the level of intermittency. We also obtain the distribution of particle inversion times for parallel velocity, a power law for more than one decade, and compare it with the pitch angle scattering times observed in the solar wind. This parametric study can be useful to interpret particle propagation properties in astrophysical systems.

  10. Discrete elements method of neutral particle transport. Doctoral thesis

    SciTech Connect

    Mathews, K.A.

    1983-10-01

    A new 'discrete elements' (LN) transport method is derived and compared to the discrete ordinates SN method, theoretically and by numerical experimentation. The discrete elements method is more accurate than discrete ordinates and strongly ameliorates ray effects for the practical problems studied. The discrete elements method is shown to be more cost effective in terms of execution time with comparable storage to attain the same accuracy, for a one-dimensional test case using linear characteristic spatial quadrature. In a two-dimensional test case, a vacuum duct in a shield, LN is more consistently convergent toward a Monte Carlo benchmark solution than SN, using step characteristic spatial quadrature. An analysis of the interaction of angular and spatial quadrature in xy-geometry indicates the desirability of using linear characteristic spatial quadrature with the LN method. The discrete elements method is based on discretizing the Boltzmann equation over a set of elements of angle. The zeroth and first angular moments of the directional flux, over each element, are estimated by numerical quadrature and yield a flux-weighted average streaming direction for the element. (Data for this estimation are fluxes in fixed directions calculated as in SN.)

  11. WDR19: An ancient, retrograde, intraflagellar ciliary protein is mutated in autosomal recessive retinitis pigmentosa and in Senior-Loken syndrome

    PubMed Central

    Coussa, RG; Otto, EA; Gee, H-Y; Arthurs, P; Ren, H; Lopez, I; Keser, V; Fu, Q; Faingold, R; Khan, A; Schwartzentruber, J; Majewski, J; Hildebrandtand, F; Koenekoop, RK

    2014-01-01

    Autosomal recessive retinitis pigmentosa (arRP) is a clinically and genetically heterogeneous retinal disease that causes blindness. Our purpose was to identify the causal gene, describe the phenotype and delineate the mutation spectrum in a consanguineous Quebec arRP family. We performed Arrayed Primer Extension (APEX) technology to exclude ~500 arRP mutations in ~20 genes. Homozygosity mapping [single nucleotide polymorphism (SNP) genotyping] identified 10 novel significant homozygous regions. We performed next generation sequencing and whole exome capture. Sanger sequencing provided cosegregation. We screened another 150 retinitis pigmentosa (RP) and 200 patients with Senior-Løken Syndrome (SLS). We identified a novel missense mutation in WDR19, c.2129T>C which lead to a p.Leu710Ser. We found the same mutation in a second Quebec arRP family. Interestingly, two of seven affected members of the original family developed ‘sub-clinical’ renal cysts. We hypothesized that more severe WDR19 mutations may lead to severe ciliopathies and found seven WDR19 mutations in five SLS families. We identified a new gene for both arRP and SLS. WDR19 is a ciliary protein associated with the intraflagellar transport machinery. We are currently investigating the full extent of the mutation spectrum. Our findings are crucial in expanding the understanding of childhood blindness and identifying new genes. PMID:23683095

  12. Unique DNA-barcoded aerosol test particles for studying aerosol transport

    DOE PAGES

    Harding, Ruth N.; Hara, Christine A.; Hall, Sara B.; Vitalis, Elizabeth A.; Thomas, Cynthia B.; Jones, A. Daniel; Day, James A.; Tur-Rojas, Vincent R.; Jorgensen, Trond; Herchert, Edwin; et al

    2016-03-22

    Data are presented for the first use of novel DNA-barcoded aerosol test particles that have been developed to track the fate of airborne contaminants in populated environments. Until DNATrax (DNA Tagged Reagents for Aerosol eXperiments) particles were developed, there was no way to rapidly validate air transport models with realistic particles in the respirable range of 1–10 μm in diameter. The DNATrax particles, developed at Lawrence Livermore National Laboratory (LLNL) and tested with the assistance of the Pentagon Force Protection Agency, are the first safe and effective materials for aerosol transport studies that are identified by DNA molecules. The usemore » of unique synthetic DNA barcodes overcomes the challenges of discerning the test material from pre-existing environmental or background contaminants (either naturally occurring or previously released). The DNATrax particle properties are demonstrated to have appropriate size range (approximately 1–4.5 μm in diameter) to accurately simulate bacterial spore transport. As a result, we describe details of the first field test of the DNATrax aerosol test particles in a large indoor facility.« less

  13. Coupled particle-fluid transport and magnetic separation in microfluidic systems with passive magnetic functionality

    NASA Astrophysics Data System (ADS)

    Khashan, Saud A.; Furlani, Edward P.

    2013-03-01

    A study is presented of coupled particle-fluid transport and field-directed particle capture in microfluidic systems with passive magnetic functionality. These systems consist of a microfluidic flow cell on a substrate that contains embedded magnetic elements. Two systems are considered that utilize soft- and hard-magnetic elements, respectively. In the former, an external field is applied to magnetize the elements, and in the latter, they are permanently magnetized. The field produced by the magnetized elements permeates into the flow cell giving rise to an attractive force on magnetic particles that flow through it. The systems are studied using a novel numerical/closed-form modelling approach that combines numerical transport analysis with closed-form field analysis. Particle-fluid transport is computed using computational fluid dynamics (CFD), while the magnetic force that governs particle capture is obtained in closed form. The CFD analysis takes into account dominant particle forces and two-way momentum transfer between the particles and the fluid. The two-way particle-fluid coupling capability is an important feature of the model that distinguishes it from more commonly used and simplified one-way coupling analysis. The model is used to quantify the impact of two-way particle-fluid coupling on both the capture efficiency and the flow pattern in the systems considered. Many effects such as particle-induced flow-enhanced capture efficiency and flow circulation are studied that cannot be predicted using one-way coupling analysis. In addition, dilute particle dispersions are shown to exhibit significant localized particle-fluid coupling near the capture regions, which contradicts the commonly held view that two-way coupling can be ignored when analysing high-gradient magnetic separation involving such particle systems. Overall, the model demonstrates that two-way coupling needs to be taken into account for rigorous predictions of capture efficiency, especially

  14. Transport reversals of chiral active particles induced by a perpendicular constant force

    NASA Astrophysics Data System (ADS)

    Wu, Jian-chun; Zhou, Jia-ning; Ai, Bao-quan

    2016-11-01

    Transport of chiral active particles in a symmetric periodic potential is investigated in the presence of a constant force. It is found that due to chirality of active particles the transversal constant force can break the symmetry of the system and induce a longitudinal net current. There exists an optimal constant force at which the rectification is maximal. Remarkably, longitudinal current reversals can occur by suitably tailoring the transversal constant force. Therefore, particles with different chiralities move to different directions and can be effectively separated.

  15. Numerical modeling of pollutant transport using a Lagrangian marker particle technique

    NASA Technical Reports Server (NTRS)

    Spaulding, M.

    1976-01-01

    A derivation and code were developed for the three-dimensional mass transport equation, using a particle-in-cell solution technique, to solve coastal zone waste discharge problems where particles are a major component of the waste. Improvements in the particle movement techniques are suggested and typical examples illustrated. Preliminary model comparisons with analytic solutions for an instantaneous point release in a uniform flow show good results in resolving the waste motion. The findings to date indicate that this computational model will provide a useful technique to study the motion of sediment, dredged spoils, and other particulate waste commonly deposited in coastal waters.

  16. PARTICLE TRANSPORT IN EVOLVING PROTOPLANETARY DISKS: IMPLICATIONS FOR RESULTS FROM STARDUST

    SciTech Connect

    Hughes, Anna L. H.; Armitage, Philip J.

    2010-08-20

    Samples returned from comet 81P/Wild 2 by the Stardust mission confirm that substantial quantities of crystalline silicates were incorporated into the comet at the time of its formation. We investigate the constraints that this observation places upon protoplanetary disk physics, under the assumption that outward transport of particles processed at high temperatures occurs via a combination of advection and turbulent diffusion in an evolving disk. We also look for possible constraints on the formation locations of such particles. Our results are based upon one-dimensional disk models that evolve with time under the action of viscosity and photoevaporative mass loss, and track solid transport using an ensemble of individual particle trajectories. We find that two broad classes of the disk model are consistent with the Stardust findings. One class of models features a high particle diffusivity (a Schmidt number, Sc < 1), which suffices to diffuse particles up to 20 {mu}m in size outward against the mean gas flow. For Sc {>=} 1 such models are unlikely to be viable and significant outward transport appears to require that the particles of interest settle into a midplane layer that experiences an outward gas flow. In either class of models, the mass of inner disk material that reaches the outer disk is a strong function of the initial compactness of the disk. Hence, models of grain transport within steady-state disks underestimate the efficiency of outward transport. Neither model results in sustained outward transport of very large particles exceeding a millimeter in size. We show that in most circumstances, the transport efficiency falls off rapidly with time. Hence, high-temperature material must be rapidly incorporated into icy bodies to avoid fallback to small radii. We suggest that significant radial transport may only occur during the initial phase of rapid disk evolution. It may also vary substantially between disks depending upon their initial mass

  17. Effect of particle settling on lidar profiles of long-range transported Saharan aerosols

    NASA Astrophysics Data System (ADS)

    Gasteiger, Josef; Groß, Silke

    2016-04-01

    A large amount of desert aerosol is transported in the Saharan Air Layer (SAL) westwards from Africa over the Atlantic Ocean. Lidar profiles of transported Saharan aerosol may contain some information about the vertically-resolved aerosol microphysics that could be used to characterize processes that affected the measured aerosol during transport. We present modelled lidar profiles of long-range transported Saharan aerosol assuming that initially the SAL is well-mixed and that there is no vertical mixing of air within the SAL as soon as it reaches the Atlantic. We consider Stokes gravitational settling of aerosol particles over the ocean. The lidar profiles are calculated using optical models for irregularly-shaped mineral dust particles assuming settling-induced particle removal as function of distance from the SAL top. Within the SAL we find a decrease of both the backscatter coefficients and the linear depolarization ratios with decreasing distance from the SAL top. For example, the linear depolarization ratio at a wavelength of 532nm decreases from 0.289 at 1000m to 0.256 at 200m and 0.215 at 100m below SAL top. We compare the modelled backscatter coefficients and linear depolarization ratios to ground-based lidar measurements performed during the SALTRACE field campaign in Barbados (Caribbean) and find agreement within the estimated uncertainties. We discuss the uncertainties of our modeling approach in our presentation. Assumed mineral dust particle shapes, assumed particle mixture properties, and assumptions about processes in the SAL over the continent and the ocean are important aspects to be considered. Uncertainties are relevant for the potential of lidar measurements of transported Saharan dust to learn something about processes occuring in the SAL during long-range transport. We also compare our modeling results to modeling results previously published in the literature.

  18. Transport and selective chaining of bidisperse particles in a travelling wave potential.

    PubMed

    Tierno, Pietro; Straube, Arthur V

    2016-05-01

    We combine experiments, theory and numerical simulation to investigate the dynamics of a binary suspension of paramagnetic colloidal particles dispersed in water and transported above a stripe-patterned magnetic garnet film. The substrate generates a one-dimensional periodic energy landscape above its surface. The application of an elliptically polarized rotating magnetic field causes the landscape to translate, inducing direct transport of paramagnetic particles placed above the film. The ellipticity of the applied field can be used to control and tune the interparticle interactions, from net repulsive to net attractive. When considering particles of two distinct sizes, we find that, depending on their elevation above the surface of the magnetic substrate, the particles feel effectively different potentials, resulting in different mobilities. We exploit this feature to induce selective chaining for certain values of the applied field parameters. In particular, when driving two types of particles, we force only one type to condense into travelling parallel chains. These chains confine the movement of the other non-chaining particles within narrow colloidal channels. This phenomenon is explained by considering the balance of pairwise magnetic forces between the particles and their individual coupling with the travelling landscape.

  19. Nanoparticle transport in heterogeneous porous media with particle tracking numerical methods

    NASA Astrophysics Data System (ADS)

    Pham, Ngoc H.; Papavassiliou, Dimitrios V.

    2016-08-01

    In this article, transport and retention of nanoparticles that flow in suspension through packed beds with unconsolidated spheres and through consolidated Berea sandstone are numerically explored. The surfaces exhibit electrical charge heterogeneity where particles can deposit blocking the surrounding surface deposition sites. The lattice Boltzmann method with Lagrangian particle tracking are the techniques employed. Four ideal patterns of surface charge heterogeneity are adopted for the packed sphere beds, while a real distribution of charge heterogeneity is determined for the Berea core through micro-CT image segmentation. It is found that particle breakthrough curves do not reach a plateau, unless the pore surfaces are completely saturated. Surface saturation also enhances particle propagation because of the surface blocking mechanism, reducing the effective particle deposition rate. In addition, surface saturation mitigates the effect of the pattern of heterogeneity on particle retention, which might be pronounced when blocking is not taken into account. It is also observed from the case of Berea core that the heterogeneity of the mineralogical surfaces disturbs particle transport depending on the physicochemical properties of the surfaces. Likewise, similarity of the mineralogical surface properties is a prerequisite for the commonly used patch-wise model with Langmuirian blocking to reproduce nanoparticle breakthrough in such porous media.

  20. Transport and selective chaining of bidisperse particles in a travelling wave potential.

    PubMed

    Tierno, Pietro; Straube, Arthur V

    2016-05-01

    We combine experiments, theory and numerical simulation to investigate the dynamics of a binary suspension of paramagnetic colloidal particles dispersed in water and transported above a stripe-patterned magnetic garnet film. The substrate generates a one-dimensional periodic energy landscape above its surface. The application of an elliptically polarized rotating magnetic field causes the landscape to translate, inducing direct transport of paramagnetic particles placed above the film. The ellipticity of the applied field can be used to control and tune the interparticle interactions, from net repulsive to net attractive. When considering particles of two distinct sizes, we find that, depending on their elevation above the surface of the magnetic substrate, the particles feel effectively different potentials, resulting in different mobilities. We exploit this feature to induce selective chaining for certain values of the applied field parameters. In particular, when driving two types of particles, we force only one type to condense into travelling parallel chains. These chains confine the movement of the other non-chaining particles within narrow colloidal channels. This phenomenon is explained by considering the balance of pairwise magnetic forces between the particles and their individual coupling with the travelling landscape. PMID:27194527

  1. Self-propelled particle transport in regular arrays of rigid asymmetric obstacles.

    PubMed

    Potiguar, Fabricio Q; Farias, G A; Ferreira, W P

    2014-07-01

    We report numerical results which show the achievement of net transport of self-propelled particles (SPPs) in the presence of a two-dimensional regular array of convex, either symmetric or asymmetric, rigid obstacles. The repulsive interparticle (soft disks) and particle-obstacle interactions present no alignment rule. We find that SPPs present a vortex-type motion around convex symmetric obstacles even in the absence of hydrodynamic effects. Such a motion is not observed for a single SPP, but is a consequence of the collective motion of SPPs around the obstacles. A steady particle current is spontaneously established in an array of nonsymmetric convex obstacles (which presents no cavity in which particles may be trapped), and in the absence of an external field. Our results are mainly a consequence of the tendency of the self-propelled particles to attach to solid surfaces.

  2. The mechanism of particles transport induced by electrostatic perturbation in tokamak

    SciTech Connect

    Feng, Zhichen; Qiu, Zhiyong; Sheng, Zhengmao

    2013-12-15

    Particle transport in tokamak devices due to wave-particle resonance induced diffusion is studied. The diffusion coefficient is derived both analytically using quasilinear theory, and numerically using a test particle code, and the obtained diffusion coefficient agrees with each other in its validity regime. Dependence of the diffusion coefficient on turbulence intensity, turbulence radial mode structures, and particle energy is investigated. It is found that the diffusion coefficient is proportional to the turbulence intensity, and the diffusion is maximized for E{sub t}≃T{sub i}, and k{sub r}Δ{sub 0}≃1. Here, E{sub t} is the test particle energy, T{sub i} is the thermal ion temperature, Δ{sub 0} is the distance between neighboring mode rational surfaces, and 1/k{sub r} is the half width of the fine radial mode structure on each rational surface.

  3. Simulation of Energetic Particle Transport and Acceleration at Shock Waves in a Focused Transport Model: Implications for Mixed Solar Particle Events

    NASA Astrophysics Data System (ADS)

    Kartavykh, Y. Y.; Dröge, W.; Gedalin, M.

    2016-03-01

    We use numerical solutions of the focused transport equation obtained by an implicit stochastic differential equation scheme to study the evolution of the pitch-angle dependent distribution function of protons in the vicinity of shock waves. For a planar stationary parallel shock, the effects of anisotropic distribution functions, pitch-angle dependent spatial diffusion, and first-order Fermi acceleration at the shock are examined, including the timescales on which the energy spectrum approaches the predictions of diffusive shock acceleration theory. We then consider the case that a flare-accelerated population of ions is released close to the Sun simultaneously with a traveling interplanetary shock for which we assume a simplified geometry. We investigate the consequences of adiabatic focusing in the diverging magnetic field on the particle transport at the shock, and of the competing effects of acceleration at the shock and adiabatic energy losses in the expanding solar wind. We analyze the resulting intensities, anisotropies, and energy spectra as a function of time and find that our simulations can naturally reproduce the morphologies of so-called mixed particle events in which sometimes the prompt and sometimes the shock component is more prominent, by assuming parameter values which are typically observed for scattering mean free paths of ions in the inner heliosphere and energy spectra of the flare particles which are injected simultaneously with the release of the shock.

  4. Selective transport of Fe(III) using ionic imprinted polymer (IIP) membrane particle

    NASA Astrophysics Data System (ADS)

    Djunaidi, Muhammad Cholid; Jumina, Siswanta, Dwi; Ulbricht, Mathias

    2015-12-01

    The membrane particles was prepared from polyvinyl alcohol (PVA) and polymer IIP with weight ratios of 1: 2 and 1: 1 using different adsorbent templates and casting thickness. The permeability of membrane towards Fe(III) and also mecanism of transport were studied. The selectivity of the membrane for Fe(III) was studied by performing adsorption experiments also with Cr(III) separately. In this study, the preparation of Ionic Imprinted Polymer (IIP) membrane particles for selective transport of Fe (III) had been done using polyeugenol as functional polymer. Polyeugenol was then imprinted with Fe (III) and then crosslinked with PEGDE under alkaline condition to produce polyeugenol-Fe-PEGDE polymer aggregates. The agrregates was then crushed and sieved using mesh size of 80 and the powder was then used to prepare the membrane particles by mixing it with PVA (Mr 125,000) solution in 1-Methyl-2-pyrrolidone (NMP) solvent. The membrane was obtained after casting at a speed of 25 m/s and soaking in NaOH solution overnight. The membrane sheet was then cut and Fe(III) was removed by acid to produce IIP membrane particles. Analysis of the membrane and its constituent was done by XRD, SEM and size selectivity test. Experimental results showed the transport of Fe(III) was faster with the decrease of membrane thickness, while the higher concentration of template ion correlates with higher Fe(III) being transported. However, the transport of Fe(III) was slower for higher concentration of PVA in the membrane. IImparticles works through retarded permeation mechanism, where Fe(III) was bind to the active side of IIP. The active side of IIP membrane was dominated by the -OH groups. The selectivity of all IIP membranes was confirmed as they were all unable to transport Cr (III), while NIP (Non-imprinted Polymer) membrane was able transport Cr (III).

  5. Straining of polyelectrolyte-stabilized nanoscale zero valent iron particles during transport through granular porous media.

    PubMed

    Raychoudhury, Trishikhi; Tufenkji, Nathalie; Ghoshal, Subhasis

    2014-03-01

    In this study, the relevance of straining of nano-sized particles of zero valent iron coated with carboxymethyl cellulose (CMC-NZVI) during transport in model subsurface porous media is assessed. Although deposition of polyelectrolyte stabilized-NZVI on granular subsurface media due to physicochemical attachment processes has been reported previously, there is limited knowledge on the significance of the collector (sand) diameter on the deposition and spatial distribution of the retention of such nanoparticles. Experiments were conducted to assess the transport of CMC-NZVI in columns packed with four different-sized sands of mean diameter of 775 μm, 510 μm, 250 μm and 150 μm and at three different particle concentrations of 0.085 g L(-1), 0.35 g L(-1) and 1.70 g L(-1). CMC-NZVI effluent concentrations decreased with smaller sand diameters. High CMC-NZVI particle retention near the inlet, particularly for the finer sands was observed, even with a low ionic strength of 0.1 mM for the electrolyte medium. These observations are consistent with particle retention in porous media due to straining and/or wedging. Two colloid transport models, one considering particle retention by physicochemical deposition and detachment of those deposited particles, and the other considering particle retention by straining along with particle deposition and detachment, were fitted to the experimental data. The model accounting for straining shows a better fit, especially to the CMC-NZVI retention data along the length of the column. The straining rate coefficients decreased with larger sand diameters. This study demonstrates that CMC-NZVI particles, despite of their small size (hydrodynamic diameters of 167-185 nm and transmission electron microscopy imaged diameters of approximately 85 nm), may be removed by straining during transport, especially through fine granular subsurface media. The tailing effect, observed in the particle breakthrough curves, is attributed to

  6. Application of Continuous-Time Batch Markovian Arrival Processes and Particle Tracking Model to Probabilistic Sediment Transport Modeling

    NASA Astrophysics Data System (ADS)

    Tsai, Christina; Hung, Serena

    2016-04-01

    To more precisely describe particle movement in surface water, both the random particle arrival process at the receiving water and the stochastic particle movement in the receiving water should be carefully considered in sediment transport modeling. In this study, a stochastic framework is developed for a probabilistic description of discrete particle transport through a probability density function of sediment concentrations and transport rates. In order to more realistically describe the particle arrivals into receiving waters at random times and with a probabilistic particle number in each arrival, the continuous-time batch Markovian arrival process is introduced. The particle tracking model (PTM) composed of physically based stochastic differential equations (SDEs) for particle trajectory is then used to depict the random movement of particles in the receiving water. Particle deposition and entrainment processes are considered in the model. It is expected that the particle concentrations in the receiving water and particle transport rates can be mathematically expressed as a stochastic process. Compared with deterministic modeling, the proposed approach has the advantage of capturing any randomly selected scenarios (or realizations) of flow and sediment properties. Availability of a more sophisticated stochastic process for random particle arrival processes can assist in quantifying the probabilistic characteristics of sediment transport rates and concentrations. In addition, for a given turbidity threshold, the risk of exceeding a pre-established water quality standard can be quantified as needed.

  7. Shear-Limited Test Particle Transport in Two-Dimensional Plasmas.

    NASA Astrophysics Data System (ADS)

    Anderegg, F.; Driscoll, C. F.; Dubin, D. H. E.; O'Neil, T. M.

    2002-11-01

    Measurements of test-particle transport in pure ion plasmas show 2D enhancement over the 3D rates, limited by the shear(C.F. Driscoll et al.), Phys. Plasmas 9, 1905-1914 (2002). in the E × B plasma rotation ω_E. For finite plasma length L_p, thermal particles may bounce axially many times before rotational shear separates them in θ. This number of bounces Nb ≡ ( barv / 2 L_p) / (r partial ωE / partial r ) characterizes the approach to the 2D bounce-average regime. For Nb < 1, test particle diffusion is due to long range E × B drift collisions with impact parameters in the range rc < ρ < λ_D. Over the range 1 < Nb < 100, experiments measure test particle diffusion increasing as N_b. For exceedingly small shear Nb > 1000, we observe transport rates consistent with the Taylor-McNamara estimate for shear-free thermal plasmas. Experimental data suggest the existence of convective transport superimposed on diffusion, consistent with the theory idea of transport due to large thermally excited vortices.

  8. From Mechanical Motion to Brownian Motion, Thermodynamics and Particle Transport Theory

    ERIC Educational Resources Information Center

    Bringuier, E.

    2008-01-01

    The motion of a particle in a medium is dealt with either as a problem of mechanics or as a transport process in non-equilibrium statistical physics. The two kinds of approach are often unrelated as they are taught in different textbooks. The aim of this paper is to highlight the link between the mechanical and statistical treatments of particle…

  9. Using Cytochome c to Monitor Electron Transport and Inhibition in Beef Heart Submitochondrial Particles

    ERIC Educational Resources Information Center

    Melin, Amanda D.; Lohmeier-Vogel, Elke M.

    2004-01-01

    We present a two-part undergraduate laboratory exercise. In the first part, electron transport in bovine heart submitochondrial particles causing reduction of cytochrome c is monitored at 550 nm. Redox-active dyes have historically been used in most previous undergraduate laboratory exercises of this sort but do not demonstrate respiratory…

  10. TRANSPORT AND DEPOSITION OF NANO-SIZE PARTICLES IN THE UPPER HUMAN RESPIRATORY AIRWAYS

    EPA Science Inventory

    TRANSPORT AND DEPOSITION OF NANO-SIZE PARTICLES IN THE UPPER HUMAN RESPIRATORY AIRWAYS. Zhe Zhang*, Huawei Shi, Clement Kleinstreuer, Department of Mechanical and Aerospace Engineering, North Carolina State University, Raleigh, NC 27695-7910; Chong S. Kim, National Health and En...

  11. Enhanced transport of Si-coated nanoscale zero-valent iron particles in porous media.

    PubMed

    HonetschlÄgerová, Lenka; Janouškovcová, Petra; Kubal, Martin

    2016-01-01

    Laboratory column experiments were conducted to evaluate the effect of previously described silica coating method on the transport of nanoscale zero-valent iron (nZVI) in porous media. The silica coating method showed the potential to prevent the agglomeration of nZVI. Transport experiments were conducted using laboratory-scale sand-packed columns at conditions that were very similar of natural groundwater. Transport properties of non-coated and silica-coated nZVI are investigated in columns of 40 cm length, which were filled with porous media. A suspension was injected in three different Fe particle concentrations (100, 500, and 1000 mg/L) at flow 5  mL/min. Experimental results were compared using nanoparticle attachment efficiency and travel distances which were calculated by classical particle filtration theory. It was found that non-coated particles were essentially immobile in porous media. In contrast, silica-coated particles showed significant transport distances at the tested conditions. Results of this study suggest that silica can increase nZVI mobility in the subsurface.

  12. Transport and trapping of dust particles in a potential well created by inductively coupled diffused plasmas.

    PubMed

    Choudhary, Mangilal; Mukherjee, S; Bandyopadhyay, P

    2016-05-01

    A versatile linear dusty (complex) plasma device is designed to study the transport and dynamical behavior of dust particles in a large volume. Diffused inductively coupled plasma is generated in the background of argon gas. A novel technique is used to introduce the dust particles in the main plasma by striking a secondary direct current glow discharge. These dust particles are found to get trapped in an electrostatic potential well, which is formed due to the combination of the ambipolar electric field caused by diffusive plasma and the field produced by the charged glass wall of the vacuum chamber. According to the requirements, the volume of the dust cloud can be controlled very precisely by tuning the plasma and discharge parameters. The present device can be used to address the underlying physics behind the transport of dust particles, self-excited dust acoustic waves, and instabilities. The detailed design of this device, plasma production and characterization, trapping and transport of the dust particle, and some of the preliminary experimental results are presented.

  13. Transport and trapping of dust particles in a potential well created by inductively coupled diffused plasmas

    NASA Astrophysics Data System (ADS)

    Choudhary, Mangilal; Mukherjee, S.; Bandyopadhyay, P.

    2016-05-01

    A versatile linear dusty (complex) plasma device is designed to study the transport and dynamical behavior of dust particles in a large volume. Diffused inductively coupled plasma is generated in the background of argon gas. A novel technique is used to introduce the dust particles in the main plasma by striking a secondary direct current glow discharge. These dust particles are found to get trapped in an electrostatic potential well, which is formed due to the combination of the ambipolar electric field caused by diffusive plasma and the field produced by the charged glass wall of the vacuum chamber. According to the requirements, the volume of the dust cloud can be controlled very precisely by tuning the plasma and discharge parameters. The present device can be used to address the underlying physics behind the transport of dust particles, self-excited dust acoustic waves, and instabilities. The detailed design of this device, plasma production and characterization, trapping and transport of the dust particle, and some of the preliminary experimental results are presented.

  14. Methodologies for Removing/Desorbing and Transporting Particles from Surfaces to Instrumentation

    NASA Astrophysics Data System (ADS)

    Miller, Carla J.; Cespedes, Ernesto R.

    2012-12-01

    Explosive trace detection (ETD) continues to be a key technology supporting the fight against terrorist bombing threats. Very selective and sensitive ETD instruments have been developed to detect explosive threats concealed on personnel, in vehicles, in luggage, and in cargo containers, as well as for forensic analysis (e.g. post blast inspection, bomb-maker identification, etc.) in a broad range of homeland security, law enforcement, and military applications. A number of recent studies have highlighted the fact that significant improvements in ETD systems' capabilities will be achieved, not by increasing the selectivity/sensitivity of the sensors, but by improved techniques for particle/vapor sampling, pre-concentration, and transport to the sensors. This review article represents a compilation of studies focused on characterizing the adhesive properties of explosive particles, the methodologies for removing/desorbing these particles from a range of surfaces, and approaches for transporting them to the instrument. The objectives of this review are to summarize fundamental work in explosive particle characterization, to describe experimental work performed in harvesting and transport of these particles, and to highlight those approaches that indicate high potential for improving ETD capabilities.

  15. Transport and trapping of dust particles in a potential well created by inductively coupled diffused plasmas.

    PubMed

    Choudhary, Mangilal; Mukherjee, S; Bandyopadhyay, P

    2016-05-01

    A versatile linear dusty (complex) plasma device is designed to study the transport and dynamical behavior of dust particles in a large volume. Diffused inductively coupled plasma is generated in the background of argon gas. A novel technique is used to introduce the dust particles in the main plasma by striking a secondary direct current glow discharge. These dust particles are found to get trapped in an electrostatic potential well, which is formed due to the combination of the ambipolar electric field caused by diffusive plasma and the field produced by the charged glass wall of the vacuum chamber. According to the requirements, the volume of the dust cloud can be controlled very precisely by tuning the plasma and discharge parameters. The present device can be used to address the underlying physics behind the transport of dust particles, self-excited dust acoustic waves, and instabilities. The detailed design of this device, plasma production and characterization, trapping and transport of the dust particle, and some of the preliminary experimental results are presented. PMID:27250421

  16. Transport matrix for particles and momentum in collisional drift waves turbulence in linear plasma devices

    NASA Astrophysics Data System (ADS)

    Ashourvan, Arash; Diamond, P. H.; Gürcan, Ö. D.

    2016-02-01

    The relationship between the physics of turbulent transport of particles and azimuthal momentum in a linear plasma device is investigated using a simple model with a background density gradient and zonal flows driven by turbulent stresses. Pure shear flow driven Kelvin-Helmholtz instabilities (k∥=0 ) relax the flow and drive an outward (down gradient) flux of particles. However, instabilities at finite k∥ with flow enhanced pumping can locally drive an inward particle pinch. The turbulent vorticity flux consists of a turbulent viscosity term, which acts to reduce the global vorticity gradient and the residual vorticity flux term, accelerating the zonal flows from rest. Moreover, we use the positivity of the production of fluctuation potential enstrophy to obtain a constraint relation, which tightly links the vorticity transport to the particle transport. This relation can be useful in explaining the experimentally observed correlation between the presence of E ×B flow shear and the measured inward particle flux in various magnetically confined plasma devices.

  17. Gyrokinetic Particle Simulation of Turbulent Transport in Burning Plasmas (GPS - TTBP) Final Report

    SciTech Connect

    Chame, Jacqueline

    2011-05-27

    The goal of this project is the development of the Gyrokinetic Toroidal Code (GTC) Framework and its applications to problems related to the physics of turbulence and turbulent transport in tokamaks,. The project involves physics studies, code development, noise effect mitigation, supporting computer science efforts, diagnostics and advanced visualizations, verification and validation. Its main scientific themes are mesoscale dynamics and non-locality effects on transport, the physics of secondary structures such as zonal flows, and strongly coherent wave-particle interaction phenomena at magnetic precession resonances. Special emphasis is placed on the implications of these themes for rho-star and current scalings and for the turbulent transport of momentum. GTC-TTBP also explores applications to electron thermal transport, particle transport; ITB formation and cross-cuts such as edge-core coupling, interaction of energetic particles with turbulence and neoclassical tearing mode trigger dynamics. Code development focuses on major initiatives in the development of full-f formulations and the capacity to simulate flux-driven transport. In addition to the full-f -formulation, the project includes the development of numerical collision models and methods for coarse graining in phase space. Verification is pursued by linear stability study comparisons with the FULL and HD7 codes and by benchmarking with the GKV, GYSELA and other gyrokinetic simulation codes. Validation of gyrokinetic models of ion and electron thermal transport is pursed by systematic stressing comparisons with fluctuation and transport data from the DIII-D and NSTX tokamaks. The physics and code development research programs are supported by complementary efforts in computer sciences, high performance computing, and data management.

  18. Turbulent transport of MeV range cyclotron heated minorities as compared to alpha particles

    NASA Astrophysics Data System (ADS)

    Pusztai, István; Wilkie, George J.; Kazakov, Yevgen O.; Fülöp, Tünde

    2016-11-01

    We study the turbulent transport of an ion cyclotron resonance heated (ICRH), MeV range minority ion species in tokamak plasmas. Such highly energetic minorities, which can be produced in the three ion minority heating scheme (Kazakov et al (2015) Nucl. Fusion 55 032001), have been proposed to be used to experimentally study the confinement properties of fast ions without the generation of fusion alphas. We compare the turbulent transport properties of ICRH ions with that of fusion born alpha particles. Our theoretical predictions indicate that care must be taken when conclusions are drawn from experimental results: while the effect of turbulence on these particles is similar in terms of transport coefficients, differences in their distribution functions—ultimately their generation processes—make the resulting turbulent fluxes different.

  19. Plutonium-238 observations as a test of modeled transport and surface deposition of meteoric smoke particles

    NASA Astrophysics Data System (ADS)

    Dhomse, S. S.; Saunders, R. W.; Tian, W.; Chipperfield, M. P.; Plane, J. M. C.

    2013-08-01

    are large uncertainties in the transport and surface deposition of upper atmospheric particles used to construct climate proxies. Here we use a 3-D chemistry-climate model (CCM) to simulate the transport and deposition of plutonium-238 oxide nanoparticles formed after the ablation of a power unit in the upper stratosphere (~11°S) in 1964. The model reproduces both the observed hemispheric asymmetry and time scale of Pu-238 deposition. We then use the CCM to investigate the transport of meteoric smoke particles (MSPs) from the upper mesosphere. The strongest MSP deposition is predicted to occur at middle latitudes, providing a significant source of Fe fertilization to the Southern Ocean. The model also predicts substantially more deposition in Greenland than in Antarctica (by a factor of ~15, in agreement with ice core measurements), showing that climate proxy measurements from a limited number of sites must be interpreted with care.

  20. PARTICLE TRANSPORTATION AND DEPOSITION IN HOT GAS FILTER VESSELS - A COMPUTATIONAL AND EXPERIMENTAL MODELING APPROACH

    SciTech Connect

    Goodarz Ahmadi

    2002-07-01

    In this project, a computational modeling approach for analyzing flow and ash transport and deposition in filter vessels was developed. An Eulerian-Lagrangian formulation for studying hot-gas filtration process was established. The approach uses an Eulerian analysis of gas flows in the filter vessel, and makes use of the Lagrangian trajectory analysis for the particle transport and deposition. Particular attention was given to the Siemens-Westinghouse filter vessel at Power System Development Facility in Wilsonville in Alabama. Details of hot-gas flow in this tangential flow filter vessel are evaluated. The simulation results show that the rapidly rotation flow in the spacing between the shroud and the vessel refractory acts as cyclone that leads to the removal of a large fraction of the larger particles from the gas stream. Several alternate designs for the filter vessel are considered. These include a vessel with a short shroud, a filter vessel with no shroud and a vessel with a deflector plate. The hot-gas flow and particle transport and deposition in various vessels are evaluated. The deposition patterns in various vessels are compared. It is shown that certain filter vessel designs allow for the large particles to remain suspended in the gas stream and to deposit on the filters. The presence of the larger particles in the filter cake leads to lower mechanical strength thus allowing for the back-pulse process to more easily remove the filter cake. A laboratory-scale filter vessel for testing the cold flow condition was designed and fabricated. A laser-based flow visualization technique is used and the gas flow condition in the laboratory-scale vessel was experimental studied. A computer model for the experimental vessel was also developed and the gas flow and particle transport patterns are evaluated.

  1. Modeling Bimolecular Reactions and Transport in Porous Media Via Particle Tracking

    SciTech Connect

    Dong Ding; David Benson; Amir Paster; Diogo Bolster

    2012-01-01

    We use a particle-tracking method to simulate several one-dimensional bimolecular reactive transport experiments. In this numerical method, the reactants are represented by particles: advection and dispersion dominate the flow, and molecular diffusion dictates, in large part, the reactions. The particle/particle reactions are determined by a combination of two probabilities dictated by the physics of transport and energetics of reaction. The first is that reactant particles occupy the same volume over a short time interval. The second is the conditional probability that two collocated particles favorably transform into a reaction. The first probability is a direct physical representation of the degree of mixing in an advancing displacement front, and as such lacks empirical parameters except for the user-defined number of particles. This number can be determined analytically from concentration autocovariance, if this type of data is available. The simulations compare favorably to two physical experiments. In one, the concentration of product, 1,2-naphthoquinoe-4-aminobenzene (NQAB) from reaction between 1,2-naphthoquinone-4-sulfonic acid (NQS) and aniline (AN), was measured at the outflow of a column filled with glass beads at different times. In the other, the concentration distribution of reactants (CuSO_4 and EDTA^{4-}) and products (CuEDTA^{4-}) were quantified by snapshots of transmitted light through a column packed with cryloite sand. The thermodynamic rate coefficient in the latter experiment was 10^7 times greater than the former experiment, making it essentially instantaneous. When compared to the solution of the advection-dispersion-reaction equation (ADRE) with the well-mixed reaction coefficient, the experiments and the particle-tracking simulations showed on the order of 20% to 40% less overall product, which is attributed to poor mixing. The poor mixing also leads to higher product concentrations on the edges of the mixing zones, which the particle

  2. An automated variance reduction method for global Monte Carlo neutral particle transport problems

    NASA Astrophysics Data System (ADS)

    Cooper, Marc Andrew

    A method to automatically reduce the variance in global neutral particle Monte Carlo problems by using a weight window derived from a deterministic forward solution is presented. This method reduces a global measure of the variance of desired tallies and increases its associated figure of merit. Global deep penetration neutron transport problems present difficulties for analog Monte Carlo. When the scalar flux decreases by many orders of magnitude, so does the number of Monte Carlo particles. This can result in large statistical errors. In conjunction with survival biasing, a weight window is employed which uses splitting and Russian roulette to restrict the symbolic weights of Monte Carlo particles. By establishing a connection between the scalar flux and the weight window, two important concepts are demonstrated. First, such a weight window can be constructed from a deterministic solution of a forward transport problem. Also, the weight window will distribute Monte Carlo particles in such a way to minimize a measure of the global variance. For Implicit Monte Carlo solutions of radiative transfer problems, an inefficient distribution of Monte Carlo particles can result in large statistical errors in front of the Marshak wave and at its leading edge. Again, the global Monte Carlo method is used, which employs a time-dependent weight window derived from a forward deterministic solution. Here, the algorithm is modified to enhance the number of Monte Carlo particles in the wavefront. Simulations show that use of this time-dependent weight window significantly improves the Monte Carlo calculation.

  3. Modeling transport of energetic particles in corotating interaction regions: A case study

    NASA Astrophysics Data System (ADS)

    Zhao, Lulu; Li, Gang; Ebert, R. W.; Dayeh, M. A.; Desai, M. I.; Mason, G. M.; Wu, Z.; Chen, Y.

    2016-01-01

    We investigate energetic particle transport in corotating interaction regions (CIRs) through a case study. The CIR event we study occurred on 8 February 2008 and was observed by both the Advanced Composition Explorer (ACE) and the twin Solar TErrestrial RElations Observatory (STEREO) B spacecraft. An in situ reverse shock was observed by STEREO B (1.0 AU) but not ACE (0.98 AU). Using STEREO B observations and assuming the CIR structure does not vary significantly in the corotating frame, we estimate the shock location at later times for both the STEREO B and ACE observations. Further assuming the accelerated particle spectral shape at the shock does not vary with shock location, we calculate the particle differential intensities as observed by ACE and STEREO B at two different times by solving the focused transport equation using a Monte Carlo simulation. We assume that particles move along Parker's field and experience no cross-field diffusion. We find that the modulation of sub-MeV/nucleon particles is significant. To obtain reasonable comparisons between the simulations and the observations by both ACE and STEREO B, one has to assume that the CIR shock can accelerate more particles at a larger heliocentric distance than at a smaller heliocentric distance.

  4. Zeta potential of clay-size particles in urban rainfall runoff during hydrologic transport

    NASA Astrophysics Data System (ADS)

    Kim, Jong-Yeop; Sansalone, John J.

    2008-07-01

    SummaryUrban rainfall-runoff transports a wide spectrum of anthropogenic aqueous complexes and particulate matter (PM). Zeta potential (ξ) as an electrostatic parameter provides an index of destabilization for clay-size particles (<2 μm) transported during hydrologic processes including passage of the runoff hydrograph. However, ξ of PM in urban rainfall-runoff has rarely been studied due to the dynamic and complex hydrologic, physical and chemical nature of rainfall-runoff systems. This study examined a series of rainfall-runoff events captured from a paved source area catchment in Baton Rouge, LA to characterize ξ of clay-size particles. The ξ of clay-size particles was also examined as a function of hydrologic transport with coupled water chemistry variables. Study results indicated that ξ varied from approximately -15 to -30 mV across the hydrograph of each event and generally mimicked the runoff intensity during hydrologic transport. Hydrologic transport results indicate while ξ was inversely correlated to the hydrograph flow rate, this inverse correlation was a function of variations in water chemistry parameters (pH and ionic strength); parameters that were driven by hydrologic flow rate. For each event ξ exhibited hysteretic trends as a function of rainfall-runoff ionic strength and pH during the passage of the hydrograph. Results demonstrate that hydrologic transport played an important role driving both water chemistry and ξ trends for clay-size particles; as well as treatment behavior of rainfall-runoff unit operations and processes.

  5. Transport and dispersion of fluorescent tracer particles for the dune-bed condition, Atrisco Feeder Canal near Bernalillo, New Mexico

    USGS Publications Warehouse

    Rathbun, R.E.; Kennedy, Vance C.

    1978-01-01

    A fluorescent tracer technique was used to study the rates of transport and dispersion of sediment particles of various diameters and specific gravities for a dune-bed condition in an alluvial channel, Atrisco Feeder Canal near Bernalillo, N. Mex. The total transport rates of bed material measured by the steady-dilution and spatial-integration procedures were within the range of transport rates computed by the modified Einstein procedure. Lateral dispersion of the tracer particles increased with increase in the size of the tracer particles, whereas longitudinal dispersion decreased. The velocities of the tracer particles decreased with increase in the size of the tracer particles; dependence on particle diameter was large for the small particles, small for the large particles. Tracers were found at larger depths in the bed than would be expected on the basis of the sizes of the dunes in the channel. (Woodard-USGS)

  6. Effect of natural particles on the transport of lindane in saturated porous media: Laboratory experiments and model-based analysis

    NASA Astrophysics Data System (ADS)

    Ngueleu, Stéphane K.; Grathwohl, Peter; Cirpka, Olaf A.

    2013-06-01

    Colloidal particles can act as carriers for adsorbing pollutants, such as hydrophobic organic pollutants, and enhance their mobility in the subsurface. In this study, we investigate the influence of colloidal particles on the transport of pesticides through saturated porous media by column experiments. We also investigate the effect of particle size on this transport. The model pesticide is lindane (gamma-hexachlorocyclohexane), a representative hydrophobic insecticide which has been banned in 2009 but is still used in many developing countries. The breakthrough curves are analyzed with the help of numerical modeling, in which we examine the minimum model complexity needed to simulate such transport. The transport of lindane without particles can be described by advective-dispersive transport coupled to linear three-site sorption, one site being in local equilibrium and the others undergoing first-order kinetic sorption. In the presence of mobile particles, the total concentration of mobile lindane is increased, that is, lindane is transported not only in aqueous solution but also sorbed onto the smallest, mobile particles. The models developed to simulate separate and associated transport of lindane and the particles reproduced the measurements very well and showed that the adsorption/desorption of lindane to the particles could be expressed by a common first-order rate law, regardless whether the particles are mobile, attached, or strained.

  7. A generalized mass transfer law unifying various particle transport mechanisms in dilute dispersions

    NASA Astrophysics Data System (ADS)

    Guha, Abhijit

    2008-09-01

    A generalized mass transfer law for dilute dispersion of particles (or droplets) of any sizes suspended in a fluid has been described, which can be applied to turbulent or laminar flow. The generalized law reduces to the Fick’s law of diffusion in the limit of very small particles. Thus the study shows how the well-known and much-used Fick’s law of diffusion fits into the broader context of particle transport. The general expression for particle flux comprises a diffusive flux due to Brownian motion and turbulent fluctuation, a diffusive flux due to temperature gradient (thermophoresis plus stressphoresis) and a convective flux that arises primarily due to the interaction of particle inertia and the inhomogeneity of the fluid turbulence field (turbophoresis). Shear-induced lift force, electrical force, gravity, etc. also contribute to the convective flux. The present study includes the effects of surface roughness, and the calculations show that the presence of small surface roughness even in the hydraulically smooth regime significantly enhances deposition especially of small particles. Thermophoresis can have equally strong effects, even with a modest temperature difference between the wall and the bulk fluid. For particles of the intermediate size range, turbophoresis, thermophoresis and roughness are all important contributors to the overall deposition rate. The paper includes a parametric study of the effects of electrostatic forces due to mirror charging. The present work provides a unified framework to determine the combined effect of various particle transport mechanisms on mass transfer rate and the inclusion of other mechanisms not considered in this paper is possible.

  8. Particle Deformation and Concentration Polarization in Electroosmotic Transport of Hydrogels through Pores

    SciTech Connect

    Vlassiouk, Ivan V

    2013-01-01

    In this article, we report detection of deformable, hydrogel particles by the resistive-pulse technique using single pores in a polymer film. The hydrogels pass through the pores by electroosmosis and cause formation of a characteristic shape of resistive pulses indicating the particles underwent dehydration and deformation. These effects were explained via a non-homogeneous pressure distribution along the pore axis modeled by the coupled Poisson-Nernst-Planck and Navier Stokes equations. The local pressure drops are induced by the electroosmotic fluid flow. Our experiments also revealed the importance of concentration polarization in the detection of hydrogels. Due to the negative charges as well as branched, low density structure of the hydrogel particles, concentration of ions in the particles is significantly higher than in the bulk. As a result, when electric field is applied across the membrane, a depletion zone can be created in the vicinity of the particle observed as a transient drop of the current. Our experiments using pores with openings between 200 and 1600 nm indicated the concentration polarization dominated the hydrogels detection for pores wider than 450 nm. The results are of importance for all studies that involve transport of molecules, particles and cells through pores with charged walls. The developed inhomogeneous pressure distribution can potentially influence the shape of the transported species. The concentration polarization changes the interpretation of the resistive pulses; the observed current change does not necessarily reflect only the particle size but also the size of the depletion zone that is formed in the particle vicinity.

  9. Turbulent particle transport in streams: can exponential settling be reconciled with fluid mechanics?

    PubMed

    McNair, James N; Newbold, J Denis

    2012-05-01

    Most ecological studies of particle transport in streams that focus on fine particulate organic matter or benthic invertebrates use the Exponential Settling Model (ESM) to characterize the longitudinal pattern of particle settling on the bed. The ESM predicts that if particles are released into a stream, the proportion that have not yet settled will decline exponentially with transport time or distance and will be independent of the release elevation above the bed. To date, no credible basis in fluid mechanics has been established for this model, nor has it been rigorously tested against more-mechanistic alternative models. One alternative is the Local Exchange Model (LEM), which is a stochastic advection-diffusion model that includes both longitudinal and vertical spatial dimensions and is based on classical fluid mechanics. The LEM predicts that particle settling will be non-exponential in the near field but will become exponential in the far field, providing a new theoretical justification for far-field exponential settling that is based on plausible fluid mechanics. We review properties of the ESM and LEM and compare these with available empirical evidence. Most evidence supports the prediction of both models that settling will be exponential in the far field but contradicts the ESM's prediction that a single exponential distribution will hold for all transport times and distances.

  10. Properties of the S(N)-equivalent integral transport operator and the iterative acceleration of neutral particle transport methods

    NASA Astrophysics Data System (ADS)

    Rosa, Massimiliano

    We have derived expressions for the elements of the matrix representing a certain angular (SN) and spatial discretized form of the neutron integral transport operator. This is the transport operator that if directly inverted on the once-collided fixed particle source produces, without the need for an iterative procedure, the converged limit of the scalar fluxes for the iterative procedure. The asymptotic properties of this operator's elements have then been investigated in homogeneous and periodically heterogeneous limits in one-dimensional and two-dimensional geometries. The thesis covers the results obtained from this asymptotic study of the matrix structure of the discrete integral transport operator and illustrates how they relate to the iterative acceleration of neutral particle transport methods. Specifically, it will be shown that in one-dimensional problems (both homogeneous and periodically heterogeneous) and homogeneous two-dimensional problems, containing optically thick cells, the discrete integral transport operator acquires a sparse matrix structure, implying a strong local coupling of a cell-averaged scalar flux only with its nearest Cartesian neighbors. These results provide further insight into the excellent convergence properties of diffusion-based acceleration schemes for this broad class of transport problems. In contrast, the results of the asymptotic analysis for two-dimensional periodically heterogeneous problems point to a sparse but non-local matrix structure due to long-range coupling of a cell's average flux with its neighboring cells, independent of the distance between the cells in the spatial mesh. The latter results indicate that cross-derivative coupling, namely coupling of a cell's average flux to its diagonal neighbors, is of the same order as self-coupling and coupling with its first Cartesian neighbors. Hence they substantiate the conjecture that the loss of robustness of diffusion-based acceleration schemes, in particular of the

  11. Collection and analysis of colloidal particles transported in the Mississippi River, U.S.A.

    USGS Publications Warehouse

    Rees, T.F.; Ranville, J.F.

    1990-01-01

    Sediment transport has long been recognized as an important mechanism for the transport of contaminants in surface waters. Suspended sediment has traditionally been divided into three size classes: sand-sized (>63 ??m), silt-sized ( 63 ??m), silt-sized (< 63 ??m but settleable) and clay-sized (non-settleable). The first two classes are easily collected and characterized using screens (sand) and settling (silt). The clay-sized particles, more properly called colloids, are more difficult to collect and characterize, and until recently received little attention. From the hydrologic perspective, a colloid is a particle, droplet, or gas bubble with at least one dimension between 0.001 and 1 ??m. Because of their small size, colloids have large specific surface areas and high surface free energies which may facilitate sorption of hydrophobic materials. Understanding what types of colloids are present in a system, how contaminants of interest interact with these colloids, and what parameters control the transport of colloids in natural systems is critical if the relative importance of colloid-mediated transport is to be understood. This paper describes the collection, concentration and characterization of colloidal materials in the Mississippi River. Colloid concentrations, particle-size distributions, mineral composition and electrophoretic mobilities were determined. Techniques used are illustrated with samples collected at St. Louis, Missouri, U.S.A.

  12. Silver (Ag) Transport Mechanisms in TRISO coated particles: A Critical Review

    SciTech Connect

    I J van Rooyen; J H Neethling; J A A Engelbrecht; P M van Rooyen; G Strydom

    2012-10-01

    Transport of 110mAg in the intact SiC layer of TRISO coated particles has been studied for approximately 30 years without arriving at a satisfactory explanation of the transport mechanism. In this paper the possible mechanisms postulated in previous experimental studies, both in-reactor and out-of reactor research environment studies are critically reviewed and of particular interest are relevance to very high temperature gas reactor operating and accident conditions. Among the factors thought to influence Ag transport are grain boundary stoichiometry, SiC grain size and shape, the presence of free silicon, nano-cracks, thermal decomposition, palladium attack, transmutation products, layer thinning and coated particle shape. Additionally new insight to nature and location of fission products has been gained via recent post irradiation electron microscopy examination of TRISO coated particles from the DOE’s fuel development program. The combined effect of critical review and new analyses indicates a direction for investigating possible the Ag transport mechanism including the confidence level with which these mechanisms may be experimentally verified.

  13. Bacterial Composition and Survival on Sahara Dust Particles Transported to the European Alps.

    PubMed

    Meola, Marco; Lazzaro, Anna; Zeyer, Josef

    2015-01-01

    Deposition of Sahara dust (SD) particles is a frequent phenomenon in Europe, but little is known about the viability and composition of the bacterial community transported with SD. The goal of this study was to characterize SD-associated bacteria transported to the European Alps, deposited and entrapped in snow. During two distinct events in February and May 2014, SD particles were deposited and promptly covered by falling snow, thus preserving them in distinct ochre layers within the snowpack. In June 2014, we collected samples at different depths from a snow profile at the Jungfraujoch (Swiss Alps; 3621 m a.s.l.). After filtration, we performed various microbiological and physicochemical analyses of the snow and dust particles therein that originated in Algeria. Our results show that bacteria survive and are metabolically active after the transport to the European Alps. Using high throughput sequencing, we observed distinct differences in bacterial community composition and structure in SD-layers as compared to clean snow layers. Sporulating bacteria were not enriched in the SD-layers; however, phyla with low abundance such as Gemmatimonadetes and Deinococcus-Thermus appeared to be specific bio-indicators for SD. Since many members of these phyla are known to be adapted to arid oligotrophic environments and UV radiation, they are well suited to survive the harsh conditions of long-range airborne transport. PMID:26733988

  14. The Roles of Transport and Wave-Particle Interactions on Radiation Belt Dynamics

    NASA Technical Reports Server (NTRS)

    Fok, Mei-Ching; Glocer, Alex; Zheng, Qiuhua

    2011-01-01

    Particle fluxes in the radiation belts can vary dramatically during geomagnetic active periods. Transport and wave-particle interactions are believed to be the two main types of mechanisms that control the radiation belt dynamics. Major transport processes include substorm dipolarization and injection, radial diffusion, convection, adiabatic acceleration and deceleration, and magnetopause shadowing. Energetic electrons and ions are also subjected to pitch-angle and energy diffusion when interact with plasma waves in the radiation belts. Important wave modes include whistler mode chorus waves, plasmaspheric hiss, electromagnetic ion cyclotron waves, and magnetosonic waves. We investigate the relative roles of transport and wave associated processes in radiation belt variations. Energetic electron fluxes during several storms are simulated using our Radiation Belt Environment (RBE) model. The model includes important transport and wave processes such as substorm dipolarization in global MHD fields, chorus waves, and plasmaspheric hiss. We discuss the effects of these competing processes at different phases of the storms and validate the results by comparison with satellite and ground-based observations. Keywords: Radiation Belts, Space Weather, Wave-Particle Interaction, Storm and Substorm

  15. Bacterial Composition and Survival on Sahara Dust Particles Transported to the European Alps

    PubMed Central

    Meola, Marco; Lazzaro, Anna; Zeyer, Josef

    2015-01-01

    Deposition of Sahara dust (SD) particles is a frequent phenomenon in Europe, but little is known about the viability and composition of the bacterial community transported with SD. The goal of this study was to characterize SD-associated bacteria transported to the European Alps, deposited and entrapped in snow. During two distinct events in February and May 2014, SD particles were deposited and promptly covered by falling snow, thus preserving them in distinct ochre layers within the snowpack. In June 2014, we collected samples at different depths from a snow profile at the Jungfraujoch (Swiss Alps; 3621 m a.s.l.). After filtration, we performed various microbiological and physicochemical analyses of the snow and dust particles therein that originated in Algeria. Our results show that bacteria survive and are metabolically active after the transport to the European Alps. Using high throughput sequencing, we observed distinct differences in bacterial community composition and structure in SD-layers as compared to clean snow layers. Sporulating bacteria were not enriched in the SD-layers; however, phyla with low abundance such as Gemmatimonadetes and Deinococcus-Thermus appeared to be specific bio-indicators for SD. Since many members of these phyla are known to be adapted to arid oligotrophic environments and UV radiation, they are well suited to survive the harsh conditions of long-range airborne transport. PMID:26733988

  16. Chemical transport associated with discharge of contaminated fine particles to a steady open-channel flow

    NASA Astrophysics Data System (ADS)

    Ng, Chiu-On

    2000-01-01

    In this paper, an analytical study on the advective-dispersive transport of a chemical contaminant resulting from the discharge of contaminated fine solid particles into a two-dimensional, steady and uniform turbulent open-channel flow is presented. Because of sorptive exchange, the transport of the chemical cloud is affected by that of the suspended particulates. Such a relationship has so far not been explicitly established by intuitive arguments. The effective transport equations are formally derived by an extended method of homogenization. It is found that over a long time scale the fall velocity will delay the sediment advection, and the advection velocity and dispersion coefficient for the chemical transport will change with space and time according to the local sediment concentration. Numerical results confirm that the centers of mass of the sediment and dissolved phase clouds are not advancing at the same speed, and the dispersion of the chemical is enhanced by the local retardation factor.

  17. Studies of HZE particle interactions and transport for space radiation protection purposes

    NASA Technical Reports Server (NTRS)

    Townsend, Lawrence W.; Wilson, John W.; Schimmerling, Walter; Wong, Mervyn

    1987-01-01

    The main emphasis is on developing general methods for accurately predicting high-energy heavy ion (HZE) particle interactions and transport for use by researchers in mission planning studies, in evaluating astronaut self-shielding factors, and in spacecraft shield design and optimization studies. The two research tasks are: (1) to develop computationally fast and accurate solutions to the Boltzmann (transport) equation; and (2) to develop accurate HZE interaction models, from fundamental physical considerations, for use as inputs into these transport codes. Accurate solutions to the HZE transport problem have been formulated through a combination of analytical and numerical techniques. In addition, theoretical models for the input interaction parameters are under development: stopping powers, nuclear absorption cross sections, and fragmentation parameters.

  18. PHITS-2.76, Particle and Heavy Ion Transport code System

    SciTech Connect

    2015-08-01

    Version 03 PHITS can deal with the transport of almost all particles (nucleons, nuclei, mesons, photons, and electrons) over wide energy ranges, using several nuclear reaction models and nuclear data libraries. Geometrical configuration of the simulation can be set with GG (General Geometry) or CG (Combinatorial Geometry). Various quantities such as heat deposition, track length and production yields can be deduced from the simulation, using implemented estimator functions called "tally". The code also has a function to draw 2D and 3D figures of the calculated results as well as the setup geometries, using a code ANGEL. The physical processes included in PHITS can be divided into two categories, transport process and collision process. In the transport process, PHITS can simulate motion of particles under external fields such as magnetic and gravity. Without the external fields, neutral particles move along a straight trajectory with constant energy up to the next collision point. However, charge particles interact many times with electrons in the material losing energy and changing direction. PHITS treats ionization processes not as collision but as a transport process, using the continuous-slowing-down approximation. The average stopping power is given by the charge density of the material and the momentum of the particle taking into account the fluctuations of the energy loss and the angular deviation. In the collision process, PHITS can simulate the elastic and inelastic interactions as well as decay of particles. The total reaction cross section, or the life time of the particle is an essential quantity in the determination of the mean free path of the transport particle. According to the mean free path, PHITS chooses the next collision point using the Monte Carlo method. To generate the secondary particles of the collision, we need the information of the final states of the collision. For neutron induced reactions in low energy region, PHITS employs the cross

  19. PHITS-2.76, Particle and Heavy Ion Transport code System

    2015-08-01

    Version 03 PHITS can deal with the transport of almost all particles (nucleons, nuclei, mesons, photons, and electrons) over wide energy ranges, using several nuclear reaction models and nuclear data libraries. Geometrical configuration of the simulation can be set with GG (General Geometry) or CG (Combinatorial Geometry). Various quantities such as heat deposition, track length and production yields can be deduced from the simulation, using implemented estimator functions called "tally". The code also has amore » function to draw 2D and 3D figures of the calculated results as well as the setup geometries, using a code ANGEL. The physical processes included in PHITS can be divided into two categories, transport process and collision process. In the transport process, PHITS can simulate motion of particles under external fields such as magnetic and gravity. Without the external fields, neutral particles move along a straight trajectory with constant energy up to the next collision point. However, charge particles interact many times with electrons in the material losing energy and changing direction. PHITS treats ionization processes not as collision but as a transport process, using the continuous-slowing-down approximation. The average stopping power is given by the charge density of the material and the momentum of the particle taking into account the fluctuations of the energy loss and the angular deviation. In the collision process, PHITS can simulate the elastic and inelastic interactions as well as decay of particles. The total reaction cross section, or the life time of the particle is an essential quantity in the determination of the mean free path of the transport particle. According to the mean free path, PHITS chooses the next collision point using the Monte Carlo method. To generate the secondary particles of the collision, we need the information of the final states of the collision. For neutron induced reactions in low energy region, PHITS employs

  20. Transport and deposition of pharmaceutical particles in three commercial spacer-MDI combinations.

    PubMed

    Yazdani, A; Normandie, M; Yousefi, M; Saidi, M S; Ahmadi, G

    2014-11-01

    Respiratory drug delivery has been under the research spotlight for the past few decades, mainly due to the high incidence of pulmonary diseases and the fact that this type of delivery offers the highest efficiency for treatment. Despite its invaluable benefits, there are some major drawbacks to respiratory drug delivery, the most important of which being poor delivery efficiency and relatively high drug deposition in undesirable regions, such as the mouth cavity. One way to improve the efficiency of respiratory drug delivery with metered-dose inhalers is placing a respiratory spacer between the inhaler exit and the mouth. It is argued that high drug deposition in the immediate airways of the respiratory system is strongly affected by relatively high initial momentum of pharmaceutical particles leaving the inhaler. A respiratory spacer, however, can provide an expansion region in which the initial momentum of particles can subside. As a result, particles enter the patient׳s oral cavity more gradually and are more likely to reach the desired regions. In this study, the effectiveness of using three commercial spacers paired with a commercial inhaler is examined through numerical investigation of fluid flow and particle transport phenomena. Particles ranging from 1 to 50 µm in diameter are tracked using a Lagrangian point of view and fluid flow fields are resolved using the LRN k-ω turbulence model. A novel particle injection method is introduced and is demonstrated to be able to adequately capture the effects of particle initial momentum. Lastly, a few design suggestions are made.

  1. Percolation and particle transport in the unsaturated zone of a karst aquifer.

    PubMed

    Pronk, Michiel; Goldscheider, Nico; Zopfi, Jakob; Zwahlen, Francxois

    2009-01-01

    Recharge and contamination of karst aquifers often occur via the unsaturated zone, but the functioning of this zone has not yet been fully understood. Therefore, irrigation and tracer experiments, along with monitoring of rainfall events, were used to examine water percolation and the transport of solutes, particles, and fecal bacteria between the land surface and a water outlet into a shallow cave. Monitored parameters included discharge, electrical conductivity, temperature, organic carbon, turbidity, particle-size distribution (PSD), fecal indicator bacteria, chloride, bromide, and uranine. Percolation following rainfall or irrigation can be subdivided into a lag phase (no response at the outlet), a piston-flow phase (release of epikarst storage water by pressure transfer), and a mixed-flow phase (increasing contribution of freshly infiltrated water), starting between 20 min and a few hours after the start of recharge event. Concerning particle and bacteria transport, results demonstrate that (1) a first turbidity signal occurs during increasing discharge due to remobilization of particles from fractures (pulse-through turbidity); (2) a second turbidity signal is caused by direct particle transfer from the soil (flow-through turbidity), often accompanied by high levels of fecal indicator bacteria, up to 17,000 Escherichia coli/100 mL; and (3) PSD allows differentiation between the two types of turbidity. A relative increase of fine particles (0.9 to 1.5 microm) coincides with microbial contamination. These findings help quantify water storage and percolation in the epikarst and better understand contaminant transport and attenuation. The use of PSD as "early-warning parameter" for microbial contamination in karst water is confirmed.

  2. Particle and energy transport studies on TFTR and implications for helium ash in future fusion devices

    SciTech Connect

    Synakowski, E.J.; Efthimion, P.C.; Rewoldt, G.; Stratton, B.C.; Tang, W.M.; Bell, R.E.; Grek, B.; Hulse, R.A.; Johnson, D.W.; Hill, K.W.; Mansfield, D.K.; McCune, D.; Mikkelsen, D.R.; Park, H.K.; Ramsey, A.T.; Scott, S.D.; Taylor, G.; Timberlake, J.; Zarnstorff, M.C.

    1993-03-01

    Local thermal particle and energy transport studies of balanced-injection L-mode and Supershot deuterium plasmas with the same toroidal field, plasma current, and neutral beam heating power have been performed on TFTR. The particle transport of He{sup 2+} and electrons following a small helium gas puff and Fe{sup 24+} induced by laser ablation has been examined and compared to the local energy transport characteristics inferred from power balance analysis. All particle perturbation diffusivities are radially hollow and are similar in magnitude and shape to the effective thermal conductivities found by power balance analysis. All particle diffusivities are 1--2 orders of magnitude larger than neoclassical values, except near the magnetic axis. A reduction in the helium diffusivity D{sub He} in the Supershot as compared to the L-mode is accompanied by a similar reduction in the effective single fluid thermal conductivity {chi}fluid. Also, the helium core convective velocity V{sub He} is found to increase in the Supershot over the L-Mode for r/a < 0.5. A quasilinear model of electrostatic drift waves has been used to calculate ratios between particle and energy fluxes in the Supershot. The measured ratios of the helium and iron particle diffusivities are in good accord with predictions, as are predicted ratios of V{sub He}/D{sub He}. Modelling indicates that the similarity in magnitude and profile shape of D{sub He} and {chi}fluid has generally favorable implications for helium ash content in a future fusion reactor. The core convection found in the Supershot increases the helium concentration on axis but does not reduce the plasma reactivity significantly.

  3. Particle and energy transport studies on TFTR and implications for helium ash in future fusion devices

    SciTech Connect

    Synakowski, E.J.; Efthimion, P.C.; Rewoldt, G.; Stratton, B.C.; Tang, W.M.; Bell, R.E.; Grek, B.; Hulse, R.A.; Johnson, D.W.; Hill, K.W.; Mansfield, D.K.; McCune, D.; Mikkelsen, D.R.; Park, H.K.; Ramsey, A.T.; Scott, S.D.; Taylor, G.; Timberlake, J.; Zarnstorff, M.C.

    1993-03-01

    Local thermal particle and energy transport studies of balanced-injection L-mode and Supershot deuterium plasmas with the same toroidal field, plasma current, and neutral beam heating power have been performed on TFTR. The particle transport of He[sup 2+] and electrons following a small helium gas puff and Fe[sup 24+] induced by laser ablation has been examined and compared to the local energy transport characteristics inferred from power balance analysis. All particle perturbation diffusivities are radially hollow and are similar in magnitude and shape to the effective thermal conductivities found by power balance analysis. All particle diffusivities are 1--2 orders of magnitude larger than neoclassical values, except near the magnetic axis. A reduction in the helium diffusivity D[sub He] in the Supershot as compared to the L-mode is accompanied by a similar reduction in the effective single fluid thermal conductivity [chi]fluid. Also, the helium core convective velocity V[sub He] is found to increase in the Supershot over the L-Mode for r/a < 0.5. A quasilinear model of electrostatic drift waves has been used to calculate ratios between particle and energy fluxes in the Supershot. The measured ratios of the helium and iron particle diffusivities are in good accord with predictions, as are predicted ratios of V[sub He]/D[sub He]. Modelling indicates that the similarity in magnitude and profile shape of D[sub He] and [chi]fluid has generally favorable implications for helium ash content in a future fusion reactor. The core convection found in the Supershot increases the helium concentration on axis but does not reduce the plasma reactivity significantly.

  4. Measurements and modeling of deposited particle transport by foot traffic indoors.

    PubMed

    Sippola, Mark R; Sextro, Richard G; Thatcher, Tracy L

    2014-04-01

    Deposited particles are transported into and within buildings by adhering to and releasing from people's shoes. To better understand transport of deposited particulate contaminants and exposures to these materials, experimental data on tracking by foot traffic are needed. Laboratory experiments measured uptake and downlay mass transfer efficiencies of particles between shoes and floors in a step-simulation chamber. Equilibrium uptake transfer fractions, the net mass fraction transferred from floors to shoes after several steps, were also measured. Single-step uptake and downlay transfer efficiencies ranged from 0.02 to 0.22 and equilibrium uptake transfer fractions were 0.10-0.40. Particle size, particle loading, shoe type, floor type, step pressure, and step sequence were all investigated. Experiments demonstrated that single-step downlay transfer efficiencies decrease with each successive step onto clean floors. A simple empirical model is proposed to estimate these transfers as a function of step number. Simulations using the transfer efficiency values measured here illustrate the spread of deposited particles by people walking in a hypothetical hallway. These simulations show that in locations where a few people walk over the same area each minute, tracking can spread deposited material over length scales comparable to building dimensions in just a few hours.

  5. Discrete particle model for bedload sediment transport in the surf zone

    NASA Astrophysics Data System (ADS)

    Calantoni, Joseph

    2002-04-01

    Predicting the evolution of nearshore bathymetry from the highest uprush of the swash offshore to the location of wave breaking is a difficult problem of significant importance, with economic, legal, engineering, scientific, and military implications for coastal environments. Despite the apparent accessibility of the phenomena of interest, namely, the motion of sand under the forcing of waves and currents, the predictive capability of existing models for nearshore evolution is poor. A detailed study of the forces exerted on individual sand grains is undertaken in an effort to elucidate sediment transport mechanisms in the surf zone. New results indicate that fluid acceleration is a particularly important feature of surf zone transport; likewise, the processes of particle size segregation and the role of particle shape are newly explored. The study methodology employs computer simulations that describe the collective and individual motions of discrete particles immersed in a Newtonian fluid having essentially arbitrary density and viscosity. In this study all particle properties are those of quartz sand, and the fluid properties correspond to saltwater at 20°C. Such discrete-particle models, having a basis in molecular dynamics studies, have a broad range of applications in addition to the sedimentological one of interest here; for example, similar methodologies have been applied to traffic flow, schooling fish, crowd control, and other problems in which the particulate nature of the phenomenon is of critical importance.

  6. Advances and future needs in particle production and transport code developments

    SciTech Connect

    Mokhov, N.V.; /Fermilab

    2009-12-01

    The next generation of accelerators and ever expanding needs of existing accelerators demand new developments and additions to Monte-Carlo codes, with an emphasis on enhanced modeling of elementary particle and heavy-ion interactions and transport. Challenges arise from extremely high beam energies and beam power, increasing complexity of accelerators and experimental setups, as well as design, engineering and performance constraints. All these put unprecedented requirements on the accuracy of particle production predictions, the capability and reliability of the codes used in planning new accelerator facilities and experiments, the design of machine, target and collimation systems, detectors and radiation shielding and minimization of their impact on environment. Recent advances in widely-used general-purpose all-particle codes are described for the most critical modules such as particle production event generators, elementary particle and heavy ion transport in an energy range which spans up to 17 decades, nuclide inventory and macroscopic impact on materials, and dealing with complex geometry of accelerator and detector structures. Future requirements for developing physics models and Monte-Carlo codes are discussed.

  7. A diffusive description of the focused transport of solar energetic particles. Intensity- and anisotropy-time profiles as a powerful diagnostic tool for interplanetary particle transport conditions

    NASA Astrophysics Data System (ADS)

    Artmann, S.; Schlickeiser, R.; Agueda, N.; Krucker, S.; Lin, R. P.

    2011-11-01

    The transport of solar energetic charged particles along the interplanetary magnetic field in the ecliptic plane of the sun can be described roughly by a one-dimensional diffusion equation. Large-scale spatial variations of the guide magnetic field can be taken into account by adding an additional term to the diffusion equation that includes the effect of adiabatic focusing. We solve this equation analytically by assuming a point-like particle injection in time and space and a spatial power-law dependence for the focusing length and the spatial diffusion coefficient. We infer the intensity- and anisotropy-time profiles of solar energetic particles from this solution. Through these the influence of different assumptions for the diffusion parameters can be seen in a mathematically closed form. The comparison of calculated and measured intensity- and anisotropy-time profiles, which are a powerful diagnostic tool for interplanetary particle transport, gives information about the large-scale spatial dependence of the focusing length and the diffusion coefficient. For an exceptionally large solar energetic particle event, which did occur on 2001 April 15, we fit the 27 - 512 keV electron intensities and anisotropies observed by the Wind spacecraft using the theoretically derived profiles. We find a linear spatial dependence of the mean free path along the guiding magnetic field. We also find the mean free path to be energy independent, which supports the theory of "velocity-dependent diffusion". This means that the intensity profiles for the discussed energies exhibit the same shape if they are plotted against the traveled distance and not against the time. In this case the profiles differ only in their maximum values and we can determine the energy spectra of the solar flare electrons out of the scaling factor we need to fit the data. The derived spectra exhibits a power-law dependence ∝ E_kin-3 in an energy range from ~ 50 keV to ~ 500 keV. Appendices are available

  8. Particle and Energy Transport in the SOL of DIII-D and NSTX

    SciTech Connect

    Boedo, J; Maqueda, R; Rudakov, D; McKee, G; Kugel, H; Maingi, R; Crocker, N; Moyer, R; Soukhanovskii, V; Menard, J; Watkins, J; Zweben, S; D'Ippolito, D; Evans, T; Fenstermacher, M; Groth, M; Hollmann, E; Lasnier, C; Myra, J; Roquemore, L; West, W; Zeng, L

    2006-10-09

    The far scrape-off layer (SOL) radial transport and plasma-wall contact is mediated by intermittent and ELM-driven transport. Experiments to characterize the intermittent transport and ELMs have been performed in both DIII-D and NSTX under similar conditions. Both intermittent transport and ELMs are comprised of filaments of hot, dense plasma (n{sub e} {approx} 1 x 10{sup 13} cm{sup -3}, T{sub e} {approx} 400 eV) originating at the edge, transport both particles and heat into the SOL by convection, increasing wall interaction and causing sputtering and impurity release. Both intermittent filaments and ELMs leave the pedestal region at speeds of {approx}0.5-3 km/s, losing heat and particles by parallel transport as they travel through the SOL. The intermittency shows many similarities in NSTX and DIII-D, featuring similar size (2-5 cm), large convective radial velocity, ''holes'' inside and peaks outside the LCFS which quickly decay and slow down with radius. Whereas in DIII-D the intermittency decays in both intensity and frequency in H-mode, it chiefly decays in frequency in NSTX. In the low collisionality (v* = {pi}R{sub q{sub 95}}/{lambda}C) (v* {approx} 0.1, N{sub G} {approx} 0.3) case, the ELMs impact the walls quite directly and account for {approx}90% of the wall particle flux, decreasing to {approx}30% at (v* {approx} 1.0, N{sub G} > 0.6).

  9. New Capabilities in Mercury: A Modern, Monte Carlo Particle Transport Code

    SciTech Connect

    Procassini, R J; Cullen, D E; Greenman, G M; Hagmann, C A; Kramer, K J; McKinley, M S; O'Brien, M J; Taylor, J M

    2007-03-08

    The new physics, algorithmic and computer science capabilities of the Mercury general-purpose Monte Carlo particle transport code are discussed. The new physics and algorithmic features include in-line energy deposition and isotopic depletion, significant enhancements to the tally and source capabilities, diagnostic ray-traced particles, support for multi-region hybrid (mesh and combinatorial geometry) systems, and a probability of initiation method. Computer science enhancements include a second method of dynamically load-balancing parallel calculations, improved methods for visualizing 3-D combinatorial geometries and initial implementation of an in-line visualization capabilities.

  10. Particle sorting in Filter Porous Media and in Sediment Transport: A Numerical and Experimental Study

    NASA Astrophysics Data System (ADS)

    Glascoe, L. G.; Ezzedine, S. M.; Kanarska, Y.; Lomov, I. N.; Antoun, T.; Smith, J.; Hall, R.; Woodson, S.

    2014-12-01

    Understanding the flow of fines, particulate sorting in porous media and fractured media during sediment transport is significant for industrial, environmental, geotechnical and petroleum technologies to name a few. For example, the safety of dam structures requires the characterization of the granular filter ability to capture fine-soil particles and prevent erosion failure in the event of an interfacial dislocation. Granular filters are one of the most important protective design elements of large embankment dams. In case of cracking and erosion, if the filter is capable of retaining the eroded fine particles, then the crack will seal and the dam safety will be ensured. Here we develop and apply a numerical tool to thoroughly investigate the migration of fines in granular filters at the grain scale. The numerical code solves the incompressible Navier-Stokes equations and uses a Lagrange multiplier technique. The numerical code is validated to experiments conducted at the USACE and ERDC. These laboratory experiments on soil transport and trapping in granular media are performed in constant-head flow chamber filled with the filter media. Numerical solutions are compared to experimentally measured flow rates, pressure changes and base particle distributions in the filter layer and show good qualitative and quantitative agreement. To further the understanding of the soil transport in granular filters, we investigated the sensitivity of the particle clogging mechanism to various parameters such as particle size ratio, the magnitude of hydraulic gradient, particle concentration, and grain-to-grain contact properties. We found that for intermediate particle size ratios, the high flow rates and low friction lead to deeper intrusion (or erosion) depths. We also found that the damage tends to be shallower and less severe with decreasing flow rate, increasing friction and concentration of suspended particles. We have extended these results to more realistic heterogeneous

  11. Transport of particle-associated elements in two agriculture-dominated boreal river systems.

    PubMed

    Marttila, Hannu; Saarinen, Tuomas; Celebi, Ahmet; Kløve, Bjørn

    2013-09-01

    Transport of particulate pollutants in fluvial systems can contribute greatly to total loads. Understanding transport mechanics under different hydrological conditions is key in successful load estimation. This study analysed trace elements and physico-chemical parameters in time-integrated suspended sediment samples, together with dissolved and total concentrations of pollutants, along two agriculture- and peatland-dominated boreal river systems. The samples were taken in a spatially and temporally comprehensive sampling programme during the ice-free seasons of 2010 and 2011. The hydrochemistry and transport of particle-bound elements in the rivers were strongly linked to intense land use and acid sulphate soils in the catchment area, with arable, pasture and peat areas in particular being main diffuse sources. There were significant seasonal and temporal variations in dissolved and particulate fluxes, but spatial variations were small. Continuous measurements of EC, turbidity and discharge proved to be an accurate indicator of dissolved and particulate fluxes. Overall, the results show that transport of particle-bound elements makes a major contribution to total transport fluxes in agriculture-dominated boreal rivers. PMID:23770550

  12. Mode of Myosin Transportation in Living Cells Studied by Single Particle Tracking

    NASA Astrophysics Data System (ADS)

    Liang, Zhang-yi; Xu, Ning; Guan, Ying-hua; Zhang, You-yi; Zhao, Xin-sheng

    2007-08-01

    The transport of internalized α1A-adrenergic receptor (α1A-AR) by myosin protein in live cells was studied. The technique of single particle tracking by fluorescence imaging with high temporal and spatial resolution was used. The endosomes of α1A-AR were transported along actin filaments in a step-by-step mode. The average step-size in different time resolutions is consistent with the step-size of myosin assay in vitro. With the simulation of the stepwise traces in different time resolutions, we found that the kinetic process of each step is in coherence with the single myosin assay in vitro.

  13. A lattice gas model for erosion and particles transport in a fluid

    NASA Astrophysics Data System (ADS)

    Chopard, Bastien; Masselot, Alexandre; Dupuis, Alexandre

    2000-07-01

    We consider a simple lattice gas model to simulate erosion, deposition and particle transport in a streaming fluid. In our approach, the fluid is described by a standard lattice Boltzmann model and the granular suspension by a multiparticle cellular automata. A good agreement is obtained between the predictions of the model and field measurements, as observed by analyzing the deposition patterns resulting from various snow and sand transport phenomena. In particular we study the case of ripples formation and simulate the scour appearing around a submarine pipe.

  14. Sources, transport, and mixing of particle-bound PAHs fluxes in the upper Neckar River basin

    NASA Astrophysics Data System (ADS)

    Schwientek, Marc; Rügner, Hermann; Qin, Xintong; Scherer, Ulrike; Grathwohl, Peter

    2016-04-01

    Transport of many urban pollutants in rivers is coupled to transport of suspended particles. The degree of contamination of these suspended particles depends on the mixture of "polluted" urban and "clean" background particles. Recent results have shown that, in several meso-scale catchments studied in southwestern and eastern Germany, the loading of particles with polycyclic aromatic hydrocarbons (PAHs) was stable over time and characteristic for each catchment. The absence of significant long-term trends or pronounced changes of the catchment-specific loadings indicate that either input and output of PAHs into the stream networks are largely at steady state or that storage of PAHs in the sediments within the stream network are sufficient to smooth out larger fluctuations. Moreover, it was shown that the contamination of sediments and suspended particles with PAHs is proportional to the number of inhabitants per suspended sediment flux in a catchment. These processes are being further studied at larger scale in the upper Neckar River basin (2300 km²) in southwestern Germany. This basin, located between the mountain ranges of the Black Forest and the Swabian Alb, comprises sub-catchments that are diverse in terms of urban impact, geology (ranging from gypsum and limetstones to siliceous sandstones) and hydrology (dynamics driven either by summerly convective events or by winterly frontal systems and snow melt). Accordingly, quality and quantity of particles being released in the sub-catchments as potential vectors for hydrophobic pollutants differ; and so do the events that mobilize the particles. These settings enable the investigation of how particle-bound pollutant fluxes generated at the meso-scale are mixed and transported at larger scales when introduced into a higher order river. A prominent research question is whether varying contributions from contrasting sub-catchments lead to changing contamination patterns in the main stem or if the sediment storage in

  15. Transport of membrane-bound mineral particles in blood vessels during chicken embryonic bone development.

    PubMed

    Kerschnitzki, Michael; Akiva, Anat; Ben Shoham, Adi; Koifman, Naama; Shimoni, Eyal; Rechav, Katya; Arraf, Alaa A; Schultheiss, Thomas M; Talmon, Yeshayahu; Zelzer, Elazar; Weiner, Stephen; Addadi, Lia

    2016-02-01

    During bone formation in embryos, large amounts of calcium and phosphate are taken up and transported to the site where solid mineral is first deposited. The initial mineral forms in vesicles inside osteoblasts and is deposited as a highly disordered calcium phosphate phase. The mineral is then translocated to the extracellular space where it penetrates the collagen matrix and crystallizes. To date little is known about the transport mechanisms of calcium and phosphate in the vascular system, especially when high transport rates are needed and the concentrations of these ions in the blood serum may exceed the solubility product of the mineral phase. Here we used a rapidly growing biological model, the chick embryo, to study the bone mineralization pathway taking advantage of the fact that large amounts of bone mineral constituents are transported. Cryo scanning electron microscopy together with cryo energy dispersive X-ray spectroscopy and focused-ion beam imaging in the serial surface view mode surprisingly reveal the presence of abundant vesicles containing small mineral particles in the lumen of the blood vessels. Morphologically similar vesicles are also found in the cells associated with bone formation. This observation directly implicates the vascular system in solid mineral distribution, as opposed to the transport of ions in solution. Mineral particle transport inside vesicles implies that far larger amounts of the bone mineral constituents can be transported through the vasculature, without the danger of ectopic precipitation. This introduces a new stage into the bone mineral formation pathway, with the first mineral being formed far from the bone itself. PMID:26481471

  16. Transport of membrane-bound mineral particles in blood vessels during chicken embryonic bone development.

    PubMed

    Kerschnitzki, Michael; Akiva, Anat; Ben Shoham, Adi; Koifman, Naama; Shimoni, Eyal; Rechav, Katya; Arraf, Alaa A; Schultheiss, Thomas M; Talmon, Yeshayahu; Zelzer, Elazar; Weiner, Stephen; Addadi, Lia

    2016-02-01

    During bone formation in embryos, large amounts of calcium and phosphate are taken up and transported to the site where solid mineral is first deposited. The initial mineral forms in vesicles inside osteoblasts and is deposited as a highly disordered calcium phosphate phase. The mineral is then translocated to the extracellular space where it penetrates the collagen matrix and crystallizes. To date little is known about the transport mechanisms of calcium and phosphate in the vascular system, especially when high transport rates are needed and the concentrations of these ions in the blood serum may exceed the solubility product of the mineral phase. Here we used a rapidly growing biological model, the chick embryo, to study the bone mineralization pathway taking advantage of the fact that large amounts of bone mineral constituents are transported. Cryo scanning electron microscopy together with cryo energy dispersive X-ray spectroscopy and focused-ion beam imaging in the serial surface view mode surprisingly reveal the presence of abundant vesicles containing small mineral particles in the lumen of the blood vessels. Morphologically similar vesicles are also found in the cells associated with bone formation. This observation directly implicates the vascular system in solid mineral distribution, as opposed to the transport of ions in solution. Mineral particle transport inside vesicles implies that far larger amounts of the bone mineral constituents can be transported through the vasculature, without the danger of ectopic precipitation. This introduces a new stage into the bone mineral formation pathway, with the first mineral being formed far from the bone itself.

  17. The three-dimensional, discrete ordinates neutral particle transport code TORT: An overview

    SciTech Connect

    Azmy, Y.Y.

    1996-12-31

    The centerpiece of the Discrete Ordinates Oak Ridge System (DOORS), the three-dimensional neutral particle transport code TORT is reviewed. Its most prominent features pertaining to large applications, such as adjustable problem parameters, memory management, and coarse mesh methods, are described. Advanced, state-of-the-art capabilities including acceleration and multiprocessing are summarized here. Future enhancement of existing graphics and visualization tools is briefly presented.

  18. Performing three-dimensional neutral particle transport calculations on tera scale computers

    SciTech Connect

    Woodward, C S; Brown, P N; Chang, B; Dorr, M R; Hanebutte, U R

    1999-01-12

    A scalable, parallel code system to perform neutral particle transport calculations in three dimensions is presented. To utilize the hyper-cluster architecture of emerging tera scale computers, the parallel code successfully combines the MPI message passing and paradigms. The code's capabilities are demonstrated by a shielding calculation containing over 14 billion unknowns. This calculation was accomplished on the IBM SP ''ASCI-Blue-Pacific computer located at Lawrence Livermore National Laboratory (LLNL).

  19. Effect of supersonic molecular-beam injection on edge fluctuation and particle transport in Heliotron J

    SciTech Connect

    Zang, L. Kasajima, K.; Hashimoto, K.; Kenmochi, N.; Ohshima, S.; Mizuuchi, T.; Yamamoto, S.; Sha, M.; Nagasaki, K.; Kado, S.; Okada, H.; Minami, T.; Kobayashi, S.; Shi, N.; Konoshima, S.; Nakamura, Y.; Sano, F.; Nishino, N.; Takeuchi, M.; Mukai, K.; and others

    2014-04-15

    Edge fluctuation in a supersonic molecular-beam injection (SMBI) fueled plasma has been measured using an electrostatic probe array. After SMBI, the plasma stored energy (W{sub p}) temporarily decreased then started to increase. The local plasma fluctuation and fluctuation induced particle transport before and after SMBI have been analyzed. In a short duration (∼4 ms) just after SMBI, the density fluctuation of broad-band low frequency increased, and the probability density function (PDF) changed from a nearly Gaussian to a positively skewed non-Gaussian one. This suggests that intermittent structures were produced due to SMBI. Also the fluctuation induced particle transport was greatly enhanced during this short duration. About 4 ms after SMBI, the low frequency broad-band density fluctuation decreased, and the PDF returned to a nearly Gaussian shape. Also the fluctuation induced particle transport was reduced. Compared with conventional gas puff, W{sub p} degradation window is very short due to the short injection period of SMBI. After this short degradation window, fluctuation induced particle transport was reduced and W{sub p} started the climbing phase. Therefore, the short period of the influence to the edge fluctuation might be an advantage of this novel fueling technique. On the other hand, although their roles are not identified at present, coherent MHD modes are also suppressed as well by the application of SMBI. These MHD modes are thought to be de-exited due to a sudden change of the edge density and/or excitation conditions.

  20. Effect of Hydrodynamics on Particle Transport in Saturated Fractures: Experimental and Simulation Results

    NASA Astrophysics Data System (ADS)

    Cianflone, S.; Lakhian, V.; Dickson, S. E.

    2014-12-01

    Approximately one third of Canadians and Americans use groundwater as their source of drinking water. Porous media aquifers typically provide significant filtration of particulate contaminants (e.g., viruses, bacteria, protozoa). Fractured media, however, does not provide the same degree of filtration, and in fact often acts as a pathway for particulates to migrate, typically at much greater velocities than in porous media. Fractured aquifers, therefore, are significantly more vulnerable to particulate contamination than unconsolidated porous media. Thus, understanding in the mechanisms of particle migration and retention in fractures is important for the protection and management of these drinking water sources. The purpose of this work was to investigate the role of hydrodynamics on particle transport in saturated, variable aperture fractures. A 2D fracture was randomly generated with an average aperture of approximately 2mm. The fracture was inscribed into pieces of poly(methyl methacrylate), thus creating a pseudo-2D fracture (the xy fracture domain is invariant in z). Transport experiments using fluorescent microspheres (0.05 um, 0.5 um, and 0.75 um) were performed at 2.6 m/day, 26 m/day and 113 m/day and the resulting breakthrough curves were measured. These breakthrough curves included various shoulders and artifacts that were repeatable and could be used to evaluate the quality of a model. COMSOL Multiphysics, was used to generate an average flow field through the 2D fracture by numerically solving the steady-state Navier-Stokes equation. In order to have a 3D realization of the flow field, a parabolic flow regime was assumed in the z-axis and used to scale the average flow field. Random walk particle tracking was utilized to generate breakthrough curves; however, the Brownian motion and local fluid shear mechanisms needed to be considered in addition to the standard movement of particles via the local flow field in order to appropriately model the

  1. Influence of permeability on nanoscale zero-valent iron particle transport in saturated homogeneous and heterogeneous porous media.

    PubMed

    Strutz, Tessa J; Hornbruch, Götz; Dahmke, Andreas; Köber, Ralf

    2016-09-01

    Nanoscale zero-valent iron (NZVI) particles can be used for in situ groundwater remediation. The spatial particle distribution plays a very important role in successful and efficient remediation, especially in heterogeneous systems. Initial sand permeability (k 0) influences on spatial particle distributions were investigated and quantified in homogeneous and heterogeneous systems within the presented study. Four homogeneously filled column experiments and a heterogeneously filled tank experiment, using different median sand grain diameters (d 50), were performed to determine if NZVI particles were transported into finer sand where contaminants could be trapped. More NZVI particle retention, less particle transport, and faster decrease in k were observed in the column studies using finer sands than in those using coarser sands, reflecting a function of k 0. In heterogeneous media, NZVI particles were initially transported and deposited in coarse sand areas. Increasing the retained NZVI mass (decreasing k in particle deposition areas) caused NZVI particles to also be transported into finer sand areas, forming an area with a relatively homogeneous particle distribution and converged k values despite the different grain sizes present. The deposited-particle surface area contribution to the increasing of the matrix surface area (θ) was one to two orders of magnitude higher for finer than coarser sand. The dependency of θ on d 50 presumably affects simulated k changes and NZVI distributions in numerical simulations of NZVI injections into heterogeneous aquifers. The results implied that NZVI can in principle also penetrate finer layers.

  2. Progress in Solving the Elusive Ag Transport Mechanism in TRISO Coated Particles: What is new?

    SciTech Connect

    Isabella Van Rooyen

    2014-10-01

    The TRISO particle for HTRs has been developed to an advanced state where the coating withstands internal gas pressures and retains fission products during irradiation and under postulated accidents. However, one exception is Ag that has been found to be released from high quality TRISO coated particles when irradiated and can also during high temperature accident heating tests. Although out- of- pile laboratory tests have never hither to been able to demonstrate a diffusion process of Ag in SiC, effective diffusion coefficients have been derived to successfully reproduce measured Ag-110m releases from irradiated HTR fuel elements, compacts and TRISO particles It was found that silver transport through SiC does not proceed via bulk volume diffusion. Presently grain boundary diffusion that may be irradiation enhanced either by neutron bombardment or by the presence of fission products such as Pd, are being investigated. Recent studies of irradiated AGR-1 TRISO fuel using scanning transmission electron microscopy (STEM), transmission kukuchi diffraction (TKD) patterns and high resolution transmission electron microscopy (HRTEM) have been used to further the understanding of Ag transport through TRISO particles. No silver was observed in SiC grains, but Ag was identified at triple-points and grain boundaries of the SiC layer in the TRISO particle. Cadmium was also found in some of the very same triple junctions, but this could be related to silver behavior as Ag-110m decays to Cd-110. Palladium was identified as the main constituent of micron-sized precipitates present at the SiC grain boundaries and in most SiC grain boundaries and the potential role of Pd in the transport of Ag will be discussed.

  3. Micro-particle transporting system using galvanotactically stimulated apo-symbiotic cells of Paramecium bursaria.

    PubMed

    Furukawa, Shunsuke; Karaki, Chiaki; Kawano, Tomonori

    2009-01-01

    It is well known that Paramecium species including green paramecia (Paramecium bursaria) migrate towards the anode when exposed to an electric field in a medium. This type of a cellular movement is known as galvanotaxis. Our previous study revealed that an electric stimulus given to P bursaria is converted to a galvanotactic cellular movement by involvement of T-type calcium channel on the plasma membrane [Aonuma et al. (2007), Z. Naturforsch. 62c, 93-102]. This phenomenon has attracted the attention of bioengineers in the fields of biorobotics or micro-robotics in order to develop electrically controllable micromachineries. Here, we demonstrate the galvanotactic controls of the cellular migration of P bursaria in capillary tubes (diameter, 1-2 mm; length, 30-240 mm). Since the Paramecium cells take up particles of various sizes, we attempted to use the electrically stimulated cells of P bursaria as the vehicle for transportation of micro-particles in the capillary system. By using apo-symbiotic cells of P bursaria obtained after forced removal of symbiotic algae, the uptake of the particles could be maximized and visualized. Then, electrically controlled transportations of particle-filled apo-symbiotic P bursaria cells were manifested. The particles transported by electrically controlled cells (varying in size from nm to /m levels) included re-introduced green algae, fluorescence-labeled polystyrene beads, magnetic microspheres, emerald green fluorescent protein (EmGFP)-labeled cells of E. coli, Indian ink, and crystals of zeolite (hydrated aluminosilicate minerals with a micro-porous structure) and some metal oxides. Since the above demonstrations were successful, we concluded that P bursaria has a potential to be employed as one of the micro-biorobotic devices used in BioMEMS (biological micro-electro-mechanical systems).

  4. Specific spacecraft evaluation: Special report. [charged particle transport from a mercury ion thruster to spacecraft surfaces

    NASA Technical Reports Server (NTRS)

    Sellen, J. M., Jr.

    1978-01-01

    Charged and neutral particle transport from an 8 cm mercury ion thruster to the surfaces of the P 80-1 spacecraft and to the Teal Ruby sensor and the ECOM-501 sensor of that spacecraft were investigated. Laboratory measurements and analyses were used to examine line-of-sight and nonline-of sight particle transport modes. The recirculation of Hg(+) ions in the magnetic field of the earth was analyzed for spacecraft velocity and Earth magnetic field vector configurations which are expected to occur in near Earth, circular, high inclination orbits. For these magnetic field and orbit conditions and for expected ion release distribution functions, in both angles and energies, the recirculation/re-interception of ions on spacecraft surfaces was evaluated. The refraction of weakly energetic ions in the electric fields of the thruster plasma plume and in the electric fields between this plasma plume and the material boundaries of the thruster, the thruster sputter shield, and the various spacecraft surfaces were examined. The neutral particle transport modes of interest were identified as sputtered metal atoms from the thruster beam shield. Results, conclusions, and future considerations are presented.

  5. The inhibitory effect of extracts of cigarette tar on electron transport of mitochondria and submitochondrial particles.

    PubMed

    Pryor, W A; Arbour, N C; Upham, B; Church, D F

    1992-01-01

    Acetonitrile extracts of cigarette tar inhibit state 3 and state 4 respiration of intact mitochondria. Exposure of respiring submitochondrial particles to acetonitrile extracts of cigarette tar results in a dose-dependent inhibition of oxygen consumption and reduced nicotinamide adenine dinucleotide (NADH) oxidation. This inhibition was not due to a solvent effect since acetonitrile alone did not alter oxygen consumption or NADH oxidation. Intact mitochondria are less sensitive to extracts of tar than submitochondrial particles. The NADH-ubiquinone (Q) reductase complex is more sensitive to inhibition by tar extract than the succinate-Q reductase and cytochrome complexes. Nicotine or catechol did not inhibit respiration of intact mitochondria. Treatment of submitochondrial particles with cigarette tar results in the formation of hydroxyl radicals, detected by electron spin resonance (ESR) spin trapping. The ESR signal attributable to the hydroxyl radical spin adduct requires the presence of NADH and is completely abolished by catalase and to a lesser extent superoxide dismutase (SOD). Catalase and SOD did not protect the mitochondrial respiratory chain from inhibition by tar extract, indicating that the radicals detected by ESR spin trapping are not responsible for the inhibition of the electron transport. We propose that tar causes at least two effects: (1) Tar components interact with the electron transport chain and inhibit electron flow, and (2) tar components interact with the electron transport chain, ultimately to form hydroxyl radicals. PMID:1317324

  6. Particle size distributions and the sequential fragmentation/transport theory applied to volcanic ash

    SciTech Connect

    Wohletz, K.H. ); Sheridan, M.F. ); Brown, W.K. )

    1989-11-10

    The assumption that distributions of mass versus size interval for fragmented materials fit the log normal distribution is empirically based and has historical roots in the late 19th century. Other often used distributions (e.g., Rosin-Rammler, Weibull) are also empirical and have the general form for mass per size interval: {ital n}({ital l})={ital kl}{sup {alpha}} exp(-{ital l}{beta}), where {ital n}({ital l}) represents the number of particles of diameter {ital l}, {ital l} is the normalized particle diameter, and {ital k}, {alpha}, and {beta} are constants. We describe and extend the sequential fragmentation distribution to include transport effects upon observed volcanic ash size distributions. The sequential fragmentation/transport (SFT) distribution is also of the above mathematical form, but it has a physical basis rather than empirical. The SFT model applies to a particle-mass distribution formed by a sequence of fragmentation (comminution) and transport (size sorting) events acting upon an initial mass {ital m}{prime}: {ital n}({ital x}, {ital m})={ital C} {integral}{integral} {ital n}({ital x}{prime}, {ital m}{prime}){ital p}({xi}) {ital dx}{prime} {ital dm}{prime}, where {ital x}{prime} denotes spatial location along a linear axis, {ital C} is a constant, and integration is performed over distance from an origin to the sample location and mass limits from 0 to {ital m}.

  7. Verification and Validation of MERCURY: A Modern, Monte Carlo Particle Transport Code

    SciTech Connect

    Procassini, R J; Cullen, D E; Greenman, G M; Hagmann, C A

    2004-12-09

    Verification and Validation (V&V) is a critical phase in the development cycle of any scientific code. The aim of the V&V process is to determine whether or not the code fulfills and complies with the requirements that were defined prior to the start of the development process. While code V&V can take many forms, this paper concentrates on validation of the results obtained from a modern code against those produced by a validated, legacy code. In particular, the neutron transport capabilities of the modern Monte Carlo code MERCURY are validated against those in the legacy Monte Carlo code TART. The results from each code are compared for a series of basic transport and criticality calculations which are designed to check a variety of code modules. These include the definition of the problem geometry, particle tracking, collisional kinematics, sampling of secondary particle distributions, and nuclear data. The metrics that form the basis for comparison of the codes include both integral quantities and particle spectra. The use of integral results, such as eigenvalues obtained from criticality calculations, is shown to be necessary, but not sufficient, for a comprehensive validation of the code. This process has uncovered problems in both the transport code and the nuclear data processing codes which have since been rectified.

  8. First-principles derivation of reactive transport modeling parameters for particle tracking and PDE approaches

    NASA Astrophysics Data System (ADS)

    Hansen, Scott K.; Scher, Harvey; Berkowitz, Brian

    2014-07-01

    Both Eulerian and Lagrangian reactive transport simulations in natural media require selection of a parameter that controls the “promiscuity” of the reacting particles. In Eulerian models, measurement of this parameter may be difficult because its value will generally differ between natural (diffusion-limited) systems and batch experiments, even though both are modeled by reaction terms of the same form. And in Lagrangian models, there previously has been no a priori way to compute this parameter. In both cases, then, selection is typically done by calibration, or ad hoc. This paper addresses the parameter selection problem for Fickian transport by deriving, from first principles and D (the diffusion constant) the reaction-rate-controlling parameters for particle tracking (PT) codes and for the diffusion-reaction equation (DRE). Using continuous time random walk analysis, exact reaction probabilities are derived for pairs of potentially reactive particles based on D and their probability of reaction provided that they collocate. Simultaneously, a second PT scheme directly employing collocation probabilities is derived. One-to-one correspondence between each of D, the reaction radius specified for a PT scheme, and the DRE decay constant are then developed. These results serve to ground reactive transport simulations in their underlying thermodynamics, and are confirmed by simulations.

  9. Transport of rare earth element-tagged soil particles in response to thunderstorm runoff.

    PubMed

    Matisoff, G; Ketterer, M E; Wilson, C G; Layman, R; Whiting, P J

    2001-08-15

    The downslope transport of rare earth element-tagged soil particles remobilized during a spring thunderstorm was studied on both a natural prairie and an agricultural field in southwestern Iowa (U.S.A.). A technique was developed for tagging natural soils with the rare earth elements Eu, Tb, and Ho to approximately 1,000 ppm via coprecipitation with MnO2. Tagged material was replaced in target locations; surficial soil samples were collected following precipitation and runoff; and rare earth element concentrations were determined by inductively coupled plasma mass spectrometry. Diffusion and exponential models were applied to the concentration-distance data to determine particle transport distances. The results indicate that the concentration-distance data are well described by the diffusion model, butthe exponential model does not simulate the rapid drop-off in concentrations near the tagged source. Using the diffusion model, calculated particle transport distances at all hillside locations and at both the cultivated and natural prairie sites were short, ranging from 3 to 73 cm during this single runoff event. This study successfully demonstrates a new tool for studying soil erosion. PMID:11529577

  10. PyMercury: Interactive Python for the Mercury Monte Carlo Particle Transport Code

    SciTech Connect

    Iandola, F N; O'Brien, M J; Procassini, R J

    2010-11-29

    Monte Carlo particle transport applications are often written in low-level languages (C/C++) for optimal performance on clusters and supercomputers. However, this development approach often sacrifices straightforward usability and testing in the interest of fast application performance. To improve usability, some high-performance computing applications employ mixed-language programming with high-level and low-level languages. In this study, we consider the benefits of incorporating an interactive Python interface into a Monte Carlo application. With PyMercury, a new Python extension to the Mercury general-purpose Monte Carlo particle transport code, we improve application usability without diminishing performance. In two case studies, we illustrate how PyMercury improves usability and simplifies testing and validation in a Monte Carlo application. In short, PyMercury demonstrates the value of interactive Python for Monte Carlo particle transport applications. In the future, we expect interactive Python to play an increasingly significant role in Monte Carlo usage and testing.

  11. Transport of rare earth element-tagged soil particles in response to thunderstorm runoff.

    PubMed

    Matisoff, G; Ketterer, M E; Wilson, C G; Layman, R; Whiting, P J

    2001-08-15

    The downslope transport of rare earth element-tagged soil particles remobilized during a spring thunderstorm was studied on both a natural prairie and an agricultural field in southwestern Iowa (U.S.A.). A technique was developed for tagging natural soils with the rare earth elements Eu, Tb, and Ho to approximately 1,000 ppm via coprecipitation with MnO2. Tagged material was replaced in target locations; surficial soil samples were collected following precipitation and runoff; and rare earth element concentrations were determined by inductively coupled plasma mass spectrometry. Diffusion and exponential models were applied to the concentration-distance data to determine particle transport distances. The results indicate that the concentration-distance data are well described by the diffusion model, butthe exponential model does not simulate the rapid drop-off in concentrations near the tagged source. Using the diffusion model, calculated particle transport distances at all hillside locations and at both the cultivated and natural prairie sites were short, ranging from 3 to 73 cm during this single runoff event. This study successfully demonstrates a new tool for studying soil erosion.

  12. Temperature dependence of antenna excitation transport in native photosystem I particles. [Electronic energy transport (EET)

    SciTech Connect

    Lyle, P.A.; Struve, W.S. )

    1991-05-16

    The temperature dependence of polarized photobleaching dynamics was investigated through 680-nm pump-probe experiments in the Chl a antenna of native photosystem 1 particles (Chl/P700 {approximately} 200) from spinach. The anisotropic decay time is lengthened by an order of magnitude (from {approximately}7 to {approximately}62 ps) when the temperature is reduced from 290 to 38 K; most of this increase occurs between 65 and 38 K. The occurrence of this transition temperature in the tens of kelvin reflects the participation of protein phonons in antenna EET. The isotopic decay kinetics are considerably less temperature sensitive, indicating that the anisotropic and isotropic decays stem from different energy-transfer processes with contrasting temperature dependence. The 38 K photobleaching spectrum at 5 ps exhibits considerably more weighting in the lower energy Chl a spectral forms than the room-temperature spectrum, suggesting that rapid spectral equilibration occurs in the photosystem 1 antenna. In light of the phonon frequency and electron-phonon coupling parameters determined in independent PSI-200 spectral hole-burning experiments, the quantitative temperature dependence int he anisotropic decay times is consistent with a theory for phonon-assisted EET in which the pertinent phonons are independent modes localized about the donor and acceptor chromophores.

  13. High-Speed Transport of Fluid Drops and Solid Particles via Surface Acoustic Waves

    NASA Technical Reports Server (NTRS)

    Bar-Cohen, Yoseph; Bao, Xiaoqi; Sherrit, Stewart; Badescu, Mircea; Lih, Shyh-shiuh

    2012-01-01

    A compact sampling tool mechanism that can operate at various temperatures, and transport and sieve particle sizes of powdered cuttings and soil grains with no moving parts, has been created using traveling surface acoustic waves (SAWs) that are emitted by an inter-digital transducer (IDT). The generated waves are driven at about 10 MHz, and it causes powder to move towards the IDT at high speed with different speeds for different sizes of particles, which enables these particles to be sieved. This design is based on the use of SAWs and their propelling effect on powder particles and fluids along the path of the waves. Generally, SAWs are elastic waves propagating in a shallow layer of about one wavelength beneath the surface of a solid substrate. To generate SAWs, a piezoelectric plate is used that is made of LiNbO3 crystal cut along the x-axis with rotation of 127.8 along the y-axis. On this plate are printed pairs of fingerlike electrodes in the form of a grating that are activated by subjecting the gap between the electrodes to electric field. This configuration of a surface wave transmitter is called IDT. The IDT that was used consists of 20 pairs of fingers with 0.4-mm spacing, a total length of 12.5 mm. The surface wave is produced by the nature of piezoelectric material to contract or expand when subjected to an electric field. Driving the IDT to generate wave at high amplitudes provides an actuation mechanism where the surface particles move elliptically, pulling powder particles on the surface toward the wavesource and pushing liquids in the opposite direction. This behavior allows the innovation to separate large particles and fluids that are mixed. Fluids are removed at speed (7.5 to 15 cm/s), enabling this innovation of acting as a bladeless wiper for raindrops. For the windshield design, the electrodes could be made transparent so that they do not disturb the driver or pilot. Multiple IDTs can be synchronized to transport water or powder over larger

  14. Fluctuation-induced transport of two coupled particles: Effect of the interparticle interaction

    NASA Astrophysics Data System (ADS)

    Makhnovskii, Yurii A.; Rozenbaum, Viktor M.; Sheu, Sheh-Yi; Yang, Dah-Yen; Trakhtenberg, Leonid I.; Lin, Sheng Hsien

    2014-06-01

    We consider a system of two coupled particles fluctuating between two states, with different interparticle interaction potentials and particle friction coefficients. An external action drives the interstate transitions that induces reciprocating motion along the internal coordinate x (the interparticle distance). The system moves unidirectionally due to rectification of the internal motion by asymmetric friction fluctuations and thus operates as a dimeric motor that converts input energy into net movement. We focus on how the law of interaction between the particles affects the dimer transport and, in particular, the role of thermal noise in the motion inducing mechanism. It is argued that if the interaction potential behaves at large distances as xα, depending on the value of the exponent α, the thermal noise plays a constructive (α > 2), neutral (α = 2), or destructive (α < 2) role. In the case of α = 1, corresponding piecewise linear potential profiles, an exact solution is obtained and discussed in detail.

  15. Drift-Alfven wave mediated particle transport in an elongated density depression

    SciTech Connect

    Vincena, Stephen; Gekelman, Walter

    2006-06-15

    Cross-field particle transport due to drift-Alfven waves is measured in an elongated density depression within an otherwise uniform, magnetized helium plasma column. The depression is formed by drawing an electron current to a biased copper plate with cross-field dimensions of 28x0.24 ion sound-gyroradii {rho}{sub s}=c{sub s}/{omega}{sub ci}. The process of density depletion and replenishment via particle flux repeats in a quasiperiodic fashion for the duration of the current collection. The mode structure of the wave density fluctuations in the plane perpendicular to the background magnetic field is revealed using a two-probe correlation technique. The particle flux as a function of frequency is measured using a linear array of Langmuir probes and the only significant transport occurs for waves with frequencies between 15%-25% of the ion cyclotron frequency (measured in the laboratory frame) and with perpendicular wavelengths k{sub perpendicular}{rho}{sub s}{approx}0.7. The frequency-integrated particle flux is in rough agreement with observed increases in density in the center of the depletion as a function of time. The experiments are carried out in the Large Plasma Device (LAPD) [Gekelman et al., Rev. Sci. Instrum. 62, 2875 (1991)] at the Basic Plasma Science Facility located at the University of California, Los Angeles.

  16. Practical Implementation of New Particle Tracking Method to the Real Field of Groundwater Flow and Transport

    PubMed Central

    Suk, Heejun

    2012-01-01

    Abstract In articles published in 2009 and 2010, Suk and Yeh reported the development of an accurate and efficient particle tracking algorithm for simulating a path line under complicated unsteady flow conditions, using a range of elements within finite elements in multidimensions. Here two examples, an aquifer storage and recovery (ASR) example and a landfill leachate migration example, are examined to enhance the practical implementation of the proposed particle tracking method, known as Suk's method, to a real field of groundwater flow and transport. Results obtained by Suk's method are compared with those obtained by Pollock's method. Suk's method produces superior tracking accuracy, which suggests that Suk's method can describe more accurately various advection-dominated transport problems in a real field than existing popular particle tracking methods, such as Pollock's method. To illustrate the wide and practical applicability of Suk's method to random-walk particle tracking (RWPT), the original RWPT has been modified to incorporate Suk's method. Performance of the modified RWPT using Suk's method is compared with the original RWPT scheme by examining the concentration distributions obtained by the modified RWPT and the original RWPT under complicated transient flow systems. PMID:22476629

  17. Transport of colloidal silica in unsaturated sand: Effect of charging properties of sand and silica particles.

    PubMed

    Fujita, Yosuke; Kobayashi, Motoyoshi

    2016-07-01

    We have studied the transport of colloidal silica in various degrees of a water-saturated Toyoura sand column, because silica particles are widely used as catalyst carriers and abrasive agents, and their toxicity is reported recently. Since water-silica, water-sand, and air-water interfaces have pH-dependent negative charges, the magnitude of surface charge was controlled by changing the solution pH. The results show that, at high pH conditions (pH 7.4), the deposition of colloidal silica to the sand surface is interrupted and the silica concentration at the column outlet immediately reaches the input concentration in saturated conditions. In addition, the relative concentration of silica at the column outlet only slightly decreases to 0.9 with decreasing degrees of water saturation to 38%, because silica particles are trapped in straining regions in the soil pore and air-water interface. On the other hand, at pH 5 conditions (low pH), where sand and colloid have less charge, reduced repulsive forces result in colloidal silica attaching onto the sand in saturated conditions. The deposition amount of silica particles remarkably increases with decreasing degrees of water saturation to 37%, which is explained by more particles being retained in the sand column associated with the air-water interface. In conclusion, at higher pH, the mobility of silica particles is high, and the air-water interface is inactive for the deposition of silica. On the other hand, at low pH, the deposition amount increases with decreasing water saturation, and the particle transport is inhibited. PMID:27045635

  18. Regulation of Human Hepatic Drug Transporter Activity and Expression by Diesel Exhaust Particle Extract

    PubMed Central

    Le Vee, Marc; Jouan, Elodie; Stieger, Bruno; Lecureur, Valérie; Fardel, Olivier

    2015-01-01

    Diesel exhaust particles (DEPs) are common environmental air pollutants primarily affecting the lung. DEPs or chemicals adsorbed on DEPs also exert extra-pulmonary effects, including alteration of hepatic drug detoxifying enzyme expression. The present study was designed to determine whether organic DEP extract (DEPe) may target hepatic drug transporters that contribute in a major way to drug detoxification. Using primary human hepatocytes and transporter-overexpressing cells, DEPe was first shown to strongly inhibit activities of the sinusoidal solute carrier (SLC) uptake transporters organic anion-transporting polypeptides (OATP) 1B1, 1B3 and 2B1 and of the canalicular ATP-binding cassette (ABC) efflux pump multidrug resistance-associated protein 2, with IC50 values ranging from approximately 1 to 20 μg/mL and relevant to environmental exposure situations. By contrast, 25 μg/mL DEPe failed to alter activities of the SLC transporter organic cation transporter (OCT) 1 and of the ABC efflux pumps P-glycoprotein and bile salt export pump (BSEP), whereas it only moderately inhibited those of sodium taurocholate co-transporting polypeptide and of breast cancer resistance protein (BCRP). Treatment by 25 μg/mL DEPe was next demonstrated to induce expression of BCRP at both mRNA and protein level in cultured human hepatic cells, whereas it concomitantly repressed mRNA expression of various transporters, including OATP1B3, OATP2B1, OCT1 and BSEP. Such changes in transporter expression were found to be highly correlated to those caused by 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD), a reference activator of the aryl hydrocarbon receptor (AhR) pathway. This suggests that DEPe, which is enriched in known ligands of AhR like polycyclic aromatic hydrocarbons, alters drug transporter expression via activation of the AhR cascade. Taken together, these data established human hepatic transporters as targets of organic chemicals containing in DEPs, which may contribute to their

  19. Transport of Ions and Particles Through Single Pores of Controlled Geometry and Surface Chemistry

    NASA Astrophysics Data System (ADS)

    Pevarnik, Matthew A.

    Synthetic nanopores are a powerful tool to control the transport of ions, molecules, and water at the molecular level, mimicking biological systems. In this research, polymer pores are prepared of different geometries, sizes, and surface chemistry to utilize features seen in naturally occurring systems. Specifically, it was one of the goals of this research to prepare and characterize single polymer pores that rectify the current due to a combination of electrostatic and hydrophobic interactions, similar to naturally occurring ion channels. Prior to modification, aqueous electrolytic solutions are able to conduct readily through the single polymer pores, but after the chemisorption of hydrophobic chemical groups, the pore demonstrates open and closed states. This behavior is also observed to be voltage dependent. Increasing voltage increases the probability of the pore to be in the open states. There is also a voltage range where the pore does not conduct at all. The hydrophobic gating was studied as a function of pore diameter and charge of the residual groups and could be used for an on demand drug delivery system. Another technique that was utilized in this research is the resistive-pulse technique, which is a powerful approach to detect single molecules and particles. A single particle passing through a pore can be observed as a transient drop of the transmembrane current. This research focuses on resistive-pulse sensing experiments performed with track-etched polymer pores characterized by an undulating diameter along the pore length. The resistive pulses generated by spherical beads passing through these pores have a repeatable pattern of large variations corresponding to these diameter changes. We show that this pattern of variations enables the unambiguous resolution of multiple particles simultaneously in the pore, the detection of transient sticking of particles within the pore, and confirmation whether any individual particle completely translocates the

  20. a Test Particle Model for Monte Carlo Simulation of Plasma Transport Driven by Quasineutrality

    NASA Astrophysics Data System (ADS)

    Kuhl, Nelson M.

    1995-11-01

    This paper is concerned with the problem of transport in controlled nuclear fusion as it applies to confinement in a tokamak or stellarator. We perform numerical experiments to validate a mathematical model of P. R. Garabedian in which the electric potential is determined by quasineutrality because of singular perturbation of the Poisson equation. The simulations are made using a transport code written by O. Betancourt and M. Taylor, with changes to incorporate our case studies. We adopt a test particle model naturally suggested by the problem of tracking particles in plasma physics. The statistics due to collisions are modeled by a drift kinetic equation whose numerical solution is based on the Monte Carlo method of A. Boozer and G. Kuo -Petravic. The collision operator drives the distribution function in velocity space towards the normal distribution, or Maxwellian. It is shown that details of the collision operator other than its dependence on the collision frequency and temperature matter little for transport, and the role of conservation of momentum is investigated. Exponential decay makes it possible to find the confinement times of both ions and electrons by high performance computing. Three -dimensional perturbations in the electromagnetic field model the anomalous transport of electrons and simulate the turbulent behavior that is presumably triggered by the displacement current. We make a convergence study of the method, derive scaling laws that are in good agreement with predictions from experimental data, and present a comparison with the JET experiment.

  1. Biomass particle models with realistic morphology and resolved microstructure for simulations of intraparticle transport phenomena

    SciTech Connect

    Ciesielski, Peter N.; Crowley, Michael F.; Nimlos, Mark R.; Sanders, Aric W.; Wiggins, Gavin M.; Robichaud, David; Donohoe, Bryon S.; Foust, Thomas D.

    2014-12-09

    Biomass exhibits a complex microstructure of directional pores that impact how heat and mass are transferred within biomass particles during conversion processes. However, models of biomass particles used in simulations of conversion processes typically employ oversimplified geometries such as spheres and cylinders and neglect intraparticle microstructure. In this study, we develop 3D models of biomass particles with size, morphology, and microstructure based on parameters obtained from quantitative image analysis. We obtain measurements of particle size and morphology by analyzing large ensembles of particles that result from typical size reduction methods, and we delineate several representative size classes. Microstructural parameters, including cell wall thickness and cell lumen dimensions, are measured directly from micrographs of sectioned biomass. A general constructive solid geometry algorithm is presented that produces models of biomass particles based on these measurements. Next, we employ the parameters obtained from image analysis to construct models of three different particle size classes from two different feedstocks representing a hardwood poplar species (Populus tremuloides, quaking aspen) and a softwood pine (Pinus taeda, loblolly pine). Finally, we demonstrate the utility of the models and the effects explicit microstructure by performing finite-element simulations of intraparticle heat and mass transfer, and the results are compared to similar simulations using traditional simplified geometries. In conclusion, we show how the behavior of particle models with more realistic morphology and explicit microstructure departs from that of spherical models in simulations of transport phenomena and that species-dependent differences in microstructure impact simulation results in some cases.

  2. Biomass particle models with realistic morphology and resolved microstructure for simulations of intraparticle transport phenomena

    DOE PAGES

    Ciesielski, Peter N.; Crowley, Michael F.; Nimlos, Mark R.; Sanders, Aric W.; Wiggins, Gavin M.; Robichaud, David; Donohoe, Bryon S.; Foust, Thomas D.

    2014-12-09

    Biomass exhibits a complex microstructure of directional pores that impact how heat and mass are transferred within biomass particles during conversion processes. However, models of biomass particles used in simulations of conversion processes typically employ oversimplified geometries such as spheres and cylinders and neglect intraparticle microstructure. In this study, we develop 3D models of biomass particles with size, morphology, and microstructure based on parameters obtained from quantitative image analysis. We obtain measurements of particle size and morphology by analyzing large ensembles of particles that result from typical size reduction methods, and we delineate several representative size classes. Microstructural parameters, includingmore » cell wall thickness and cell lumen dimensions, are measured directly from micrographs of sectioned biomass. A general constructive solid geometry algorithm is presented that produces models of biomass particles based on these measurements. Next, we employ the parameters obtained from image analysis to construct models of three different particle size classes from two different feedstocks representing a hardwood poplar species (Populus tremuloides, quaking aspen) and a softwood pine (Pinus taeda, loblolly pine). Finally, we demonstrate the utility of the models and the effects explicit microstructure by performing finite-element simulations of intraparticle heat and mass transfer, and the results are compared to similar simulations using traditional simplified geometries. In conclusion, we show how the behavior of particle models with more realistic morphology and explicit microstructure departs from that of spherical models in simulations of transport phenomena and that species-dependent differences in microstructure impact simulation results in some cases.« less

  3. A perspective from transport protein particle: vesicle tether and human diseases.

    PubMed

    Li, Chunman; Yu, Sidney

    2014-02-25

    Vesicle-mediated transport of proteins is a highly regulated, multi-step process. When the vesicle is approaching its target membrane compartment, many factors are required to provide specificity and tethering between the incoming vesicle and the target membrane, before vesicle fusion can occur. Tethering factors, which include multisubunit complexes, coiled-coil proteins, with the help of small GTPases, provide the initial interaction between the vesicle and its target membrane. Of the multisubunit tethering factors, the transport protein particle (TRAPP) complexes function in a number of trafficking steps, including endoplasmic reticulum (ER)-to-Golgi transport, intra- and post-Golgi traffic and autophagosome formation. In this review, we summarize the updated progress in structure and function of TRAPP complexes as well as human diseases caused by genetic mutations in TRAPP.

  4. BEAMR: An interactive graphic computer program for design of charged particle beam transport systems

    NASA Technical Reports Server (NTRS)

    Leonard, R. F.; Giamati, C. C.

    1973-01-01

    A computer program for a PDP-15 is presented which calculates, to first order, the characteristics of charged-particle beam as it is transported through a sequence of focusing and bending magnets. The maximum dimensions of the beam envelope normal to the transport system axis are continuously plotted on an oscilloscope as a function of distance along the axis. Provision is made to iterate the calculation by changing the types of magnets, their positions, and their field strengths. The program is especially useful for transport system design studies because of the ease and rapidity of altering parameters from panel switches. A typical calculation for a system with eight elements is completed in less than 10 seconds. An IBM 7094 version containing more-detailed printed output but no oscilloscope display is also presented.

  5. Estimating Bacteria Emissions from Inversion of Atmospheric Transport: Sensitivity to Modelled Particle Characteristics

    SciTech Connect

    Burrows, Susannah M.; Rayner, Perter; Butler, T.; Lawrence, M.

    2013-06-04

    Model-simulated transport of atmospheric trace components can be combined with observed concentrations to obtain estimates of ground-based sources using various inversion techniques. These approaches have been applied in the past primarily to obtain source estimates for long-lived trace gases such as CO2. We consider the application of similar techniques to source estimation for atmospheric aerosols, by using as a case study the estimation of bacteria emissions from different ecosystem regions in the global atmospheric chemistry and climate model ECHAM5/MESSy-Atmospheric Chemistry (EMAC). Simulated particle concentrations in the tropopause region and at high latitudes, as well as transport of particles to tundra and land ice regions are shown to be highly sensitive to scavenging in mixed-phase clouds, which is poorly characterized in most global climate models. This may be a critical uncertainty in correctly simulating the transport of aerosol particles to the Arctic. Source estimation via Monte Carlo Markov Chain is applied to a suite of sensitivity simulations and the global mean emissions are estimated. We present an analysis of the partitioning of uncertainties in the global mean emissions that are attributable to particle size, CCN activity, the ice nucleation scavenging ratios for mixed-phase and cold clouds, and measurement error. Uncertainty due to CCN activity or to a 1 um error in particle size is typically between 10% and 40% of the uncertainty due to data uncertainty, as measured by the 5%-ile to 95%-ile range of the Monte Carlo ensemble. Uncertainty attributable to the ice nucleation scavenging ratio in mized-phase clouds is as high as 10% to 20% of the data uncertainty. Taken together, the four model 20 parameters examined contribute about half as much to the uncertainty in the estimated emissions as do the measurements. This was a surprisingly large contribution from model uncertainty in light of the substantial data uncertainty, which ranges from 81

  6. Changes In The Characteristics of Basaltic Particles During Different Transport Processes

    NASA Astrophysics Data System (ADS)

    Craddock, R. A.; Rose, T. R.

    2014-12-01

    The physical and chemical characteristics of the grains in sedimentary deposits can provide valuable clues about transport processes, distance traveled, and provenance. A fundamental physical characteristic is particle shape, which is diagnostic of transport process as well as the distance traveled. For example, it is possible to distinguish the emplacement process of sediments based entirely on the shape of the quartz grains in the deposit [e.g., Folk, 1980]. Such basic sedimentological concepts have been applied to our interpretation of surface materials on the terrestrial planets [e.g. Cabrol et al., 2014]. However, what we know about the nature of sedimentary materials is based primarily on sediments that have weathered from felsic rocks—granite. This is true because felsic materials compose most of the landmass on the Earth. Yet, the surface of Mars is composed predominately of mafic materials—basalt—and sedimentary particles derived from basalt are much different than those derived from granite. Instead of quartz, feldspar, and heavy minerals commonly found in most terrestrial sedimentary deposits, basaltic sediments are typically composed of varying amounts of olivine, pyroxene, plagioclase, and vitric and lithic fragments. Both the persistence of basaltic particles and their specific gravities are different than particles derived from granite. These differences are important because they will affect the characteristics of basaltic sediment as it is transported by wind, water, and ice, and currently we have little to no understanding as to how basaltic sediment will weather as a function of the transport mechanism and distance. We will present preliminary analyses of typical basaltic sediments that have been transported by a variety of geologic processes in Hawaii, including details about surface texture, componentry, and the influence different sedimentary processes may have on remote sensing data. The figure below shows examples of A) sediment

  7. Understanding how hydrodynamics affects particle transport in saturated fractures using modelling and experimental results

    NASA Astrophysics Data System (ADS)

    Cianflone, S.; Lakhian, V.; Dickson, S. E.

    2013-12-01

    Approximately 35% of Canadians and Americans utilize groundwater for drinking water and as such, it is essential to understand the mechanisms which may jeopardize this resource. Porous media aquifers typically provide significant removal of particulate contaminants (eg. viruses, bacteria); however, fractures in fractured rock aquifers and aquitards often provide pathways for particles to move in greater numbers and speed than in porous media. Thus, understanding flow and transport in fractures is important for the preservation and use of groundwater sources. Models based on coupling flow and transport equations can be used in understanding transport in fractures. Both experiments and simulations have shown that there are inconsistencies in current transport, attachment and detachment theory, particularly when particle size is varied. The assumption that hydrodynamic effects do not significantly affect transport of particles is likely untrue. As well, it has been shown that preferential flow paths occur in fractures, but the effects of path specific properties such as fracture geometry have yet to be thoroughly explored. It has been observed that eddies caused by local changes in geometry exist in fractures in the environment and models have demonstrated that such eddies will retard the flow of particles. In this work, two 2D fractures were randomly generated with a mean aperture of approximately 2mm. Finite element software, COMSOL Multiphysics, generated flow fields through the fractures by numerically solving the steady-state Navier-Stokes equation for varied flow rates. Eddies were observed in one of the fractures at both low (~1 m/day) and high (>100 m/day) velocities. A program was written using random walk particle tracking to simulate transport. Theories of attachment, detachment and matrix flow are not included in this model in order to isolate hydrodynamic forces. In combination with the modelling procedure, the two fractures were inscribed into pieces of

  8. Controlling the structure and dynamics of magnetoresponsive particle suspensions for enhanced transport phenomena

    NASA Astrophysics Data System (ADS)

    Solis, Kyle J.

    The work contained herein describes the use of various magnetic fields to control the structure and dynamics of magnetic particle suspensions, with the practical aim of enhancing momentum, heat, and mass transport. The magnetic fields are often multiaxial and can consist of up to three orthogonal components that may be either static (dc), time-dependent (ac), or some combination thereof. The magnetic particles are composed of a ferromagnetic material---such as iron, nickel, cobalt, or Permalloy---and can exist in a variety of shapes, including spheres, platelets, and rods. The shape of the particles is particularly important, as this can determine the type of behavior the suspension exhibits and can strongly affect the efficacy of various transport properties. The continuous phase can be almost any fluid so long as it possesses a viscosity that allows the particles to orient and aggregate in response to the applied field. Additionally, if the liquid is polymerizable (e.g., an epoxy system), then composite materials with particular, field-directed particle assemblies can be created. Given the many combinations of various particles, suspending fluids, and magnetic fields, a vast array of behavior is possible: the formation of anisotropic particle structures for directed heat transport for use as advanced thermal interface materials; the stimulation of emergent dynamics in platelet suspensions, which give rise to field-controllable flow lattices; and the creation of vortex fluids that possess a uniform torque density, enabling such strange behaviors as active wetting, a negative viscosity and striking biomimetic dynamics. Because the applied fields used to produce many of these phenomena are uniform and modest in strength, such adaptive fluids open up the possibility of tuning the degree of mixing or heat/mass transfer for specific operating conditions in a number of processes, ranging from the microscale to the industrial scale. Moreover, the very nature of magnetism

  9. Influencing factors on particle-bound contaminant transport in the Elbe estuary

    NASA Astrophysics Data System (ADS)

    Kleisinger, Carmen; Haase, Holger; Schubert, Birgit

    2016-04-01

    Particulate matter, i.e. suspended particulate matter and sediments in rivers and estuaries, often are contaminated with trace metals and selected organic contaminants and are mainly associated with fine-grained fractions. Transport processes and fate of particles in estuaries are influenced by several factors, e.g. freshwater discharge, tide, flow velocity and dredging activities (Kappenberg et al., 2007). Understanding the transport processes in estuaries may help to achieve the objectives of the Water Framework Directive and the Marine Strategy Framework Directive. The German Federal Institute of Hydrology (BfG) operates for more than 20 years five monitoring sites in the Elbe estuary in order to monitor the development of particle-bound contaminant concentrations over time and to understand their transport mechanisms. Results of the monitoring revealed freshwater discharge as an important influencing factor on the transport of contaminated particulate matter (Ackermann et al., 2007). The bidirectional transport of marine and fluvial water and particulate matter in estuaries results in a turbidity zone where large amounts of particulate matter are temporarily retained and thus in a delayed transport of particulate matter towards the sea. The extent and the location of the turbidity zone as well as the ratio of highly contaminated fluvial and less contaminated marine sediments at a given location are mainly influenced by the freshwater discharge (Kowalewska et al., 2011). Furthermore, at high freshwater discharge conditions the highly contaminated particulate matter from fluvial origin are transported downstream the estuary, whereas at low freshwater discharges, upstream transport of less contaminated marine sediments prevails. Hence, residence times of particulate matter in the estuary are difficult to estimate. Furthermore, sedimentation areas with flow reduced conditions, e.g. wadden areas or branches of the Elbe estuary, may act as sinks for particle bound

  10. Influence of diameter on particle transport in a fractured shale saprolite

    USGS Publications Warehouse

    Cumbie, D.H.; McKay, L.D.

    1999-01-01

    Experiments in an undisturbed, saturated column of weathered and fractured shale saprolite using fluorescent carboxylate-coated latex microspheres as tracers indicate that particle diameter plays a major role in controlling transport. In this study the optimum microsphere diameter for transport was approximately 0.5 ??m. Microspheres larger than the optimum size were present in the effluent at lower relative concentrations, apparently because of greater retention due to gravitational settling and/or physical straining. The smaller than optimum microspheres also experienced greater retention, apparently related to their higher rates of diffusion. Faster diffusion can lead to more frequent collisions with, and attachment to, fracture walls and may also lead to movement of particles into zones of relatively immobile pore water in the fractures or in the fine pore structure of the clay-rich matrix between fractures. Dismantling of the soil column and mapping of the distribution of retained microspheres indicated that there was substantial size-segregation of the microspheres between different fractures or in 'channels' within a fracture. Examination of small core samples showed that the smallest microspheres (0.05-0.1 ??m) were present in the fine pores of the matrix at distances of up to 3-4 mm from the nearest fracture, which supports the hypothesis that small particles can be retained by diffusion into the matrix. Calculations of settling velocity and diffusion rate using simple 1D approaches suggest that these processes could both cause significant retention of the larger and smaller particles, respectively, even for the fast advective transport rates (up to 32 m/day) observed during the experiments. Copyright (C) 1999 Elsevier Science B.V.

  11. Energy Transport Effects in Flaring Atmospheres Heated by Mixed Particle Beams

    NASA Astrophysics Data System (ADS)

    Zharkova, Valentina; Zharkov, Sergei; Macrae, Connor; Druett, Malcolm; Scullion, Eamon

    2016-07-01

    We investigate energy and particle transport in the whole flaring atmosphere from the corona to the photosphere and interior for the flaring events on the 1st July 2012, 6 and 7 September 2011 by using the RHESSI and SDO instruments as well as high-resolution observations from the Swedish 1-metre Solar Telescope (SST3) CRISP4 (CRisp Imaging Spectro-polarimeter). The observations include hard and soft X-ray emission, chromospheric emission in both H-alpha 656.3 nm core and continuum, as well as, in the near infra-red triplet Ca II 854.2 nm core and continuum channels and local helioseismic responses (sunquakes). The observations are compared with the simulations of hard X-ray emission and tested by hydrodynamic simulations of flaring atmospheres of the Sun heated by mixed particle beams. The temperature, density and macro-velocity variations of the ambient atmospheres are calculated for heating by mixed beams and the seismic response of the solar interior to generation of supersonic shocks moving into the solar interior. We investigate the termination depths of these shocks beneath the quiet photosphere levels and compare them with the parameters of seismic responses in the interior, or sunquakes (Zharkova and Zharkov, 2015). We also present an investigation of radiative conditions modelled in a full non-LTE approach for hydrogen during flare onsets with particular focus on Balmer and Paschen emission in the visible, near UV and near IR ranges and compare them with observations. The links between different observational features derived from HXR, optical and seismic emission are interpreted by different particle transport models that will allow independent evaluation of the particle transport scenarios.

  12. Sensory Ciliogenesis in Caenorhabditis elegans: Assignment of IFT Components into Distinct Modules Based on Transport and Phenotypic Profiles

    PubMed Central

    Ou, Guangshuo; Koga, Makato; Blacque, Oliver E.; Murayama, Takashi; Ohshima, Yasumi; Schafer, Jenny C.; Li, Chunmei; Yoder, Bradley K.

    2007-01-01

    Sensory cilium biogenesis within Caenorhabditis elegans neurons depends on the kinesin-2–dependent intraflagellar transport (IFT) of ciliary precursors associated with IFT particles to the axoneme tip. Here we analyzed the molecular organization of the IFT machinery by comparing the in vivo transport and phenotypic profiles of multiple proteins involved in IFT and ciliogenesis. Based on their motility in wild-type and bbs (Bardet-Biedl syndrome) mutants, IFT proteins were classified into groups with similar transport profiles that we refer to as “modules.” We also analyzed the distribution and transport of fluorescent IFT particles in multiple known ciliary mutants and 49 new ciliary mutants. Most of the latter mutants were snip-SNP mapped and one, namely dyf-14(ks69), was cloned and found to encode a conserved protein essential for ciliogenesis. The products of these ciliogenesis genes could also be assigned to the aforementioned set of modules or to specific aspects of ciliogenesis, based on IFT particle dynamics and ciliary mutant phenotypes. Although binding assays would be required to confirm direct physical interactions, the results are consistent with the hypothesis that the C. elegans IFT machinery has a modular design, consisting of modules IFT-subcomplex A, IFT-subcomplex B, and a BBS protein complex, in addition to motor and cargo modules, with each module contributing to distinct functional aspects of IFT or ciliogenesis. PMID:17314406

  13. Giving peeps to my props: Using 3D printing to shed new light on particle transport in fractured rock.

    NASA Astrophysics Data System (ADS)

    Walsh, S. D.; Du Frane, W. L.; Vericella, J. J.; Aines, R. D.

    2014-12-01

    Smart tracers and smart proppants promise new methods for sensing and manipulating rock fractures. However, the correct use and interpretation of these technologies relies on accurate models of their transport. Even for less exotic particles, the factors controlling particle transport through fractures are poorly understood. In this presentation, we will describe ongoing research at Lawrence Livermore National Laboratory into the transport properties of particles in natural rock fractures. Using three dimensional printing techniques, we create clear-plastic reproductions of real-world fracture surfaces, thereby enabling direct observation of the particle movement. We will also discuss how particle tracking of dense particle packs can be further enhanced by using such specially tailored flow cells in combination with micro-encapsulated tracer particles. Experimental results investigating the transport behavior of smart tracers and proppants close to the neutrally buoyant limit will be presented and we will describe how data from these experiments can be used to improve large-scale models of particle transport in fractures. This work performed under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory under Contract DE-AC52-07NA27344.

  14. Modeling fundamental plasma transport and particle-induced emission in a simplified Test Cell

    NASA Astrophysics Data System (ADS)

    Giuliano, Paul Nicholas

    This work involves the modeling of fundamental plasma physics processes occurring within environments that are similar to that of the discharge and plume regions of electric propulsion devices such as Hall effect thrusters. The research is conducted as a collaborative effort with the Plasma & Space Propulsion Laboratory at the University of California, Los Angeles (UCLA), as part of the University of Michigan/AFRL Center for Excellence in Electric Propulsion (MACEEP). Transport physics, such as particle-particle collisions and particle-induced electron emission, are simulated within the UCLA experimental facility and its representative electric propulsion environment. Simulation methods employed include the direct simulation Monte Carlo (DSMC) and particle-in-cell (PIC) techniques for the kinetic simulation of charged, rarefied species on high-performance computing architectures. Momentum- (MEX) and charge-exchange (CEX) collision cross-section models for Xe and Xe+, both total and differential, are successfully validated at collision energies of ˜1.5 keV within the novel facility. Heavy-species collisional transport models are validated and the importance of scattering anisotropy in this collision-dominated environment is shown. The theory of particle-induced electron emission (PIE) is then investigated in the context of the relevant energies and environments of the UCLA facility and electric propulsion devices and diagnostics. Reduced, semi-empirical models for total yield and emitted electron energy distribution functions that are easily implemented in a DSMC-PIC code are developed for the simulation of secondary-electron emission due to low-energy ions and high-energy atoms, even in the case of incomplete target-material information. These models are important for the characterization of electric propulsion devices due to the problematic nature of low-temperature plasma diagnostic techniques in which the emission of electrons is physically indistinguishable

  15. Accuracy of momentum and gyrodensity transport in global gyrokinetic particle-in-cell simulations

    NASA Astrophysics Data System (ADS)

    McMillan, B. F.; Villard, L.

    2014-05-01

    Gyrokinetic Particle-In-Cell (PIC) simulations based on conservative Lagrangian formalisms admit transport equations for conserved quantities such as gyrodensity and toroidal momentum, and these can be derived for arbitrary wavelength, even though previous applications have used the long-wavelength approximation. In control-variate PIC simulations, a consequence of the different treatment of the background (f0) and perturbed parts (δf), when a splitting f = f0 + δf is performed, is that analytical transport relations for the relevant fluxes and moments are only reproduced in the large marker number limit. The transport equations for f can be used to write the inconsistency in the perturbed quantities explicitly in terms of the sampling of the background distribution f0. This immediately allows estimates of the error in consistency of momentum transport in control-variate PIC simulations. This inconsistency tends to accumulate secularly and is not directly affected by the sources and noise control in the system. Although physical tokamaks often rotate quite strongly, the standard gyrokinetic formalism assumes weak perpendicular flows, comparable to the drift speed. For systems with such weak flows, maintaining acceptably small relative errors requires that a number of markers scale with the fourth power of the linear system size to consistently resolve long-wavelength evolution. To avoid this unfavourable scaling, an algorithm for exact gyrodensity transport has been developed, and this is shown to allow accurate simulations with an order of magnitude fewer markers.

  16. Accuracy of momentum and gyrodensity transport in global gyrokinetic particle-in-cell simulations

    SciTech Connect

    McMillan, B. F.; Villard, L.

    2014-05-15

    Gyrokinetic Particle-In-Cell (PIC) simulations based on conservative Lagrangian formalisms admit transport equations for conserved quantities such as gyrodensity and toroidal momentum, and these can be derived for arbitrary wavelength, even though previous applications have used the long-wavelength approximation. In control-variate PIC simulations, a consequence of the different treatment of the background (f{sub 0}) and perturbed parts (δf), when a splitting f = f{sub 0} + δf is performed, is that analytical transport relations for the relevant fluxes and moments are only reproduced in the large marker number limit. The transport equations for f can be used to write the inconsistency in the perturbed quantities explicitly in terms of the sampling of the background distribution f{sub 0}. This immediately allows estimates of the error in consistency of momentum transport in control-variate PIC simulations. This inconsistency tends to accumulate secularly and is not directly affected by the sources and noise control in the system. Although physical tokamaks often rotate quite strongly, the standard gyrokinetic formalism assumes weak perpendicular flows, comparable to the drift speed. For systems with such weak flows, maintaining acceptably small relative errors requires that a number of markers scale with the fourth power of the linear system size to consistently resolve long-wavelength evolution. To avoid this unfavourable scaling, an algorithm for exact gyrodensity transport has been developed, and this is shown to allow accurate simulations with an order of magnitude fewer markers.

  17. Parameterization of particle transport at submesoscales in the Gulf Stream region using Lagrangian subgridscale models

    NASA Astrophysics Data System (ADS)

    Haza, Angelique C.; Özgökmen, Tamay M.; Griffa, Annalisa; Garraffo, Zulema D.; Piterbarg, Leonid

    Ocean model fields are being routinely used for forecasting the spreading of pollutants, oil spills, and for biogeochemical transport. Recent observations and advances in our understanding of ocean processes indicate there is an explosion of flow instabilities in the submesoscale range. While submesoscale flows have a significant impact on transport at their own scales, they require much more extensive data sets and numerical computations. Therefore, transport carried out by submesoscale flows is quite challenging to approach deterministically. In this study, we put forward a hybrid approach by combining deterministic Lagrangian coherent structures (LCS) to compute transport over the mesoscale range with statistical Lagrangian subgridscale (LSGS) models for the underresolved submesoscale motions. We apply this approach to particle transport in the Gulf Stream region, which exhibits indications of submesoscale activity from both models and observations. We consider HYCOM solutions at two resolutions. In the 1/12° computation, mesoscale features are well resolved but submesoscales are not resolved, while the 1/48° computation captures some of the submesoscale flow instabilities as well. By using metrics of relative dispersion, we investigate three LSGS models and demonstrate that they can be useful in correcting the underestimation of submesoscale dispersion in the 1/12° solution, with respect to relative dispersion obtained from the 1/48° solution and an observational result.

  18. Modelling transport of decay chains by particle displacement along random trajectories

    NASA Astrophysics Data System (ADS)

    Cvetkovic, V.; Painter, S.; Frampton, A.

    2005-12-01

    The streamtube/trajectory approach to modelling solute transport in the subsurface is widely used in applications, from numerical simulations (method of characteristics) to analytical models (Dagan). The trajectory approach has a solid foundation in chemical engineering and hydrodynamics. However, its main limitation is that the (semi)analytical solutions for incorporating retention processes, as proposed by Dagan and Cvetkovic among others, are applicable only to a single species partitioned into mobile and immobile phases. We propose a new methodology for simulating transport of multiple species (exemplified by decay chains) subject to random advection and retention in heterogeneous porous media. The method is based on displacing dynamically inert particles along random trajectories. We first demonstrate the accuracy of the method for a two-component chain with linear equilibrium sorption and hydrodynamic transport governed by the advection-dispersion equation, where an analytical solution is available. We then test the applicability of the method by considering a three- component decay chain in a two-dimensional fractured porous medium, where highly non-Gaussian advective transport has been simulated using a discrete fracture network model, and the retention processes are controlled by Fickian diffusion into the rock matrix. These tests in combination demonstrate that the proposed methodology is efficient and accurate, thus opening possibilities for studying transport of interacting species subject to more complex chemical reactions, where random advection and retention (Gaussian or non-Gaussian) can be fully incorporated into the modelling.

  19. Results and perspectives of particle transport measurements in gases in microgravity

    NASA Astrophysics Data System (ADS)

    Vedernikov, Andrei; Balapanov, Daniyar; Beresnev, Sergey

    2016-07-01

    Solid or liquid particles floating in a gas belong to dispersed systems, most often referred to as aerosols or dust clouds. They are widely spread in nature, involving both environmental and technological issues. They attract growing attention in microgravity, particularly in complex plasma, simulation of protoplanetary dust clouds, atmospheric aerosol, etc. Brownian random walk, motion of particles in gravity, electrostatic and magnetic fields, are well defined. We present the survey showing that the quantitative description of a vast variety of other types of motion is much less accurate, often known only in a limited region of parameters, sometimes described by the contradictory models, poorly verified experimentally. It is true even for the most extensively investigated transport phenomena - thermophoresis and photophoresis, not to say about diffusiophoresis, gravito-photophoresis, various other types of particle motion driven by physicochemical transformation and accommodation peculiarities on the particle-gas interface, combination of different processes. The number of publications grow very quickly, only those dealing with thermophoresis exceeded 300 in 2015. Hence, there is a strong need in high quality experimental data on particle transport properties with growing interest to expand the scope for non-isometric particles, agglomerates, dense clouds, interrelation with the two-phase flow dynamics. In most cases, the accuracy and sometimes the entire possibility of the measurement is limited by the presence of gravity. Floating particles have the density considerably different from that of the gas. They sediment, often with gliding and tumbling, that perturbs the motion trajectory, local hydrodynamic environment around particles, all together complicating definition of the response. Measurements at very high or very low Knudsen numbers (rarefied gas or too big particles) are of particular difficulty. Experiments assume creating a well-defined force, i

  20. Modeling parameterized geometry in GPU-based Monte Carlo particle transport simulation for radiotherapy

    NASA Astrophysics Data System (ADS)

    Chi, Yujie; Tian, Zhen; Jia, Xun

    2016-08-01

    Monte Carlo (MC) particle transport simulation on a graphics-processing unit (GPU) platform has been extensively studied recently due to the efficiency advantage achieved via massive parallelization. Almost all of the existing GPU-based MC packages were developed for voxelized geometry. This limited application scope of these packages. The purpose of this paper is to develop a module to model parametric geometry and integrate it in GPU-based MC simulations. In our module, each continuous region was defined by its bounding surfaces that were parameterized by quadratic functions. Particle navigation functions in this geometry were developed. The module was incorporated to two previously developed GPU-based MC packages and was tested in two example problems: (1) low energy photon transport simulation in a brachytherapy case with a shielded cylinder applicator and (2) MeV coupled photon/electron transport simulation in a phantom containing several inserts of different shapes. In both cases, the calculated dose distributions agreed well with those calculated in the corresponding voxelized geometry. The averaged dose differences were 1.03% and 0.29%, respectively. We also used the developed package to perform simulations of a Varian VS 2000 brachytherapy source and generated a phase-space file. The computation time under the parameterized geometry depended on the memory location storing the geometry data. When the data was stored in GPU’s shared memory, the highest computational speed was achieved. Incorporation of parameterized geometry yielded a computation time that was ~3 times of that in the corresponding voxelized geometry. We also developed a strategy to use an auxiliary index array to reduce frequency of geometry calculations and hence improve efficiency. With this strategy, the computational time ranged in 1.75–2.03 times of the voxelized geometry for coupled photon/electron transport depending on the voxel dimension of the auxiliary index array, and in 0

  1. Modeling parameterized geometry in GPU-based Monte Carlo particle transport simulation for radiotherapy

    NASA Astrophysics Data System (ADS)

    Chi, Yujie; Tian, Zhen; Jia, Xun

    2016-08-01

    Monte Carlo (MC) particle transport simulation on a graphics-processing unit (GPU) platform has been extensively studied recently due to the efficiency advantage achieved via massive parallelization. Almost all of the existing GPU-based MC packages were developed for voxelized geometry. This limited application scope of these packages. The purpose of this paper is to develop a module to model parametric geometry and integrate it in GPU-based MC simulations. In our module, each continuous region was defined by its bounding surfaces that were parameterized by quadratic functions. Particle navigation functions in this geometry were developed. The module was incorporated to two previously developed GPU-based MC packages and was tested in two example problems: (1) low energy photon transport simulation in a brachytherapy case with a shielded cylinder applicator and (2) MeV coupled photon/electron transport simulation in a phantom containing several inserts of different shapes. In both cases, the calculated dose distributions agreed well with those calculated in the corresponding voxelized geometry. The averaged dose differences were 1.03% and 0.29%, respectively. We also used the developed package to perform simulations of a Varian VS 2000 brachytherapy source and generated a phase-space file. The computation time under the parameterized geometry depended on the memory location storing the geometry data. When the data was stored in GPU’s shared memory, the highest computational speed was achieved. Incorporation of parameterized geometry yielded a computation time that was ~3 times of that in the corresponding voxelized geometry. We also developed a strategy to use an auxiliary index array to reduce frequency of geometry calculations and hence improve efficiency. With this strategy, the computational time ranged in 1.75-2.03 times of the voxelized geometry for coupled photon/electron transport depending on the voxel dimension of the auxiliary index array, and in 0

  2. Modeling parameterized geometry in GPU-based Monte Carlo particle transport simulation for radiotherapy.

    PubMed

    Chi, Yujie; Tian, Zhen; Jia, Xun

    2016-08-01

    Monte Carlo (MC) particle transport simulation on a graphics-processing unit (GPU) platform has been extensively studied recently due to the efficiency advantage achieved via massive parallelization. Almost all of the existing GPU-based MC packages were developed for voxelized geometry. This limited application scope of these packages. The purpose of this paper is to develop a module to model parametric geometry and integrate it in GPU-based MC simulations. In our module, each continuous region was defined by its bounding surfaces that were parameterized by quadratic functions. Particle navigation functions in this geometry were developed. The module was incorporated to two previously developed GPU-based MC packages and was tested in two example problems: (1) low energy photon transport simulation in a brachytherapy case with a shielded cylinder applicator and (2) MeV coupled photon/electron transport simulation in a phantom containing several inserts of different shapes. In both cases, the calculated dose distributions agreed well with those calculated in the corresponding voxelized geometry. The averaged dose differences were 1.03% and 0.29%, respectively. We also used the developed package to perform simulations of a Varian VS 2000 brachytherapy source and generated a phase-space file. The computation time under the parameterized geometry depended on the memory location storing the geometry data. When the data was stored in GPU's shared memory, the highest computational speed was achieved. Incorporation of parameterized geometry yielded a computation time that was ~3 times of that in the corresponding voxelized geometry. We also developed a strategy to use an auxiliary index array to reduce frequency of geometry calculations and hence improve efficiency. With this strategy, the computational time ranged in 1.75-2.03 times of the voxelized geometry for coupled photon/electron transport depending on the voxel dimension of the auxiliary index array, and in 0

  3. Vesicular transport of progeny parvovirus particles through ER and Golgi regulates maturation and cytolysis.

    PubMed

    Bär, Séverine; Rommelaere, Jean; Nüesch, Jürg P F

    2013-09-01

    Progeny particles of non-enveloped lytic parvoviruses were previously shown to be actively transported to the cell periphery through vesicles in a gelsolin-dependent manner. This process involves rearrangement and destruction of actin filaments, while microtubules become protected throughout the infection. Here the focus is on the intracellular egress pathway, as well as its impact on the properties and release of progeny virions. By colocalization with cellular marker proteins and specific modulation of the pathways through over-expression of variant effector genes transduced by recombinant adeno-associated virus vectors, we show that progeny PV particles become engulfed into COPII-vesicles in the endoplasmic reticulum (ER) and are transported through the Golgi to the plasma membrane. Besides known factors like sar1, sec24, rab1, the ERM family proteins, radixin and moesin play (an) essential role(s) in the formation/loading and targeting of virus-containing COPII-vesicles. These proteins also contribute to the transport through ER and Golgi of the well described analogue of cellular proteins, the secreted Gaussia luciferase in absence of virus infection. It is therefore likely that radixin and moesin also serve for a more general function in cellular exocytosis. Finally, parvovirus egress via ER and Golgi appears to be necessary for virions to gain full infectivity through post-assembly modifications (e.g. phosphorylation). While not being absolutely required for cytolysis and progeny virus release, vesicular transport of parvoviruses through ER and Golgi significantly accelerates these processes pointing to a regulatory role of this transport pathway.

  4. Modeling parameterized geometry in GPU-based Monte Carlo particle transport simulation for radiotherapy.

    PubMed

    Chi, Yujie; Tian, Zhen; Jia, Xun

    2016-08-01

    Monte Carlo (MC) particle transport simulation on a graphics-processing unit (GPU) platform has been extensively studied recently due to the efficiency advantage achieved via massive parallelization. Almost all of the existing GPU-based MC packages were developed for voxelized geometry. This limited application scope of these packages. The purpose of this paper is to develop a module to model parametric geometry and integrate it in GPU-based MC simulations. In our module, each continuous region was defined by its bounding surfaces that were parameterized by quadratic functions. Particle navigation functions in this geometry were developed. The module was incorporated to two previously developed GPU-based MC packages and was tested in two example problems: (1) low energy photon transport simulation in a brachytherapy case with a shielded cylinder applicator and (2) MeV coupled photon/electron transport simulation in a phantom containing several inserts of different shapes. In both cases, the calculated dose distributions agreed well with those calculated in the corresponding voxelized geometry. The averaged dose differences were 1.03% and 0.29%, respectively. We also used the developed package to perform simulations of a Varian VS 2000 brachytherapy source and generated a phase-space file. The computation time under the parameterized geometry depended on the memory location storing the geometry data. When the data was stored in GPU's shared memory, the highest computational speed was achieved. Incorporation of parameterized geometry yielded a computation time that was ~3 times of that in the corresponding voxelized geometry. We also developed a strategy to use an auxiliary index array to reduce frequency of geometry calculations and hence improve efficiency. With this strategy, the computational time ranged in 1.75-2.03 times of the voxelized geometry for coupled photon/electron transport depending on the voxel dimension of the auxiliary index array, and in 0

  5. Vesicular Transport of Progeny Parvovirus Particles through ER and Golgi Regulates Maturation and Cytolysis

    PubMed Central

    Bär, Séverine; Rommelaere, Jean; Nüesch, Jürg P. F.

    2013-01-01

    Progeny particles of non-enveloped lytic parvoviruses were previously shown to be actively transported to the cell periphery through vesicles in a gelsolin-dependent manner. This process involves rearrangement and destruction of actin filaments, while microtubules become protected throughout the infection. Here the focus is on the intracellular egress pathway, as well as its impact on the properties and release of progeny virions. By colocalization with cellular marker proteins and specific modulation of the pathways through over-expression of variant effector genes transduced by recombinant adeno-associated virus vectors, we show that progeny PV particles become engulfed into COPII-vesicles in the endoplasmic reticulum (ER) and are transported through the Golgi to the plasma membrane. Besides known factors like sar1, sec24, rab1, the ERM family proteins, radixin and moesin play (an) essential role(s) in the formation/loading and targeting of virus-containing COPII-vesicles. These proteins also contribute to the transport through ER and Golgi of the well described analogue of cellular proteins, the secreted Gaussia luciferase in absence of virus infection. It is therefore likely that radixin and moesin also serve for a more general function in cellular exocytosis. Finally, parvovirus egress via ER and Golgi appears to be necessary for virions to gain full infectivity through post-assembly modifications (e.g. phosphorylation). While not being absolutely required for cytolysis and progeny virus release, vesicular transport of parvoviruses through ER and Golgi significantly accelerates these processes pointing to a regulatory role of this transport pathway. PMID:24068925

  6. Modeling of advection-diffusion-reaction processes using transport dissipative particle dynamics

    NASA Astrophysics Data System (ADS)

    Li, Zhen; Yazdani, Alireza; Tartakovsky, Alexandre; Karniadakis, George Em

    2015-11-01

    We present a transport dissipative particle dynamics (tDPD) model for simulating mesoscopic problems involving advection-diffusion-reaction (ADR) processes, along with a methodology for implementation of the correct Dirichlet and Neumann boundary conditions in tDPD simulations. In particular, the transport of concentration is modeled by a Fickian flux and a random flux between tDPD particles, and the advection is implicitly considered by the movements of Lagrangian particles. To validate the proposed tDPD model and the boundary conditions, three benchmark simulations of one-dimensional diffusion with different boundary conditions are performed, and the results show excellent agreement with the theoretical solutions. Also, two-dimensional simulations of ADR systems are performed and the tDPD simulations agree well with the results obtained by the spectral element method. Finally, an application of tDPD to the spatio-temporal dynamics of blood coagulation involving twenty-five reacting species is performed to demonstrate the promising biological applications of the tDPD model. Supported by the DOE Center on Mathematics for Mesoscopic Modeling of Materials (CM4) and an INCITE grant.

  7. Creating and using a type of free-form geometry in Monte Carlo particle transport

    SciTech Connect

    Wessol, D.E.; Wheeler, F.J. )

    1993-04-01

    While the reactor physicists were fine-tuning the Monte Carlo paradigm for particle transport in regular geometries, the computer scientists were developing rendering algorithms to display extremely realistic renditions of irregular objects ranging from the ubiquitous teakettle to dynamic Jell-O. Even though the modeling methods share a common basis, the initial strategies each discipline developed for variance reduction were remarkably different. Initially, the reactor physicist used Russian roulette, importance sampling, particle splitting, and rejection techniques. In the early stages of development, the computer scientist relied primarily on rejection techniques, including a very elegant hierarchical construction and sampling method. This sampling method allowed the computer scientist to viably track particles through irregular geometries in three-dimensional space, while the initial methods developed by the reactor physicists would only allow for efficient searches through analytical surfaces or objects. As time goes by, it appears there has been some merging of the variance reduction strategies between the two disciplines. This is an early (possibly first) incorporation of geometric hierarchical construction and sampling into the reactor physicists' Monte Carlo transport model that permits efficient tracking through nonuniform rational B-spline surfaces in three-dimensional space. After some discussion, the results from this model are compared with experiments and the model employing implicit (analytical) geometric representation.

  8. Investigation of nonthermal particle effects on ionization dynamics in high current density ion beam transport experiments

    NASA Astrophysics Data System (ADS)

    Chung, H. K.; MacFarlane, J. J.; Wang, P.; Moses, G. A.; Bailey, J. E.; Olson, C. L.; Welch, D. R.

    1997-01-01

    Light ion inertial fusion experiments require the presence of a moderate density background gas in the transport region to provide charge and current neutralization for a high current density ion beam. In this article, we investigate the effects of nonthermal particles such as beam ions or non-Maxwellian electron distributions on the ionization dynamics of the background gas. In particular, we focus on the case of Li beams being transported in an argon gas. Nonthermal particles as well as thermal electrons are included in time-dependent collisional-radiative calculations to determine time-dependent atomic level populations and charge state distributions in a beam-produced plasma. We also briefly discuss the effects of beam ions and energetic electrons on the visible and vacuum ultraviolet (VUV) spectral regions. It is found that the mean charge state of the gas, and hence the electron density, is significantly increased by collisions with energetic particles. This higher ionization significantly impacts the VUV spectral region, where numerous resonance lines occur. On the other hand, the visible spectrum tends to be less affected because the closely spaced excited states are populated by lower energy thermal electrons.

  9. Impact of the background toroidal rotation on particle and heat turbulent transport in tokamak plasmas

    SciTech Connect

    Camenen, Y.; Peeters, A. G.; Casson, F. J.; Hornsby, W. A.; Snodin, A. P.; Angioni, C.; Strintzi, D.

    2009-01-15

    Recent developments in the gyrokinetic theory have shown that, in a toroidal device, the Coriolis drift associated with the background plasma rotation significantly affects the small scale instabilities [A. G. Peeters et al., Phys. Rev. Lett. 98, 265003 (2007)]. The later study, which focuses on the effect of the Coriolis drift on toroidal momentum transport is extended in the present paper to heat and particle transport. It is shown numerically using the gyrokinetic flux-tube code GKW[A. G. Peeters and D. Strintzi, Phys. Plasmas 11, 3748 (2004)], and supported analytically, that the Coriolis drift and the parallel dynamics play a similar role in the coupling of density, temperature, and velocity perturbations. The effect on particle and heat fluxes increases with the toroidal rotation (directly) and with the toroidal rotation gradient (through the parallel mode structure), depends on the direction of propagation of the perturbation, increases with the impurity charge number and with the impurity mass to charge number ratio. The case of very high toroidal rotation, relevant to spherical tokamaks, is investigated by including the effect of the centrifugal force in a fluid model. The main effect of the centrifugal force is to decrease the local density gradient at the low field side midplane and to add an extra contribution to the fluxes. The conditions for which the inertial terms significantly affect the heat and particle fluxes are evidenced.

  10. Modeling cross-field transport of solar energetic particles including solar wind effects

    NASA Astrophysics Data System (ADS)

    Lampa, Florian; Kallenrode, May-Britt

    Under consideration of solar wind effects, we have extended the Ruffolo's equation of focused transport for solar energetic particles to accommodate perpendicular transport in the ecliptic plane, and made a different approach concerning the reference frame. Numerically, the additional transport term is solved with the implicit and stable Laasonen scheme. In parameter studies and fits to observations for typical ratios κ⊥ /κ ranging between 0.02 and 0.1 at 1 AU as suggested in numerous studies (e.g. non-linear guiding-center theory) and a scaling of κ⊥ with r2 as suggested from the random walk of field lines as well as from numerical simulations, we find that azimuthal spread as well as the variation of maximum intensities with longitude is comparable to the ones inferred from multi-spacecraft observations. Implications for the interpretation of the observed intensity and anisotropy time profiles and consequences for our understanding of particle propagation and acceleration in space will be discussed.

  11. GPU accelerated simulations of 3D deterministic particle transport using discrete ordinates method

    SciTech Connect

    Gong Chunye; Liu Jie; Chi Lihua; Huang Haowei; Fang Jingyue; Gong Zhenghu

    2011-07-01

    Graphics Processing Unit (GPU), originally developed for real-time, high-definition 3D graphics in computer games, now provides great faculty in solving scientific applications. The basis of particle transport simulation is the time-dependent, multi-group, inhomogeneous Boltzmann transport equation. The numerical solution to the Boltzmann equation involves the discrete ordinates (S{sub n}) method and the procedure of source iteration. In this paper, we present a GPU accelerated simulation of one energy group time-independent deterministic discrete ordinates particle transport in 3D Cartesian geometry (Sweep3D). The performance of the GPU simulations are reported with the simulations of vacuum boundary condition. The discussion of the relative advantages and disadvantages of the GPU implementation, the simulation on multi GPUs, the programming effort and code portability are also reported. The results show that the overall performance speedup of one NVIDIA Tesla M2050 GPU ranges from 2.56 compared with one Intel Xeon X5670 chip to 8.14 compared with one Intel Core Q6600 chip for no flux fixup. The simulation with flux fixup on one M2050 is 1.23 times faster than on one X5670.

  12. Effects of Natural Organic Matter on Stability, Transport and Deposition of Engineered Nano-particles in Porous Media

    EPA Science Inventory

    The interaction of nano-particles and organic substances, like natural organic matter, could have significant influence on the fate, transport and bioavailability of toxic substances. Natural organic matter (NOM) is a mixture of chemically complex polyelectrolytes with varying m...

  13. The Energetic Particles: Acceleration, Composition, and Transport (EPACT) investigation on the WIND spacecraft

    NASA Astrophysics Data System (ADS)

    von Rosenvinge, T. T.; Barbier, L. M.; Karsch, J.; Liberman, R.; Madden, M. P.; Nolan, T.; Reames, D. V.; Ryan, L.; Singh, S.; Trexel, H.; Winkert, G.; Mason, G. M.; Hamilton, D. C.; Walpole, P.

    1995-02-01

    The Energetic Particles: Acceleration, Composition, and Transport (EPACT) investigation is designed to make comprehensive observations of solar, interplanetary, and galactic particles over wide ranges of charge, mass, energy, and intensity using a combination of 8 different particle telescopes. This paper summarizes the scientific goals of EPACT and provides a detailed description of the instrument design and capabilities. Electrons are measured from 0.2 to 10 MeV, primarily providing time markers for injections of solar particles. Hydrogen is measured from 1.4 to 120 MeV, and Helium is measured from 0.04 to 500 MeV nucl-1. The collection powers and energy ranges for heavier nuclei up to iron are ideal for observations of quiet-time populations such as particles accelerated by interplanetary shocks and the anomalous cosmic rays (thought to be accelerated at the boundary of the heliosphere). The large collection power available is also ideal for observations of3He,4He, and heavier nuclei in impulsive3He-rich solar events. There is even the possibility of observing ultra heavy nuclei (Z>30) in large solar events for the first time. Finally, there is a telescope designed to measure isotopes from He (3.4 55 MeV nucl-1) to Fe (12 230 MeV nucl-1), which is intended for solar particles, the anomalous cosmic rays and galactic cosmic rays. The overall capabilities of EPACT provide scientifically interesting measurements over all phases of the solar cycle. There will also be important opportunities for combined studies with other spacecraft, such as SAMPEX, Ulysses, and Voyagers 1 and 2.

  14. Development of perturbation Monte Carlo methods for polarized light transport in a discrete particle scattering model.

    PubMed

    Nguyen, Jennifer; Hayakawa, Carole K; Mourant, Judith R; Venugopalan, Vasan; Spanier, Jerome

    2016-05-01

    We present a polarization-sensitive, transport-rigorous perturbation Monte Carlo (pMC) method to model the impact of optical property changes on reflectance measurements within a discrete particle scattering model. The model consists of three log-normally distributed populations of Mie scatterers that approximate biologically relevant cervical tissue properties. Our method provides reflectance estimates for perturbations across wavelength and/or scattering model parameters. We test our pMC model performance by perturbing across number densities and mean particle radii, and compare pMC reflectance estimates with those obtained from conventional Monte Carlo simulations. These tests allow us to explore different factors that control pMC performance and to evaluate the gains in computational efficiency that our pMC method provides. PMID:27231642

  15. Development of perturbation Monte Carlo methods for polarized light transport in a discrete particle scattering model

    PubMed Central

    Nguyen, Jennifer; Hayakawa, Carole K.; Mourant, Judith R.; Venugopalan, Vasan; Spanier, Jerome

    2016-01-01

    We present a polarization-sensitive, transport-rigorous perturbation Monte Carlo (pMC) method to model the impact of optical property changes on reflectance measurements within a discrete particle scattering model. The model consists of three log-normally distributed populations of Mie scatterers that approximate biologically relevant cervical tissue properties. Our method provides reflectance estimates for perturbations across wavelength and/or scattering model parameters. We test our pMC model performance by perturbing across number densities and mean particle radii, and compare pMC reflectance estimates with those obtained from conventional Monte Carlo simulations. These tests allow us to explore different factors that control pMC performance and to evaluate the gains in computational efficiency that our pMC method provides. PMID:27231642

  16. Advanced methods in global gyrokinetic full f particle simulation of tokamak transport

    SciTech Connect

    Ogando, F.; Heikkinen, J. A.; Henriksson, S.; Janhunen, S. J.; Kiviniemi, T. P.; Leerink, S.

    2006-11-30

    A new full f nonlinear gyrokinetic simulation code, named ELMFIRE, has been developed for simulating transport phenomena in tokamak plasmas. The code is based on a gyrokinetic particle-in-cell algorithm, which can consider electrons and ions jointly or separately, as well as arbitrary impurities. The implicit treatment of the ion polarization drift and the use of full f methods allow for simulations of strongly perturbed plasmas including wide orbit effects, steep gradients and rapid dynamic changes. This article presents in more detail the algorithms incorporated into ELMFIRE, as well as benchmarking comparisons to both neoclassical theory and other codes.Code ELMFIRE calculates plasma dynamics by following the evolution of a number of sample particles. Because of using an stochastic algorithm its results are influenced by statistical noise. The effect of noise on relevant magnitudes is analyzed.Turbulence spectra of FT-2 plasma has been calculated with ELMFIRE, obtaining results consistent with experimental data.

  17. Data decomposition of Monte Carlo particle transport simulations via tally servers

    SciTech Connect

    Romano, Paul K.; Siegel, Andrew R.; Forget, Benoit; Smith, Kord

    2013-11-01

    An algorithm for decomposing large tally data in Monte Carlo particle transport simulations is developed, analyzed, and implemented in a continuous-energy Monte Carlo code, OpenMC. The algorithm is based on a non-overlapping decomposition of compute nodes into tracking processors and tally servers. The former are used to simulate the movement of particles through the domain while the latter continuously receive and update tally data. A performance model for this approach is developed, suggesting that, for a range of parameters relevant to LWR analysis, the tally server algorithm should perform with minimal overhead on contemporary supercomputers. An implementation of the algorithm in OpenMC is then tested on the Intrepid and Titan supercomputers, supporting the key predictions of the model over a wide range of parameters. We thus conclude that the tally server algorithm is a successful approach to circumventing classical on-node memory constraints en route to unprecedentedly detailed Monte Carlo reactor simulations.

  18. Improved discrete ordinates calculations for an approximate model of neutral particle transport in ducts

    SciTech Connect

    Garcia, R.D.M.; Ono, S.

    1999-09-01

    An improved implementation of the discrete ordinates method for computing neutral particle transport in ducts is presented. The considered one-dimensional model makes use of two basic functions to represent the transverse and azimuthal dependencies of the particle angular flux in the duct. It is shown that if the problem is decomposed into uncollided and collided problems prior to using the discrete ordinates approximation, the number of ordinates necessary to achieve a desired degree of accuracy in the solution can be greatly reduced, especially for long ducts with significant wall absorption. Further savings in computer time can be attained by employing a composite quadrature based on a (nonstandard) half-range quadrature that can be generated in an effective and efficient way with one of the classical methods in the constructive theory of orthogonal polynomials.

  19. Towards next-to-leading order transport coefficients from the four-particle irreducible effective action

    SciTech Connect

    Carrington, M. E.; Kovalchuk, E.

    2010-03-15

    Transport coefficients can be obtained from two-point correlators using the Kubo formulas. It has been shown that the full leading order result for electrical conductivity and (QCD) shear viscosity is contained in the resummed two-point function that is obtained from the three-loop three-particle irreducible resummed effective action. The theory produces all leading order contributions without the necessity for power counting, and in this sense it provides a natural framework for the calculation. In this article we study the four-loop four-particle irreducible effective action for a scalar theory with cubic and quartic interactions, with a nonvanishing field expectation value. We obtain a set of integral equations that determine the resummed two-point vertex function. A next-to-leading order contribution to the viscosity could be obtained from this set of coupled equations.

  20. Measurements of fast-ion transport by mode-particle resonances on DIII-D

    NASA Astrophysics Data System (ADS)

    Muscatello, C. M.; Grierson, B. A.; Harvey, R. W.; Heidbrink, W. W.; Pace, D. C.; Van Zeeland, M. A.

    2012-10-01

    Magnetohydrodynamic (MHD) instabilities in tokamak plasmas manifest in a variety of ways, characterized by different scale lengths and mode frequencies. MHD activity can cause significant degradation of plasma performance due to transport of particles, energy and current. Among the many different types of MHD, arguably fishbones, sawteeth and Alfvén eigenmodes (AEs) are observed to cause the largest fluxes of superthermal ions. DIII-D's expansive suite of diagnostics makes it possible to rigorously characterize these instabilities and study their interaction with fast ions. This review paper first presents an overview of the recent additions to DIII-D's collection of fast-ion diagnostics. The extended diagnostic capabilities are employed in a series of experiments to investigate fast-ion dynamics in the presence of fishbones, sawteeth and AEs. Results from these seemingly unrelated studies are highlighted, and they reveal that mode-particle resonances play the central role in the observed deterioration of fast-ion confinement.

  1. Modelling the transport of deuterium and tritium neutral particles in a divertor plasma

    NASA Astrophysics Data System (ADS)

    Tokar, M. Z.; Kotov, V.

    2012-10-01

    A fluid model for transport of deuterium and tritium atoms in two-dimensional geometry of a poloidal divertor is elaborated by taking into account the coupling of both isotopes through the processes of cross-charge-exchange. Calculations are performed for the plasma parameters predicted with the code package B2-EIRENE (SOLPS4.3) for the divertor region in ITER. The results demonstrate that the transparency of the scrape-off layer for neutral particles generated by recycling on target plates and recombination of electrons and ions in the plasma volume can be significantly different for deuterium and tritium atoms. This difference has to be taken into account by considering the global particle balances in a reactor. The numerical approach applied for calculations is verified by comparing with an analytical model elaborated for the case of plasma parameters homogeneous in the divertor domain.

  2. Flow and Transport in Smooth and Rough Unsaturated Wide Aperture Fractures with Smoothed Particle Hydrodynamics

    NASA Astrophysics Data System (ADS)

    Kordilla, J.; Tartakovsky, A. M.; Geyer, T.

    2014-12-01

    Unsaturated flow in fractured porous media exhibits highly complex flow dynamics and a wide range of intermittent flow processes. Especially in wide aperture fractures, flow processes may be dominated by gravitational instead of capillary forces leading to a deviation from the classical volume effective approaches (Richard's equation, Van Genuchten type relationships). The existence of various flow modes such as droplets, rivulets, turbulent and adsorbed films is well known, however, their spatial and temporal distribution within fracture networks is still an open question partially due to the lack of appropriate modeling tools. With our work we want to gain a deeper understanding of the underlying flow and transport dynamics in unsaturated fractured media in order to support the development of more refined upscaled methods, applicable on catchment scales. We present pore- and fracture-scale flow simulations obtained with a Smoothed Particle Hydrodynamics (SPH) model. The model allows to simulate free-surface flow dynamics including the effect of surface tension for a wide range of wetting conditions. Several empirical and semi-analytical solutions are used to verify the model. We show that our results satisfy the empirical scaling laws for droplet velocity and critical contact angle. Due to the efficient generation of surface tension via particle-particle interaction forces the dynamic wetting of surfaces as well as the velocity enhancement of droplets on saturated surfaces can readily be obtained. Furthermore, we study the effect of surface roughness on droplet velocities. Lastly, we present flow and transport simulations in the presence of an adjacent porous matrix in order to investigate its influence on the fracture surface flow dynamics and transport across the matrix-fracture interface.

  3. Energetic-particle-driven instabilities and induced fast-ion transport in a reversed field pinch

    SciTech Connect

    Lin, L.; Brower, D. L.; Ding, W. X.; Anderson, J. K.; Capecchi, W.; Eilerman, S.; Forest, C. B.; Koliner, J. J.; Nornberg, M. D.; Reusch, J.; Sarff, J. S.; Liu, D.

    2014-05-15

    Multiple bursty energetic-particle (EP) driven modes with fishbone-like structure are observed during 1 MW tangential neutral-beam injection in a reversed field pinch (RFP) device. The distinguishing features of the RFP, including large magnetic shear (tending to add stability) and weak toroidal magnetic field (leading to stronger drive), provide a complementary environment to tokamak and stellarator configurations for exploring basic understanding of EP instabilities. Detailed measurements of the EP mode characteristics and temporal-spatial dynamics reveal their influence on fast ion transport. Density fluctuations exhibit a dynamically evolving, inboard-outboard asymmetric spatial structure that peaks in the core where fast ions reside. The measured mode frequencies are close to the computed shear Alfvén frequency, a feature consistent with continuum modes destabilized by strong drive. The frequency pattern of the dominant mode depends on the fast-ion species. Multiple frequencies occur with deuterium fast ions compared to single frequency for hydrogen fast ions. Furthermore, as the safety factor (q) decreases, the toroidal mode number of the dominant EP mode transits from n=5 to n=6 while retaining the same poloidal mode number m=1. The transition occurs when the m=1, n=5 wave-particle resonance condition cannot be satisfied as the fast-ion safety factor (q{sub fi}) decreases. The fast-ion temporal dynamics, measured by a neutral particle analyzer, resemble a classical predator-prey relaxation oscillation. It contains a slow-growth phase arising from the beam fueling followed by a rapid drop when the EP modes peak, indicating that the fluctuation-induced transport maintains a stiff fast-ion density profile. The inferred transport rate is strongly enhanced with the onset of multiple EP modes.

  4. Airborne bacteria transported with Sahara dust particles from Northern Africa to the European Alps

    NASA Astrophysics Data System (ADS)

    Lazzaro, A.; Meola, M.

    2015-12-01

    The Sahara Desert is the most important source of aerosols transported across the Mediterranean towards Europe. Airborne microorganisms associated with aerosols may be transported over long distances and act as colonizers of distant habitats. However, little is known on the composition and viability of such microorganisms, due to difficulties related to their detection, collection and isolation. Here we describe an in-depth assessment of the bacterial communities associated with Sahara dust (SD) particles deposited on snow. Two distinct SD events reaching the European Alps in February and May 2014 were preserved as distinct ochre-coloured layers within the snowpack. In June 2014, we collected samples from a snow profile at 3621 m a.s.l. close to the Jungfraujoch (Swiss Alps). SD particles were analyzed by Scanning Electron Microscopy and Energy-Dispersive X-Ray Spectroscopy (SEM-EDX). Backward trajectories were calculated using the NOAA HYSPLIT model. Bacterial communities were charac-terized by MiSeq Illumina sequencing of the 16S rRNA gene. Microbial physiological profiles were assessed by incubation of samples on BIOLOG plates. The SD-layers were generally enriched in illite and kaolinite particles as compared to the adjacent snow layers. The source of SD could be traced back to Algeria. We observed distinct bacterial community structures in the SD-layers as compared to the clean snow layers. While sporulating bacteria were not enriched in the SD-layers, low abundant (<1%) phyla such as Gemmatimonadetes and Deinococcus-Thermus appeared to be specific bioindicators for SD. Both phyla are adapted to arid oligotrophic environments and UV radiation and thus are well suited to survive the harsh conditions of long-distance airborne transport. Our results show that bacteria are viable and metabolically active after the trek to the European Alps.

  5. A Generalized Boltzmann Fokker-Planck Method for Coupled Charged Particle Transport

    SciTech Connect

    Prinja, Anil K

    2012-01-09

    The goal of this project was to develop and investigate the performance of reduced-physics formulations of high energy charged particle (electrons, protons and heavier ions) transport that are computationally more efficient than not only analog Monte Carlo methods but also the established condensed history Monte Carlo technique. Charged particles interact with matter by Coulomb collisions with target nuclei and electrons, by bremsstrahlung radiation loss and by nuclear reactions such as spallation and fission. Of these, inelastic electronic collisions and elastic nuclear collisions are the dominant cause of energy-loss straggling and angular deflection or range straggling of a primary particle. These collisions are characterized by extremely short mean free paths (sub-microns) and highly peaked, near-singular differential cross sections about forward directions and zero energy loss, with the situation for protons and heavier ions more extreme than for electrons. For this reason, analog or truephysics single-event Monte Carlo simulation, while possible in principle, is computationally prohibitive for routine calculation of charged particle interaction phenomena.

  6. Eulerian Multiphase CFD Analysis of Particle Transport and Deposition in the Human Lung

    NASA Astrophysics Data System (ADS)

    Haworth, D. C.; Kunz, R. F.; Leemhuis, L. S.; Davison, A. C.

    2002-11-01

    An Eulerian n-fluid CFD model is used to model the transport and deposition of particles in the human lung. Separate continuity, momentum, energy and turbulence model equations are carried for an arbitrary number of fluid phases. Physical models for non-equilibrium interfacial transfer are incorporated to account for particle dispersion, drag, lift and wall deposition. The numerical scheme combines a fully unstructured second-order spatial discretization, distributed-memory scalable parallelism, and a novel coupled phasic exchange algorithm to accommodate the significant influence of inter-field transfer on discretization, operator splitting and linear solution elements of the algorithm. Here there is one carrier phase (air) and multiple particulate fields representing particles of different sizes. Current geometric models include an idealized three-generation branching duct configuration, and a more biologically realistic configuration that extends from the mouth down to approximately the seventh generation of branching in the lung. The models have been exercised to determine the fraction of particles of different sizes that are deposited as a function of depth in the lung. Initial wall deposition results from steady-flow calculations reveal qualitatively good agreement with limited available experimental data and phenomenological models.

  7. Wave-induced mixing and transport of buoyant particles: application to the Statfjord A oil spill

    NASA Astrophysics Data System (ADS)

    Drivdal, M.; Broström, G.; Christensen, K. H.

    2014-12-01

    This study focuses on how wave-current and wave-turbulence interactions modify the transport of buoyant particles in the ocean. Here the particles can represent oil droplets, plastic particles, or plankton such as fish eggs and larvae. Using the General Ocean Turbulence Model (GOTM), modified to take surface wave effects into account, we investigate how the increased mixing by wave breaking and Stokes shear production, as well as the stronger veering by the Coriolis-Stokes force, affects the drift of the particles. The energy and momentum fluxes, as well as the Stokes drift, depend on the directional wave spectrum obtained from a wave model. As a first test, the depth and velocity scales from the model are compared with analytical solutions based on a constant eddy viscosity (i.e., classical Ekman theory). Secondly, the model is applied to a case in which we investigate the oil drift after an oil spill off the west coast of Norway in 2007. During this accident the average net drift of oil was observed to be both slower and more deflected away from the wind direction than predicted by oil-drift models. In this case, using wind and wave forcing from the ERA Interim archive it is shown that the wave effects are important for the resultant drift and have the potential to improve drift forecasting.

  8. Wave induced mixing and transport of buoyant particles: application to the Statfjord A oil spill

    NASA Astrophysics Data System (ADS)

    Drivdal, M.; Broström, G.; Christensen, K. H.

    2014-05-01

    The modelling of wave-current and wave-turbulence interactions have received much attention in recent years. In this study the focus is on how these wave effects modify the transport of particles in the ocean. Here the particles are buoyant tracers that can represent oil droplets, plastic particles or plankton, for example fish eggs and larvae. Using the General Ocean Turbulence Model (GOTM), modified to take surface wave effects into account, we investigate how the increased mixing by wave breaking and Stokes shear production as well as the stronger veering by the Coriolis-Stokes force affect the drift of the particles. The energy and momentum fluxes as well as the Stokes drift depend on the directional wave spectrum that can be obtained from a wave model or from observations. As a first test the depth and velocity scales from the model are compared with analytical solutions based on a constant eddy viscosity (e.g. classical Ekman theory). Secondly the model is applied to a case where we investigate the oil drift after an offshore oil spill outside the western coast of Norway in 2007. During this accident the average net drift of oil was observed to be both slower and more deflected away from the wind direction than predicted by empirical models. With wind and wave forcing from the ERA Interim archive, it is shown that the wave effects are important for the resultant drift in this case, and has the potential to improve drift forecasting.

  9. Slip Effects on Peristaltic Transport of a Particle-Fluid Suspension in a Planar Channel

    PubMed Central

    Kamel, Mohammed H.; Eldesoky, Islam M.; Maher, Bilal M.; Abumandour, Ramzy M.

    2015-01-01

    Peristaltic pumping induced by a sinusoidal traveling wave in the walls of a two-dimensional channel filled with a viscous incompressible fluid mixed with rigid spherical particles is investigated theoretically taking the slip effect on the wall into account. A perturbation solution is obtained which satisfies the momentum equations for the case in which amplitude ratio (wave amplitude/channel half width) is small. The analysis has been carried out by duly accounting for the nonlinear convective acceleration terms and the slip condition for the fluid part on the wavy wall. The governing equations are developed up to the second order of the amplitude ratio. The zeroth-order terms yield the Poiseuille flow and the first-order terms give the Orr-Sommerfeld equation. The results show that the slip conditions have significant effect within certain range of concentration. The phenomenon of reflux (the mean flow reversal) is discussed under slip conditions. It is found that the critical reflux pressure is lower for the particle-fluid suspension than for the particle-free fluid and is affected by slip condition. A motivation of the present analysis has been the hope that such theory of two-phase flow process under slip condition is very useful in understanding the role of peristaltic muscular contraction in transporting biofluid behaving like a particle-fluid mixture. Also the theory is important to the engineering applications of pumping solid-fluid mixture by peristalsis. PMID:27019591

  10. A simple stochastic quadrant model for the transport and deposition of particles in turbulent boundary layers

    SciTech Connect

    Jin, C.; Potts, I.; Reeks, M. W.

    2015-05-15

    We present a simple stochastic quadrant model for calculating the transport and deposition of heavy particles in a fully developed turbulent boundary layer based on the statistics of wall-normal fluid velocity fluctuations obtained from a fully developed channel flow. Individual particles are tracked through the boundary layer via their interactions with a succession of random eddies found in each of the quadrants of the fluid Reynolds shear stress domain in a homogeneous Markov chain process. In this way, we are able to account directly for the influence of ejection and sweeping events as others have done but without resorting to the use of adjustable parameters. Deposition rate predictions for a wide range of heavy particles predicted by the model compare well with benchmark experimental measurements. In addition, deposition rates are compared with those obtained from continuous random walk models and Langevin equation based ejection and sweep models which noticeably give significantly lower deposition rates. Various statistics related to the particle near wall behavior are also presented. Finally, we consider the model limitations in using the model to calculate deposition in more complex flows where the near wall turbulence may be significantly different.

  11. A mechanistic-stochastic formulation of bed load particle motions: From individual particle forces to the Fokker-Planck equation under low transport rates

    NASA Astrophysics Data System (ADS)

    Fan, Niannian; Zhong, Deyu; Wu, Baosheng; Foufoula-Georgiou, Efi; Guala, Michele

    2014-03-01

    Bed load transport is a highly complex process. The probability density function (PDF) of particle velocities results from the local particle momentum variability in response to fluid drag and interactions with the bed. Starting from the forces exerted on a single particle under low transport rates (i.e., rolling and sliding regimes), we derive here the nonlinear stochastic Langevin equation (LE) to describe the dynamics of a single particle, accounting for both the deterministic and the stochastic components of such forces. Then, the Fokker-Planck equation (FPE), which describes the evolution of the PDF of the ensemble particle velocities, is derived from the LE. We show that the theoretical PDFs of both streamwise and cross-stream velocities obtained by solving the FPE under equilibrium conditions have exponential form (PDFs of both positive and negative velocities decay exponentially), consistent with the experimental data by Roseberry et al. Moreover, we theoretically show how the exponential-like PDF of an ensemble of particle velocities results from the forces exerted on a single particle. We also show that the simulated particle motions using the proposed Langevin model exhibit an emergent nonlinear relationship between hop distances and travel times (power law with exponent 5/3), in agreement with the experimental data, providing a statistical description of the particles' random motion in the context of a stochastic transport process. Finally, our study emphasizes that the motion of individual particles, described by the LE, and the behavior of the ensemble, described by the FPE, are connected within a statistical mechanics framework.

  12. Particle-Based Direct Numerical Simulation of Contaminant Transport and Deposition in Porous Flow

    SciTech Connect

    Ray A. Berry; Richard C. Martineau; Thomas R. Wood

    2004-02-01

    This work describes an approach to porous flow modeling in which the "micro-length scale to macro-length scale" physical descriptions are addressed as Lagrangian, pore-level flow and transport. The flow features of the physical domain are solved by direct numerical simulation (DNS) with a grid-free, hybrid smoothed particle hydrodynamics (SPH) numerical method (Berry, 2002) based on a local Riemann solution. In addition to being able to handle the large deformation, fluid–fluid and fluid–solid interactions within the contorted geometries of intra- and inter-pore-scale modeling, this Riemann–SPH method should be able to simulate other complexities, such as multiple fluid phases and chemical, particulate, and microbial transport with volumetric and surface reactions. A simple model is presented for the transfer of a contaminant from a carrier fluid to solid surfaces and is demonstrated for flow in a simulated porous media

  13. Determination of macroscopic transport coefficients of a dissipative particle dynamics solvent

    NASA Astrophysics Data System (ADS)

    Azarnykh, Dmitrii; Litvinov, Sergey; Bian, Xin; Adams, Nikolaus A.

    2016-01-01

    We present an approach to determine macroscopic transport coefficients of a dissipative particle dynamics (DPD) solvent. Shear viscosity, isothermal speed of sound, and bulk viscosity result from DPD-model input parameters and can be determined only a posteriori. For this reason approximate predictions of these quantities are desirable in order to set appropriate DPD input parameters. For the purpose of deriving an improved approximate prediction we analyze the autocorrelation of shear and longitudinal modes in Fourier space of a DPD solvent for Kolmogorov flow. We propose a fitting function with nonexponential properties which gives a good approximation to these autocorrelation functions. Given this fitting function we improve significantly the capability of a priori determination of macroscopic solvent transport coefficients in comparison to previously used exponential fitting functions.

  14. Determination of macroscopic transport coefficients of a dissipative particle dynamics solvent.

    PubMed

    Azarnykh, Dmitrii; Litvinov, Sergey; Bian, Xin; Adams, Nikolaus A

    2016-01-01

    We present an approach to determine macroscopic transport coefficients of a dissipative particle dynamics (DPD) solvent. Shear viscosity, isothermal speed of sound, and bulk viscosity result from DPD-model input parameters and can be determined only a posteriori. For this reason approximate predictions of these quantities are desirable in order to set appropriate DPD input parameters. For the purpose of deriving an improved approximate prediction we analyze the autocorrelation of shear and longitudinal modes in Fourier space of a DPD solvent for Kolmogorov flow. We propose a fitting function with nonexponential properties which gives a good approximation to these autocorrelation functions. Given this fitting function we improve significantly the capability of a priori determination of macroscopic solvent transport coefficients in comparison to previously used exponential fitting functions. PMID:26871186

  15. Are marine plastic particles transport vectors for organic pollutants to the Arctic?

    PubMed

    Zarfl, Christiane; Matthies, Michael

    2010-10-01

    Plastic litter accounts for 50-80% of waste items stranded on beaches, floating on the ocean surface and lodged in the seabed. Organic pollutants can be absorbed onto plastic particles from sea water, attached to their surfaces or included in the plastic matrix as additives. Such chemicals may be transported to remote regions by buoyant plastics and ocean currents. We have estimated mass fluxes of polychlorinated biphenyls (PCBs), polybrominated diphenyl ethers (PBDEs), and perfluorooctanoic acid (PFOA) to the Arctic via the main ocean currents and compared them to those in the dissolved state and in air. Substance fluxes with atmospheric or sea water currents account for several tons per year, whereas those mediated by plastics are four to six orders of magnitude smaller. However, the significance of various pollutant transport routes does not depend only on absolute mass fluxes but also on bioaccumulation in marine food chains.

  16. Separation of monodisperse alginate nanoparticles and effect of particle size on transport of vitamin E.

    PubMed

    Li, Qian; Liu, Chen-Guang; Yu, Yu

    2015-06-25

    Four batches of oleoyl alginate ester (OAE) nanoparticles with narrow size distribution were rapidly separated from the initial batch of nanoparticles by means of centrifugation at the relative centrifugal force (RCF) between 270×g and 6750×g after adjusting the zeta potential. The size of nanoparticles decreased with increasing speed of centrifugation, and the polydispersity of nanoparticles significantly decreased. As particle size increased the loading capacity also increased, while transport across Caco-2 cells and the cellular uptake of nanoparticles in jejunum decreased. Endocytosis of nanoparticles around 50nm/120nm, 420nm and 730nm occur mainly via clathrin-mediated endocytosis, caveolae-mediated endocytosis and macropinocytosis respectively. These results show that centrifugation could separate nanoparticles with appropriate zeta potential into different sizes and the transport and cellular uptake of OAE polysaccharide nanoparticles were size dependent.

  17. Transport dissipative particle dynamics model for mesoscopic advection-diffusion-reaction problems

    NASA Astrophysics Data System (ADS)

    Li, Zhen; Yazdani, Alireza; Tartakovsky, Alexandre; Karniadakis, George Em

    2015-07-01

    We present a transport dissipative particle dynamics (tDPD) model for simulating mesoscopic problems involving advection-diffusion-reaction (ADR) processes, along with a methodology for implementation of the correct Dirichlet and Neumann boundary conditions in tDPD simulations. tDPD is an extension of the classic dissipative particle dynamics (DPD) framework with extra variables for describing the evolution of concentration fields. The transport of concentration is modeled by a Fickian flux and a random flux between tDPD particles, and the advection is implicitly considered by the movements of these Lagrangian particles. An analytical formula is proposed to relate the tDPD parameters to the effective diffusion coefficient. To validate the present tDPD model and the boundary conditions, we perform three tDPD simulations of one-dimensional diffusion with different boundary conditions, and the results show excellent agreement with the theoretical solutions. We also performed two-dimensional simulations of ADR systems and the tDPD simulations agree well with the results obtained by the spectral element method. Finally, we present an application of the tDPD model to the dynamic process of blood coagulation involving 25 reacting species in order to demonstrate the potential of tDPD in simulating biological dynamics at the mesoscale. We find that the tDPD solution of this comprehensive 25-species coagulation model is only twice as computationally expensive as the conventional DPD simulation of the hydrodynamics only, which is a significant advantage over available continuum solvers.

  18. Transport dissipative particle dynamics model for mesoscopic advection-diffusion-reaction problems.

    PubMed

    Li, Zhen; Yazdani, Alireza; Tartakovsky, Alexandre; Karniadakis, George Em

    2015-07-01

    We present a transport dissipative particle dynamics (tDPD) model for simulating mesoscopic problems involving advection-diffusion-reaction (ADR) processes, along with a methodology for implementation of the correct Dirichlet and Neumann boundary conditions in tDPD simulations. tDPD is an extension of the classic dissipative particle dynamics (DPD) framework with extra variables for describing the evolution of concentration fields. The transport of concentration is modeled by a Fickian flux and a random flux between tDPD particles, and the advection is implicitly considered by the movements of these Lagrangian particles. An analytical formula is proposed to relate the tDPD parameters to the effective diffusion coefficient. To validate the present tDPD model and the boundary conditions, we perform three tDPD simulations of one-dimensional diffusion with different boundary conditions, and the results show excellent agreement with the theoretical solutions. We also performed two-dimensional simulations of ADR systems and the tDPD simulations agree well with the results obtained by the spectral element method. Finally, we present an application of the tDPD model to the dynamic process of blood coagulation involving 25 reacting species in order to demonstrate the potential of tDPD in simulating biological dynamics at the mesoscale. We find that the tDPD solution of this comprehensive 25-species coagulation model is only twice as computationally expensive as the conventional DPD simulation of the hydrodynamics only, which is a significant advantage over available continuum solvers.

  19. Transport dissipative particle dynamics model for mesoscopic advection-diffusion-reaction problems

    PubMed Central

    Yazdani, Alireza; Tartakovsky, Alexandre; Karniadakis, George Em

    2015-01-01

    We present a transport dissipative particle dynamics (tDPD) model for simulating mesoscopic problems involving advection-diffusion-reaction (ADR) processes, along with a methodology for implementation of the correct Dirichlet and Neumann boundary conditions in tDPD simulations. tDPD is an extension of the classic dissipative particle dynamics (DPD) framework with extra variables for describing the evolution of concentration fields. The transport of concentration is modeled by a Fickian flux and a random flux between tDPD particles, and the advection is implicitly considered by the movements of these Lagrangian particles. An analytical formula is proposed to relate the tDPD parameters to the effective diffusion coefficient. To validate the present tDPD model and the boundary conditions, we perform three tDPD simulations of one-dimensional diffusion with different boundary conditions, and the results show excellent agreement with the theoretical solutions. We also performed two-dimensional simulations of ADR systems and the tDPD simulations agree well with the results obtained by the spectral element method. Finally, we present an application of the tDPD model to the dynamic process of blood coagulation involving 25 reacting species in order to demonstrate the potential of tDPD in simulating biological dynamics at the mesoscale. We find that the tDPD solution of this comprehensive 25-species coagulation model is only twice as computationally expensive as the conventional DPD simulation of the hydrodynamics only, which is a significant advantage over available continuum solvers. PMID:26156459

  20. Transport dissipative particle dynamics model for mesoscopic advection-diffusion-reaction problems.

    PubMed

    Li, Zhen; Yazdani, Alireza; Tartakovsky, Alexandre; Karniadakis, George Em

    2015-07-01

    We present a transport dissipative particle dynamics (tDPD) model for simulating mesoscopic problems involving advection-diffusion-reaction (ADR) processes, along with a methodology for implementation of the correct Dirichlet and Neumann boundary conditions in tDPD simulations. tDPD is an extension of the classic dissipative particle dynamics (DPD) framework with extra variables for describing the evolution of concentration fields. The transport of concentration is modeled by a Fickian flux and a random flux between tDPD particles, and the advection is implicitly considered by the movements of these Lagrangian particles. An analytical formula is proposed to relate the tDPD parameters to the effective diffusion coefficient. To validate the present tDPD model and the boundary conditions, we perform three tDPD simulations of one-dimensional diffusion with different boundary conditions, and the results show excellent agreement with the theoretical solutions. We also performed two-dimensional simulations of ADR systems and the tDPD simulations agree well with the results obtained by the spectral element method. Finally, we present an application of the tDPD model to the dynamic process of blood coagulation involving 25 reacting species in order to demonstrate the potential of tDPD in simulating biological dynamics at the mesoscale. We find that the tDPD solution of this comprehensive 25-species coagulation model is only twice as computationally expensive as the conventional DPD simulation of the hydrodynamics only, which is a significant advantage over available continuum solvers. PMID:26156459

  1. Electronic excitation transport in core antennae of enriched photosystem I particles from spinach chloroplasts

    SciTech Connect

    Causgrove, T.P.; Yang, S.; Struve, W.S.

    1988-10-20

    The polarized photobleaching recovery of PSI-60 particles enriched in iron-sulfur protein and P700 was monitored with approx. 2-ps resolution at 665, 670, 675, and 681 nm. Considerable residual anisotropy appears at long times, proving that local ordering exists in the Chl a-protein core antenna of PSI-60. At these four wavelengths, the polarization decays with mean lifetimes between 2.9 and 6.6 ps. This slow time scale suggests that the depolarization accompanies electronic excitation transport between clusters of Chl a chromophores rather than between individual nearest-neighbor chromophores.

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

    PubMed

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

    NASA Astrophysics Data System (ADS)

    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.

  4. Study of electron transport in a Hall thruster by axial–radial fully kinetic particle simulation

    SciTech Connect

    Cho, Shinatora Kubota, Kenichi; Funaki, Ikkoh; Watanabe, Hiroki; Iihara, Shigeyasu; Fuchigami, Kenji; Uematsu, Kazuo

    2015-10-15

    Electron transport across a magnetic field in a magnetic-layer-type Hall thruster was numerically investigated for the future predictive modeling of Hall thrusters. The discharge of a 1-kW-class magnetic-layer-type Hall thruster designed for high-specific-impulse operation was modeled using an r-z two-dimensional fully kinetic particle code with and without artificial electron-diffusion models. The thruster performance results showed that both electron transport models captured the experimental result within discrepancies less than 20% in thrust and discharge current for all the simulated operation conditions. The electron cross-field transport mechanism of the so-called anomalous diffusion was self-consistently observed in the simulation without artificial diffusion models; the effective electron mobility was two orders of magnitude higher than the value obtained using the classical diffusion theory. To account for the self-consistently observed anomalous transport, the oscillation of plasma properties was speculated. It was suggested that the enhanced random-walk diffusion due to the velocity oscillation of low-frequency electron flow could explain the observed anomalous diffusion within an order of magnitude. The dominant oscillation mode of the electron flow velocity was found to be 20 kHz, which was coupled to electrostatic oscillation excited by global ionization instability.

  5. Directed transport of bacteria-based drug delivery vehicles: bacterial chemotaxis dominates particle shape.

    PubMed

    Sahari, Ali; Traore, Mahama A; Scharf, Birgit E; Behkam, Bahareh

    2014-10-01

    Several attenuated and non-pathogenic bacterial species have been demonstrated to actively target diseased sites and successfully deliver plasmid DNA, proteins and other therapeutic agents into mammalian cells. These disease-targeting bacteria can be employed for targeted delivery of therapeutic and imaging cargos in the form of a bio-hybrid system. The bio-hybrid drug delivery system constructed here is comprised of motile Escherichia coli MG1655 bacteria and elliptical disk-shaped polymeric microparticles. The transport direction for these vehicles can be controlled through biased random walk of the attached bacteria in presence of chemoattractant gradients in a process known as chemotaxis. In this work, we utilize a diffusion-based microfluidic platform to establish steady linear concentration gradients of a chemoattractant and investigate the roles of chemotaxis and geometry in transport of bio-hybrid drug delivery vehicles. Our experimental results demonstrate for the first time that bacterial chemotactic response dominates the effect of body shape in extravascular transport; thus, the non-spherical system could be more favorable for drug delivery applications owing to the known benefits of using non-spherical particles for vascular transport (e.g. relatively long circulation time).

  6. Effect of Particle-Scale Heterogeneity on Uranium(VI) Transport in Unsaturated Porous Media

    SciTech Connect

    Wellman, Dawn M.; Gamerdinger, Amy P.; Kaplan, Daniel I.; Serne, R. Jeffrey

    2008-01-23

    Uranium (VI) sorption and transport was evaluated in mixtures of silt loam and coarse sand sediments using traditional static batch sorption, saturated column, and unsaturated centrifugation experiments to evaluate the association of mobile and immobile water domains with particles of different size and surface reactivity. Exclusion of conservative tracers and a decrease in uranium sorption compared to what was predicted by the Kd-mass-avg value observed in sediment mixtures where the mass fraction of silt loam was 10%. This is consistent with behavior that was previously reported for coarse and fine sand separates. No exclusion of the conservative tracer, as predicted for the moderate water content range, was measured during unsaturated transport in sediment mixtures that contained 30% or more silt loam by mass. However, sorption was greater than predicted based on the Kd-mass-avg value, which suggests the fine-textured silt was in contact with the mobile water domain. This is the first evidence linking sorption to transport in a particular water domain. Results of this investigation demonstrate the interaction between the geochemical and hydrodynamic processes has a profound effect on transport in unsaturated sediments. In particular, analyses of the data from the experiments on sediment mixtures illustrate how the hydrodynamic conditions have a significant impact on the breakthrough of sorptive solutes. Definition of the fraction of mobile water was especially important for defining the front of the BTC, which is integral to predicting the arrival time of solutes at a particular depth/location in the sediment.

  7. Experiments to Understand and Control Energetic Particle Transport by Alfvén Eigenmodes

    NASA Astrophysics Data System (ADS)

    Heidbrink, W. W.; Collins, C.; Pace, D. C.; van Zeeland, M. A.; Holcomb, C. T.

    2014-10-01

    Alfvén eigenmodes (AE) cause appreciable fast-ion transport in both steady-state scenario and in L-mode current ramp plasmas. All fast-ion diagnostics that are sensitive to a populated portion of phase space observe reductions in signal relative to classical predictions in the presence of many, small-amplitude AEs. Theory indicates that the many wave-particle resonances in these plasmas results in stochastic transport and critical gradient behavior. Initial data from a modulation experiment is consistent with the hypothesis that the fast-ion transport becomes ``stiff.'' Another experiment investigates whether AE-induced transport from the core couples with edge losses induced by test-blanket module fields to enhance localized heating. Application of electron cyclotron heating to control the AEs gives mixed results: AEs are sometimes stabilized but the dependence on the fast-ion and q profiles is complex. Work supported by the US Department of Energy under SC-G903402, DE-FC02-04ER54698 and DE-AC52-07NA27344.

  8. MOBILIZATION AND TRANSPORT OF SOIL PARTICLES DURING INFILTRATION EXPERIMENTS IN AN AGRICULTURAL FIELD, SHENANDOAH VALLEY, VIRGINIA. (R824772)

    EPA Science Inventory

    Evidence that fine particles mobilized and transported in
    soils and aquifers can have a profound influence on
    contaminant migration has spawned much interest recently
    in understanding colloid transport in natural materials.
    Repeated infiltration experiments on an i...

  9. ENERGY SPECTRUM OF ENERGETIC PARTICLES ACCELERATED BY SHOCK WAVES: FROM FOCUSED TRANSPORT TO DIFFUSIVE ACCELERATION

    SciTech Connect

    Zuo Pingbing; Zhang Ming; Gamayunov, Konstantin; Rassoul, Hamid; Luo Xi

    2011-09-10

    The focused transport equation (FTE) includes all the necessary physics for modeling the shock acceleration of energetic particles with a unified description of first-order Fermi acceleration, shock drift acceleration, and shock surfing acceleration. It can treat the acceleration and transport of particles with an anisotropic distribution. In this study, the energy spectrum of pickup ions accelerated at shocks of various obliquities is investigated based on the FTE. We solve the FTE by using a stochastic approach. The shock acceleration leads to a two-component energy spectrum. The low-energy component of the spectrum is made up of particles that interact with shock one to a few times. For these particles, the pitch angle distribution is highly anisotropic, and the energy spectrum is variable depending on the momentum and pitch angle of injected particles. At high energies, the spectrum approaches a power law consistent with the standard diffusive shock acceleration (DSA) theory. For a parallel shock, the high-energy component of the power-law spectrum, with the spectral index being the same as the prediction of DSA theory, starts just a few times the injection speed. For an oblique or quasi-perpendicular shock, the high-energy component of the spectrum exhibits a double power-law distribution: a harder power-law spectrum followed by another power-law spectrum with a slope the same as the spectral index of DSA. The shock acceleration will eventually go into the DSA regime at higher energies even if the anisotropy is not small. The intensity of the energy spectrum given by the FTE, in the high-energy range where particles get efficient acceleration in the DSA regime, is different from that given by the standard DSA theory for the same injection source. We define the injection efficiency {eta} as the ratio between them. For a parallel shock, the injection efficiency is less than 1, but for an oblique shock or a quasi-perpendicular shock it could be greater.

  10. Transport dissipative particle dynamics model for mesoscopic advection- diffusion-reaction problems

    SciTech Connect

    Zhen, Li; Yazdani, Alireza; Tartakovsky, Alexandre M.; Karniadakis, George E.

    2015-07-07

    We present a transport dissipative particle dynamics (tDPD) model for simulating mesoscopic problems involving advection-diffusion-reaction (ADR) processes, along with a methodology for implementation of the correct Dirichlet and Neumann boundary conditions in tDPD simulations. tDPD is an extension of the classic DPD framework with extra variables for describing the evolution of concentration fields. The transport of concentration is modeled by a Fickian flux and a random flux between particles, and an analytical formula is proposed to relate the mesoscopic concentration friction to the effective diffusion coefficient. To validate the present tDPD model and the boundary conditions, we perform three tDPD simulations of one-dimensional diffusion with different boundary conditions, and the results show excellent agreement with the theoretical solutions. We also performed two-dimensional simulations of ADR systems and the tDPD simulations agree well with the results obtained by the spectral element method. Finally, we present an application of the tDPD model to the dynamic process of blood coagulation involving 25 reacting species in order to demonstrate the potential of tDPD in simulating biological dynamics at the mesoscale. We find that the tDPD solution of this comprehensive 25-species coagulation model is only twice as computationally expensive as the DPD simulation of the hydrodynamics only, which is a significant advantage over available continuum solvers.

  11. Correlation Between MHD-Activity, Energetic Particle Behaviour and Anomalous Transport Phenomena in WENDELSTEIN 7-AS

    SciTech Connect

    Weller, A.; Anton, M.; Geiger, J.; Goerner, C.; Jaenicke, R.; Konrad, C.; Penningsfeld, F.P.; Rust, N.; Teo, C.Y.; Spong, D.A.

    1997-12-31

    Energy and particle transport in W7-AS exhibits a resonance like dependence on the edge rotational transform (iota) as long as the magnetic shear is relatively weak (low beta, no significant net toroidal currents). MHD modes at resonant surfaces may cause enhanced radial transport depending on the magnitude and radial extent of the magnetic perturbations. In many cases discharges in W7-AS are very quiescent, or in case of mode activity, often no influence on energy and particle confinement is found. In the high beta regime ((beta)

  12. Comparison of the transport codes HZETRN, HETC and FLUKA for a solar particle event

    NASA Astrophysics Data System (ADS)

    Heinbockel, John H.; Slaba, Tony C.; Blattnig, Steve R.; Tripathi, Ram K.; Townsend, Lawrence W.; Handler, Thomas; Gabriel, Tony A.; Pinsky, Lawrence S.; Reddell, Brandon; Clowdsley, Martha S.; Singleterry, Robert C.; Norbury, John W.; Badavi, Francis F.; Aghara, Sukesh K.

    2011-03-01

    The protection of astronauts and instrumentation from galactic cosmic rays and solar particle events is one of the primary constraints associated with mission planning in low earth orbit or deep space. To help satisfy this constraint, several computational tools have been developed to analyze the effectiveness of various shielding materials and structures exposed to space radiation. These tools are now being carefully scrutinized through a systematic effort of verification, validation, and uncertainty quantification. In this benchmark study, the deterministic transport code HZETRN is compared to the Monte Carlo transport codes HETC-HEDS and FLUKA for a 30 g/cm2 water target protected by a 20 g/cm2 aluminum shield exposed to a parameterization of the February 1956 solar particle event. Neutron and proton fluences as well as dose and dose equivalent are compared at various depths in the water target. The regions of agreement and disagreement between the three codes are quantified and discussed, and recommendations for future work are given.

  13. Fluid flow and particle transport in mechanically ventilated airways. Part I. Fluid flow structures.

    PubMed

    Van Rhein, Timothy; Alzahrany, Mohammed; Banerjee, Arindam; Salzman, Gary

    2016-07-01

    A large eddy simulation-based computational study of fluid flow and particle transport in upper tracheobronchial airways is carried out to investigate the effect of ventilation parameters on pulmonary fluid flow. Respiratory waveforms commonly used by commercial mechanical ventilators are used to study the effect of ventilation parameters and ventilation circuit on pulmonary fluid dynamics. A companion paper (Alzahrany et al. in Med Biol Eng Comput, 2014) reports our findings on the effect of the ventilation parameters and circuit on particle transport and aerosolized drug delivery. The endotracheal tube (ETT) was found to be an important geometric feature and resulted in a fluid jet that caused an increase in turbulence and created a recirculation zone with high wall shear stress in the main bronchi. Stronger turbulence was found in lower airways than would be found under normal breathing conditions due to the presence of the jet caused by the ETT. The pressure-controlled sinusoidal waveform induced the lowest wall shear stress on the airways wall. PMID:26563199

  14. Update on the Development and Validation of MERCURY: A Modern, Monte Carlo Particle Transport Code

    SciTech Connect

    Procassini, R J; Taylor, J M; McKinley, M S; Greenman, G M; Cullen, D E; O'Brien, M J; Beck, B R; Hagmann, C A

    2005-06-06

    An update on the development and validation of the MERCURY Monte Carlo particle transport code is presented. MERCURY is a modern, parallel, general-purpose Monte Carlo code being developed at the Lawrence Livermore National Laboratory. During the past year, several major algorithm enhancements have been completed. These include the addition of particle trackers for 3-D combinatorial geometry (CG), 1-D radial meshes, 2-D quadrilateral unstructured meshes, as well as a feature known as templates for defining recursive, repeated structures in CG. New physics capabilities include an elastic-scattering neutron thermalization model, support for continuous energy cross sections and S ({alpha}, {beta}) molecular bound scattering. Each of these new physics features has been validated through code-to-code comparisons with another Monte Carlo transport code. Several important computer science features have been developed, including an extensible input-parameter parser based upon the XML data description language, and a dynamic load-balance methodology for efficient parallel calculations. This paper discusses the recent work in each of these areas, and describes a plan for future extensions that are required to meet the needs of our ever expanding user base.

  15. Two-dimensional particle-in-cell simulations of transport in a magnetized electronegative plasma

    SciTech Connect

    Kawamura, E.; Lichtenberg, A. J.; Lieberman, M. A.

    2010-11-15

    Particle transport in a uniformly magnetized electronegative plasma is studied in two-dimensional (2D) geometry with insulating (dielectric) boundaries. A 2D particle-in-cell (PIC) code is employed, with the results compared to analytic one-dimensional models that approximate the end losses as volume losses. A modified oxygen reaction set is used to scale to the low densities used in PIC codes and also to approximately model other gases. The principal study is the limiting of the transverse electron flow due to strong electron magnetization. The plasma in the PIC calculation is maintained by axial currents that vary across the transverse dimension. For a cosine current profile nearly uniform electron temperature is obtained, which at the B-fields studied (600-1200 G) give a small but significant fraction (0.25 or less) of electron to negative ion transverse loss. For a more transverse-confined current, and approximating the higher mass and attachment reaction rate of iodine, the fraction of electron to negative ion transverse loss can be made very small. The models which have been constructed reasonably approximate the PIC results and indicate that the cross-field transport is nearly classical.

  16. Optimizations of the energy grid search algorithm in continuous-energy Monte Carlo particle transport codes

    NASA Astrophysics Data System (ADS)

    Walsh, Jonathan A.; Romano, Paul K.; Forget, Benoit; Smith, Kord S.

    2015-11-01

    In this work we propose, implement, and test various optimizations of the typical energy grid-cross section pair lookup algorithm in Monte Carlo particle transport codes. The key feature common to all of the optimizations is a reduction in the length of the vector of energies that must be searched when locating the index of a particle's current energy. Other factors held constant, a reduction in energy vector length yields a reduction in CPU time. The computational methods we present here are physics-informed. That is, they are designed to utilize the physical information embedded in a simulation in order to reduce the length of the vector to be searched. More specifically, the optimizations take advantage of information about scattering kinematics, neutron cross section structure and data representation, and also the expected characteristics of a system's spatial flux distribution and energy spectrum. The methods that we present are implemented in the OpenMC Monte Carlo neutron transport code as part of this work. The gains in computational efficiency, as measured by overall code speedup, associated with each of the optimizations are demonstrated in both serial and multithreaded simulations of realistic systems. Depending on the system, simulation parameters, and optimization method employed, overall code speedup factors of 1.2-1.5, relative to the typical single-nuclide binary search algorithm, are routinely observed.

  17. Edge resonant fluctuations and particle transport in a reversed-field pinch

    NASA Astrophysics Data System (ADS)

    Möller, A.

    1998-12-01

    Electrostatic fluctuations are measured in the Extrap T2 reversed-field pinch [J. R. Drake et al., in Plasma Physics and Controlled Nuclear Fusion Research 1996 (International Atomic Energy Agency, Vienna, 1997), Vol. 2, pp. 193-199] using a Langmuir probe array. The electrostatic fluctuation, driven particle transport ΓnΦ is derived and found to constitute a large fraction of the total particle transport. The spectral density of all measured quantities exhibits a peak in the frequency range 100-250 kHz, which originates from fluctuations that are resonant close to the edge [n=-(40-80)]. This peak contains only about 10-20% of the total fluctuation power, but is shown to dominate ΓnΦ. The main reason for this is the high toroidal mode number as compared with internally resonant magnetohydrodynamic fluctuations. The edge resonant fluctuations also features a higher coherence (γ=0.5) and close to 90° phase shift between density and potential fluctuations.

  18. Anomalous particle pinch and scaling of vin/D based on transport analysis and multiple regression

    NASA Astrophysics Data System (ADS)

    Becker, G.; Kardaun, O.

    2007-01-01

    Predictions of density profiles in current tokamaks and ITER require a validated scaling relation for vin/D where vin is the anomalous inward drift velocity and D is the anomalous diffusion coefficient. Transport analysis is necessary for determining the anomalous particle pinch from measured density profiles and for separating the impact of particle sources. A set of discharges in ASDEX Upgrade, DIII-D, JET and ASDEX is analysed using a special version of the 1.5-D BALDUR transport code. Profiles of ρsvin/D with ρs the effective separatrix radius, five other dimensionless parameters and many further quantities in the confinement zone are compiled, resulting in the dataset VIND1.dat, which covers a wide parameter range. Weighted multiple regression is applied to the ASDEX Upgrade subset which leads to a two-term scaling \\rho _sv_in ({x'}) /D ({x'}) =0.0432 [ { ({L_{T_{\\rme}} ({ \\bar {x}'}) / \\rho _s}) ^{-2.58}+7.13 \\, U_L^{1.55} \

  19. Generation of discrete scattering cross sections and demonstration of Monte Carlo charged particle transport in the Milagro IMC code package

    SciTech Connect

    Walsh, J. A.; Palmer, T. S.; Urbatsch, T. J.

    2013-07-01

    A new method for generating discrete scattering cross sections to be used in charged particle transport calculations is investigated. The method of data generation is presented and compared to current methods for obtaining discrete cross sections. The new, more generalized approach allows greater flexibility in choosing a cross section model from which to derive discrete values. Cross section data generated with the new method is verified through a comparison with discrete data obtained with an existing method. Additionally, a charged particle transport capability is demonstrated in the time-dependent Implicit Monte Carlo radiative transfer code package, Milagro. The implementation of this capability is verified using test problems with analytic solutions as well as a comparison of electron dose-depth profiles calculated with Milagro and an already-established electron transport code. An initial investigation of a preliminary integration of the discrete cross section generation method with the new charged particle transport capability in Milagro is also presented. (authors)

  20. Gyrokinetic study of the role of {beta} on electron particle transport in tokamaks

    SciTech Connect

    Hein, T.; Angioni, C.; Fable, E.; Candy, J.

    2010-10-15

    Electromagnetic effects on the radial transport of electrons in the core of tokamak plasmas are studied by means of linear and nonlinear gyrokinetic simulations with the code GYRO[J. Candy and R. E. Waltz, J. Comput. Phys. 186, 545 (2003)] and by an analytical derivation. The impact of a finite {beta}, that is, a finite ratio of the plasma pressure to the magnetic pressure, is considered on the fluctuations of the magnetic field through Ampere's law, as well as on the geometrical modification of the vertical drift produced by the Shafranov shift in the magnetic equilibrium, which, for realistic descriptions, has to be included in both electrostatic and electromagnetic modeling. The condition of turbulent particle flux at the null, which allows the determination of stationary logarithmic density gradients when neoclassical transport and particle sources are negligible, is investigated for increasing values of {beta}, in regimes of ion temperature gradient and trapped electron mode turbulence. The loss of adiabaticity of passing electrons produced by fluctuations in the magnetic vector potential produces an outward convection. When the magnetic equilibrium geometry is kept fixed, this induces a strong reduction of the stationary logarithmic density gradient with increasing {beta}. This effect is partly compensated by the geometrical effect on the vertical drift. This compensation effect, however, is significantly weaker in nonlinear simulations as compared to quasilinear calculations. A detailed comparison between quasilinear and nonlinear results reveals that the predicted value of the logarithmic density gradient is highly sensitive on the assumptions on the wave number spectrum applied in the quasilinear model. The qualitative consistency of the theoretical predictions with the experimental results obtained so far on the dependence of density peaking on {beta} is discussed by considering the additional impact, with increasing {beta}, of a particle source delivered

  1. The influence of small intestinal mucus structure on particle transport ex vivo.

    PubMed

    Bajka, Balázs H; Rigby, Neil M; Cross, Kathryn L; Macierzanka, Adam; Mackie, Alan R

    2015-11-01

    Mucus provides a barrier to bacteria and toxins while allowing nutrient absorption and waste transport. Unlike colonic mucus, small intestinal mucus structure is poorly understood. This study aimed to provide evidence for a continuous, structured mucus layer and assess the diffusion of different sized particles through it. Mucus structure was assessed by histology and immunohistochemistry. Ultra-structure was assessed by scanning electron microscopy. Tracking of 100 nm and 500 nm latex beads was conducted using ex vivo porcine mucus. The porcine jejunum and ileum were filled with mucus. Layered MUC2 staining was visible throughout the small intestine, covering villus tips. Scanning electron microscopy showed net-like mucin sheets covering villi (211 ± 7 nm pore diameter). Particle tracking of 100 nm latex beads, showed no inhibition of diffusion through mucus while 500 nm beads displayed limited diffusion. These results suggest a continuous mucus layer exists throughout the small intestine, which is highly stratified adjacent to the epithelium. The network observed is consistent with previous observations and correlates with stratified MUC2 staining. Mucin pore size is consistent with free diffusion of 100 nm and limited diffusion of 500 nm particles. Small Intestinal mucus structure has important impli