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Sample records for single viral particles

  1. Real-Time Imaging of Single HIV-1 Disassembly with Multicolor Viral Particles.

    PubMed

    Ma, Yingxin; He, Zhike; Tan, Tianwei; Li, Wei; Zhang, Zhiping; Song, Shuang; Zhang, Xiaowei; Hu, Qinxue; Zhou, Peng; Wu, Yuntao; Zhang, Xian-En; Cui, Zongqiang

    2016-06-28

    Viral disassembly is poorly understood and related to the infection mechanism. However, directly observing the process in living cells remains technically challenging. In this study, the genome RNA, capsid, and matrix protein of the HIV-1 virus were labeled with a Ru(II) complex ([Ru(phen)2(dppz)](2+)), the TC-FlAsH/ReAsH system, and EGFP/ECFP, respectively. Using the multicolored virus and single-particle imaging, we were able to track the sequential disassembly process of single HIV-1 virus particles in live host cells. Approximately 0.1% of viral particles were observed to undergo a sequential disassembly process at 60-120 min post infection. The timing and efficiency of the disassembly were influenced by the cellular factor CypA and reverse transcription. The findings facilitate a better understanding of the processes governing the HIV-1 lifecycle. The multicolor labeling protocol developed in this study may find many applications involving virus-host-cell interactions. PMID:27253587

  2. Click labeling of unnatural sugars metabolically incorporated into viral envelope glycoproteins enables visualization of single particle fusion.

    PubMed

    Oum, Yoon Hyeun; Desai, Tanay M; Marin, Mariana; Melikyan, Gregory B

    2016-07-01

    Enveloped viruses infect target cells by fusing their membrane with cellular membrane through a process that is mediated by specialized viral glycoproteins. The inefficient and highly asynchronous nature of viral fusion complicates studies of virus entry on a population level. Single virus imaging in living cells has become an important tool for delineating the entry pathways and for mechanistic studies of viral fusion. We have previously demonstrated that incorporation of fluorescent labels into the viral membrane and trapping fluorescent proteins in the virus interior enables the visualization of single virus fusion in living cells. Here, we implement a new approach to non-invasively label the viral membrane glycoproteins through metabolic incorporation of unnatural sugars followed by click-reaction with organic fluorescent dyes. This approach allows for efficient labeling of diverse viral fusion glycoproteins on the surface of HIV pseudoviruses. Incorporation of a content marker into surface-labeled viral particles enables sensitive detection of single virus fusion with live cells. PMID:27033181

  3. Visualization of Content Release from Cell Surface-Attached Single HIV-1 Particles Carrying an Extra-Viral Fluorescent pH-Sensor

    PubMed Central

    Sood, Chetan; Marin, Mariana; Mason, Caleb S.; Melikyan, Gregory B.

    2016-01-01

    HIV-1 fusion leading to productive entry has long been thought to occur at the plasma membrane. However, our previous single virus imaging data imply that, after Env engagement of CD4 and coreceptors at the cell surface, the virus enters into and fuses with intracellular compartments. We were unable to reliably detect viral fusion at the plasma membrane. Here, we implement a novel virus labeling strategy that biases towards detection of virus fusion that occurs in a pH-neutral environment—at the plasma membrane or, possibly, in early pH-neutral vesicles. Virus particles are co-labeled with an intra-viral content marker, which is released upon fusion, and an extra-viral pH sensor consisting of ecliptic pHluorin fused to the transmembrane domain of ICAM-1. This sensor fully quenches upon virus trafficking to a mildly acidic compartment, thus precluding subsequent detection of viral content release. As an interesting secondary observation, the incorporation of the pH-sensor revealed that HIV-1 particles occasionally shuttle between neutral and acidic compartments in target cells expressing CD4, suggesting a small fraction of viral particles is recycled to the plasma membrane and re-internalized. By imaging viruses bound to living cells, we found that HIV-1 content release in neutral-pH environment was a rare event (~0.4% particles). Surprisingly, viral content release was not significantly reduced by fusion inhibitors, implying that content release was due to spontaneous formation of viral membrane defects occurring at the cell surface. We did not measure a significant occurrence of HIV-1 fusion at neutral pH above this defect-mediated background loss of content, suggesting that the pH sensor may destabilize the membrane of the HIV-1 pseudovirus and, thus, preclude reliable detection of single virus fusion events at neutral pH. PMID:26863211

  4. Visualization of Content Release from Cell Surface-Attached Single HIV-1 Particles Carrying an Extra-Viral Fluorescent pH-Sensor.

    PubMed

    Sood, Chetan; Marin, Mariana; Mason, Caleb S; Melikyan, Gregory B

    2016-01-01

    HIV-1 fusion leading to productive entry has long been thought to occur at the plasma membrane. However, our previous single virus imaging data imply that, after Env engagement of CD4 and coreceptors at the cell surface, the virus enters into and fuses with intracellular compartments. We were unable to reliably detect viral fusion at the plasma membrane. Here, we implement a novel virus labeling strategy that biases towards detection of virus fusion that occurs in a pH-neutral environment-at the plasma membrane or, possibly, in early pH-neutral vesicles. Virus particles are co-labeled with an intra-viral content marker, which is released upon fusion, and an extra-viral pH sensor consisting of ecliptic pHluorin fused to the transmembrane domain of ICAM-1. This sensor fully quenches upon virus trafficking to a mildly acidic compartment, thus precluding subsequent detection of viral content release. As an interesting secondary observation, the incorporation of the pH-sensor revealed that HIV-1 particles occasionally shuttle between neutral and acidic compartments in target cells expressing CD4, suggesting a small fraction of viral particles is recycled to the plasma membrane and re-internalized. By imaging viruses bound to living cells, we found that HIV-1 content release in neutral-pH environment was a rare event (~0.4% particles). Surprisingly, viral content release was not significantly reduced by fusion inhibitors, implying that content release was due to spontaneous formation of viral membrane defects occurring at the cell surface. We did not measure a significant occurrence of HIV-1 fusion at neutral pH above this defect-mediated background loss of content, suggesting that the pH sensor may destabilize the membrane of the HIV-1 pseudovirus and, thus, preclude reliable detection of single virus fusion events at neutral pH. PMID:26863211

  5. Induction of single and dual cytotoxic T-lymphocyte responses to viral proteins in mice using recombinant hybrid Ty-virus-like particles.

    PubMed

    Layton, G T; Harris, S J; Myhan, J; West, D; Gotch, F; Hill-Perkins, M; Cole, J S; Meyers, N; Woodrow, S; French, T J; Adams, S E; Kingsman, A J

    1996-02-01

    The induction of cytotoxic T-lymphocyte (CTL) responses to viral proteins is thought to be an essential component of protective immunity against viral infections. Methods for generating such responses in a reproducible manner would be of great value in vaccine development. We demonstrate here that the recombinant antigen-presentation system based on the yeast transposon (Ty) particle-forming p1 protein is a potent means of inducing CTL responses to a variety of viral CTL epitopes, including influenza virus nucleoprotein (two epitopes), Sendai virus and vesicular stomatitis virus nucleoproteins, and the V3 loop of human immunodeficiency virus type-1 (HIV-1) gp120. CTL were primed by hybrid Ty-virus-like particles (VLP) carrying the minimal epitope or as much as 19,000 MW of protein. Ty-VLP carrying two different epitopes (dual-epitope Ty-VLP) were capable of priming CTL responses in two different strains of mice or against two epitopes in the same individual. Furthermore, co-administration of a mixture of two different Ty-VLP carrying single epitopes could induce responses to both epitopes in the same individual. Ty-VLP appear to represent a reproducible and flexible system for inducing CTL responses in mice, and warrant further evaluation in primates. PMID:8698376

  6. Trapping mammalian protein complexes in viral particles

    PubMed Central

    Eyckerman, Sven; Titeca, Kevin; Van Quickelberghe, Emmy; Cloots, Eva; Verhee, Annick; Samyn, Noortje; De Ceuninck, Leentje; Timmerman, Evy; De Sutter, Delphine; Lievens, Sam; Van Calenbergh, Serge; Gevaert, Kris; Tavernier, Jan

    2016-01-01

    Cell lysis is an inevitable step in classical mass spectrometry–based strategies to analyse protein complexes. Complementary lysis conditions, in situ cross-linking strategies and proximal labelling techniques are currently used to reduce lysis effects on the protein complex. We have developed Virotrap, a viral particle sorting approach that obviates the need for cell homogenization and preserves the protein complexes during purification. By fusing a bait protein to the HIV-1 GAG protein, we show that interaction partners become trapped within virus-like particles (VLPs) that bud from mammalian cells. Using an efficient VLP enrichment protocol, Virotrap allows the detection of known binary interactions and MS-based identification of novel protein partners as well. In addition, we show the identification of stimulus-dependent interactions and demonstrate trapping of protein partners for small molecules. Virotrap constitutes an elegant complementary approach to the arsenal of methods to study protein complexes. PMID:27122307

  7. Adsorption of viral particles from the blood plasma of patients with viral hepatitis on nanodiamonds.

    PubMed

    Baron, A V; Osipov, N V; Yashchenko, S V; Kokotukha, Yu A; Baron, I J; Puzyr, A P; Olkhovskiy, I A; Bondar, V S

    2016-07-01

    Adsorption of viral particles from the blood plasma of patients with viral hepatitis B and C on modified nanodiamonds (MNDs) was shown in the in vitro experiments. PCR method showed the treatment of plasma with MNDs leads to a decrease in the viral load by 2-3 orders of magnitude or more in both cases studied. These results make it possible to predict the applicability of MNDs for the development of new technologies of hemodialysis and plasmapheresis for binding and removal of viral particles from the blood of infected patients. PMID:27599503

  8. A Rapid Method for Viral Particle Detection in Viral-Induced Gastroenteritis: A TEM Study

    NASA Astrophysics Data System (ADS)

    Hicks, M. John; Barrish, James P.; Hayes, Elizabeth S.; Leer, Laurie C.; Estes, Mary K.; Cubitt, W. D.

    1995-10-01

    Infectious gastroenteritis is a common cause of hospitalization in the pediatric population. The most frequent cause of gastroenteritis is viral in origin. The purpose of this study was to compare a rapid modified negative-staining TEM method with the conventional pseudoreplica technique in detection of viral particles in fecal samples from children with viral gastroenteritis. The modified negative-staining method resulted in a significantly higher (2.5 ± 0.5, p = 0.02) viral rating score than that for the conventional pseudoreplica technique (1.7 ± 0.4). In addition, the preparation time for the negative-staining method was approximately one fifth that for the conventional pseudoreplica technique. Rapid diagnosis of viral gastroenteritis may be made by ultrastructural detection of viral particles in fecal samples using the negative staining technique.

  9. Entropic control of particle sizes during viral self-assembly

    NASA Astrophysics Data System (ADS)

    Castelnovo, M.; Muriaux, D.; Faivre-Moskalenko, C.

    2013-03-01

    Morphologic diversity is observed across all families of viruses. However, these supra-molecular assemblies are produced most of the time in a spontaneous way through complex molecular self-assembly scenarios. The modeling of these phenomena remains a challenging problem within the emerging field of physical virology. We present in this work a theoretical analysis aiming at highlighting the particular role of configuration entropy in the control of viral particle size distribution. Specializing this model to retroviruses such as HIV-1, we predict a new mechanism of entropic control of both RNA uptake into the viral particle and of the particle's size distribution. Evidence of this peculiar behavior has recently been reported experimentally.

  10. Single Particle Difraction at FLASH

    SciTech Connect

    Bogan, M.; Boutet, S.; Starodub, Dmitri; Decorwin-Martin, Philippe; Chapman, H.; Bajt, S.; Schulz, J.; Hajdu, Janos; Seibert, M.M.; Iwan, Bianca; Timneanu, Nicusor; Marchesini, Stefano; Barty, Anton; Benner, W.Henry; Frank, Matthias; Hau-Riege, Stefan P.; Woods, Bruce; Rohner, Urs; /Tofwerk AG, Thun

    2010-06-11

    Single-pulse coherent diffraction patterns have been collected from randomly injected single particles with a soft X-ray free-electron laser (FEL). The intense focused FEL pulse gives a high-resolution low-noise coherent diffraction pattern of the object before that object turns into a plasma and explodes. A diffraction pattern of a single particle will only be recorded when the particle arrival into the FEL interaction region coincides with FEL pulse arrival and detector integration. The properties of the experimental apparatus coinciding with these three events set the data acquisition rate. For our single particle FLASH diffraction imaging experiments: (1) an aerodynamic lens stack prepared a particle beam that consisted of particles moving at 150-200 m/s positioned randomly in space and time, (2) the 10 fs long FEL pulses were delivered at a fixed rate, and (3) the detector was set to integrate and readout once every two seconds. The effect of these experimental parameters on the rate of data acquisition using randomly injected particles will be discussed. Overall, the ultrashort FEL pulses do not set the limit of the data acquisition, more important is the effective interaction time of the particle crossing the FEL focus, the pulse sequence structure and the detector readout rate. Example diffraction patterns of randomly injected ellipsoidal iron oxide nanoparticles in different orientations are presented. This is the first single particle diffraction data set of identical particles in different orientations collected on a shot-to-shot basis. This data set will be used to test algorithms for recovering 3D structure from single particle diffraction.

  11. Functional Role of Infective Viral Particles on Metal Reduction

    SciTech Connect

    Coates, John D.

    2014-04-01

    A proposed strategy for the remediation of uranium (U) contaminated sites was based on the immobilization of U by reducing the oxidized soluble U, U(VI), to form a reduced insoluble end product, U(IV). Previous studies identified Geobacter sp., including G. sulfurreducens and G. metallireducens, as predominant U(VI)-reducing bacteria under acetate-oxidizing and U(VI)-reducing conditions. Examination of the finished genome sequence annotation of the canonical metal reducing species Geobacter sulfurreducens strain PCA and G. metallireduceans strain GS-15 as well as the draft genome sequence of G. uraniumreducens strain Rf4 identified phage related proteins. In addition, the completed genome for Anaeromyxobacter dehalogenans and the draft genome sequence of Desulfovibrio desulfuricans strain G20, two more model metal-reducing bacteria, also revealed phage related sequences. The presence of these gene sequences indicated that Geobacter spp., Anaeromyxobacter spp., and Desulfovibrio spp. are susceptible to viral infection. Furthermore, viral populations in soils and sedimentary environments in the order of 6.4×10{sup 6}–2.7×10{sup 10} VLP’s cm{sup -3} have been observed. In some cases, viral populations exceed bacterial populations in these environments suggesting that a relationship may exist between viruses and bacteria. Our preliminary screens of samples collected from the ESR FRC indicated that viral like particles were observed in significant numbers. The objective of this study was to investigate the potential functional role viruses play in metal reduction specifically Fe(III) and U(VI) reduction, the environmental parameters affecting viral infection of metal reducing bacteria, and the subsequent effects on U transport.

  12. Ultrastructural Characterization of Turnip Mosaic Virus-Induced Cellular Rearrangements Reveals Membrane-Bound Viral Particles Accumulating in Vacuoles

    PubMed Central

    Wan, Juan; Basu, Kaustuv; Mui, Jeannie; Vali, Hojatollah; Zheng, Huanquan

    2015-01-01

    ABSTRACT Positive-strand RNA [(+) RNA] viruses remodel cellular membranes to facilitate virus replication and assembly. In the case of turnip mosaic virus (TuMV), the viral membrane protein 6K2 plays an essential role in endomembrane alterations. Although 6K2-induced membrane dynamics have been widely studied by confocal microscopy, the ultrastructure of this remodeling has not been extensively examined. In this study, we investigated the formation of TuMV-induced membrane changes by chemical fixation and high-pressure freezing/freeze substitution (HPF/FS) for transmission electron microscopy at different times of infection. We observed the formation of convoluted membranes connected to rough endoplasmic reticulum (rER) early in the infection process, followed by the production of single-membrane vesicle-like (SMVL) structures at the midstage of infection. Both SMVL and double-membrane vesicle-like structures with electron-dense cores, as well as electron-dense bodies, were found late in the infection process. Immunogold labeling results showed that the vesicle-like structures were 6K2 tagged and suggested that only the SMVL structures were viral RNA replication sites. Electron tomography (ET) was used to regenerate a three-dimensional model of these vesicle-like structures, which showed that they were, in fact, tubules. Late in infection, we observed filamentous particle bundles associated with electron-dense bodies, which suggests that these are sites for viral particle assembly. In addition, TuMV particles were observed to accumulate in the central vacuole as membrane-associated linear arrays. Our work thus unravels the sequential appearance of distinct TuMV-induced membrane structures for viral RNA replication, viral particle assembly, and accumulation. IMPORTANCE Positive-strand RNA viruses remodel cellular membranes for different stages of the infection process, such as protein translation and processing, viral RNA synthesis, particle assembly, and virus

  13. Arc discharge-mediated disassembly of viral particles in water.

    PubMed

    Lee, Eun-Jung; Lee, Wooseong; Kim, Minwoo; Choi, Eun Ha; Kim, Yun-Ji

    2016-10-01

    In this study, we investigated the inactivation effects on murine norovirus (MNV-1) with/without purification in water using a submerged plasma reactor of arc discharge (underwater arc), which produced a shockwave, UV light, reactive oxygen species and reactive nitrogen species. Underwater arc treatments of 3 and 6 Hz at 12 kV resulted in 2.6- and 4.2-log reductions in the virus titer of non-purified MNV-1 after 1 min of treatment, respectively. The reduction of purified MNV-1 was higher than that of non-purified MNV-1 after underwater arc treatment for all applied conditions (12 or 15 kV and 3 or 6 Hz). One of the viral capsid proteins (VP1) was not detectable after underwater arc treatment, when its integrity was assessed by western blot analysis. Transmission electron microscopy analysis also revealed that MNV-1 particles were completely dissembled by the treatment. This study demonstrates that underwater arc treatment, which was capable of disintegrating the MNV-1 virion structure and the viral capsid protein, can be an effective disinfection process for the inactivation of water-borne noroviruses. PMID:27379726

  14. Clinical Disease Severity of Respiratory Viral Co-Infection versus Single Viral Infection: A Systematic Review and Meta-Analysis

    PubMed Central

    Asner, Sandra A.; Science, Michelle E.; Tran, Dat; Smieja, Marek; Merglen, Arnaud; Mertz, Dominik

    2014-01-01

    Background Results from cohort studies evaluating the severity of respiratory viral co-infections are conflicting. We conducted a systematic review and meta-analysis to assess the clinical severity of viral co-infections as compared to single viral respiratory infections. Methods We searched electronic databases and other sources for studies published up to January 28, 2013. We included observational studies on inpatients with respiratory illnesses comparing the clinical severity of viral co-infections to single viral infections as detected by molecular assays. The primary outcome reflecting clinical disease severity was length of hospital stay (LOS). A random-effects model was used to conduct the meta-analyses. Results Twenty-one studies involving 4,280 patients were included. The overall quality of evidence applying the GRADE approach ranged from moderate for oxygen requirements to low for all other outcomes. No significant differences in length of hospital stay (LOS) (mean difference (MD) −0.20 days, 95% CI −0.94, 0.53, p = 0.59), or mortality (RR 2.44, 95% CI 0.86, 6.91, p = 0.09) were documented in subjects with viral co-infections compared to those with a single viral infection. There was no evidence for differences in effects across age subgroups in post hoc analyses with the exception of the higher mortality in preschool children (RR 9.82, 95% CI 3.09, 31.20, p<0.001) with viral co-infection as compared to other age groups (I2 for subgroup analysis 64%, p = 0.04). Conclusions No differences in clinical disease severity between viral co-infections and single respiratory infections were documented. The suggested increased risk of mortality observed amongst children with viral co-infections requires further investigation. PMID:24932493

  15. Quantitative real-time single particle analysis of virions

    SciTech Connect

    Heider, Susanne; Metzner, Christoph

    2014-08-15

    Providing information about single virus particles has for a long time been mainly the domain of electron microscopy. More recently, technologies have been developed—or adapted from other fields, such as nanotechnology—to allow for the real-time quantification of physical virion particles, while supplying additional information such as particle diameter concomitantly. These technologies have progressed to the stage of commercialization increasing the speed of viral titer measurements from hours to minutes, thus providing a significant advantage for many aspects of virology research and biotechnology applications. Additional advantages lie in the broad spectrum of virus species that may be measured and the possibility to determine the ratio of infectious to total particles. A series of disadvantages remain associated with these technologies, such as a low specificity for viral particles. In this review we will discuss these technologies by comparing four systems for real-time single virus particle analysis and quantification. - Highlights: • We introduce four methods for virus particle-based quantification of viruses. • They allow for quantification of a wide range of samples in under an hour time. • The additional measurement of size and zeta potential is possible for some.

  16. An Epstein-Barr virus mutant produces immunogenic defective particles devoid of viral DNA.

    PubMed

    Pavlova, Sophia; Feederle, Regina; Gärtner, Kathrin; Fuchs, Walter; Granzow, Harald; Delecluse, Henri-Jacques

    2013-02-01

    Virus-like particles (VLPs) from hepatitis B and human papillomaviruses have been successfully used as preventative vaccines against these infectious agents. These VLPs consist of a self-associating capsid polymer formed from a single structure protein and are devoid of viral DNA. Since virions from herpesviruses consist of a large number of molecules of viral and cellular origin, generating VLPs from a subset of these would be a particularly arduous task. Therefore, we have adopted an alternative strategy that consists of producing DNA-free defective virus particles in a cell line infected by a herpesvirus mutant incapable of packaging DNA. We previously reported that an Epstein-Barr virus (EBV) mutant devoid of the terminal repeats (ΔTR) that act as packaging signals in herpesviruses produces substantial amounts of VLPs and of light particles (LPs). However, ΔTR virions retained some infectious genomes, and although these mutants had lost their transforming abilities, this poses potential concerns for clinical applications. Therefore, we have constructed a series of mutants that lack proteins involved in maturation and assessed their ability to produce viral DNA-free VLP/LPs. Some of the introduced mutations were deleterious for capsid maturation and virus production. However, deletion of BFLF1/BFRF1A or of BBRF1 resulted in the production of DNA-free VLPs/LPs. The ΔBFLF1/BFRF1A viruses elicited a potent CD4(+) T-cell response that was indistinguishable from the one obtained with wild-type controls. In summary, the defective particles produced by the ΔBFLF1/BFRF1A mutant fulfill the criteria of efficacy and safety expected from a preventative vaccine. PMID:23236073

  17. Saha equation, single and two particle states

    NASA Technical Reports Server (NTRS)

    Kraeft, W. D.; Girardeau, M. D.; Strege, B.

    1990-01-01

    Single- and two-particle properties in a dense plasma are discussed in connection with their role in the mass action law for a partially ionized plasma. The two-particle-bound states are nearly density independent, while the continuum is essentially shifted. The single-particle states are damped, and their energy has a negative shift and a parabolic behavior for small momenta.

  18. A KDEL Retrieval System for ER-Golgi Transport of Japanese Encephalitis Viral Particles

    PubMed Central

    Wang, Robert YL; Wu, Yu-Jen; Chen, Han-Shan; Chen, Chih-Jung

    2016-01-01

    Evidence has emerged that RNA viruses utilize the host secretory pathway for processing and trafficking mature viral particles and for exiting the infected cells. Upon completing the complex assembly process, the viral particles take advantage of the cellular secretory trafficking machinery for their intracellular trafficking toward the Golgi organelle and budding or export of virions. In this study, we showed that Japanese encephalitis virus (JEV)-induced extracellular GRP78 contains no KDEL motif using an anti-KDEL-specific antibody. Overexpression of the KDEL-truncated GRP78 in the GPR78 knocked down cells significantly reduced JEV infectivity, suggesting that the KDEL motif is required for GRP78 function in the release of JE viral particles. In addition, we demonstrated the KDELR protein, an ER-Golgi retrieval system component, is associated with viral envelope proteins and is engaged in the subcellular localization of viral particles in Golgi. More importantly, accumulation of intracellular virions was observed in the KDELR knocked down cells, indicating that the KDELR protein mediated the intracellular trafficking of JE viral particles. Altogether, we demonstrated that intracellular trafficking of JE assembled viral particles was mediated by the host ER-Golgi retrieval system prior to exit by the secretory pathway. PMID:26861384

  19. {Lambda} single-particle energies

    SciTech Connect

    Bodmer, A.R.; Usmani, Q.N.; Sami, M.

    1995-08-01

    We are continuing our work on the {Lambda} hyperon single-particle (s.p.) energies and their interpretation in terms of the basic {Lambda}-nuclear interactions. In particular we are interpreting the results obtained by S.C. Pieper, A. Usmani and Q.N. Usmani. We obtain about 30 MeV for the repulsive contribution of the three-body {Lambda}NN forces in nuclear matter. We are able to exclude purely {open_quotes}dispersive{close_quotes} {Lambda}NN forces. We are investigating the mix of dispersive and two-pion-exchange {Lambda}NN forces which provide a fit to the s.p. data. For interactions, which provide a fit to the s.p. data, the {Lambda} binding energy as a function of the nuclear matter density shows characteristic saturation features with a maximum at a density not very different from that of normal nuclear matter. We obtain a more precise measure of the space-exchange part of the {Lambda}-nuclear force than was previously available, corresponding to an exchange parameter {approx_equal} 0.32. The space-exchange force is rather directly related to the effective mass of a {Lambda} in the nuclear medium and turns out to be about 70% of its free mass. As a result, we also obtain a much better value for the p-state {Lambda}-nucleus potential which is about 40% of the s-state potential. The A binding to nuclear matter is determined to be {approx_equal} 28 MeV.

  20. Heat shock protein-90-beta facilitates enterovirus 71 viral particles assembly

    SciTech Connect

    Wang, Robert Y.L.; Kuo, Rei-Lin; Ma, Wei-Chieh; Huang, Hsing-I; Yu, Jau-Song; Yen, Sih-Min; Huang, Chi-Ruei; Shih, Shin-Ru

    2013-09-01

    Molecular chaperones are reported to be crucial for virus propagation, but are not yet addressed in Human Enterovirus 71 (EV71). Here we describe the specific association of heat shock protein-90-beta (Hsp90β), but not alpha form (Hsp90α), with EV71 viral particles by the co-purification with virions using sucrose density gradient ultracentrifugation, and by the colocalization with viral particles, as assessed by immunogold electron microscopy. The reduction of the Hsp90β protein using RNA interference decreased the correct assembly of viral particles, without affecting EV71 replication levels. Tracking ectopically expressed Hsp90β protein associated with EV71 virions revealed that Hsp90β protein was transmitted to new host cells through its direct association with infectious viral particles. Our findings suggest a new antiviral strategy in which extracellular Hsp90β protein is targeted to decrease the infectivity of EV71 and other enteroviruses, without affecting the broader functions of this constitutively expressed molecular chaperone. - Highlights: • Hsp90β is associated with EV71 virion and is secreted with the release virus. • Hsp90β effects on the correct assembly of viral particles. • Viral titer of cultured medium was reduced in the presence of geldanamycin. • Viral titer was also reduced when Hsp90β was suppressed by siRNA treatment. • The extracellular Hsp90β was also observed in other RNA viruses-infected cells.

  1. Spatial-Temporal Patterns of Viral Amplification and Interference Initiated by a Single Infected Cell

    PubMed Central

    Akpinar, Fulya; Inankur, Bahar

    2016-01-01

    ABSTRACT When viruses infect their host cells, they can make defective virus-like particles along with intact virus. Cells coinfected with virus and defective particles often exhibit interference with virus growth caused by the competition for resources by defective genomes. Recent reports of the coexistence and cotransmission of such defective interfering particles (DIPs) in vivo, across epidemiological length and time scales, suggest a role in viral pathogenesis, but it is not known how DIPs impact infection spread, even under controlled culture conditions. Using fluorescence microscopy, we quantified coinfections of vesicular stomatitis virus (VSV) expressing a fluorescent reporter protein and its DIPs on BHK-21 host cell monolayers. We found that viral gene expression was more delayed, infections spread more slowly, and patterns of spread became more “patchy” with higher DIP inputs to the initial cell. To examine how infection spread might depend on the behavior of the initial coinfected cell, we built a computational model, adapting a cellular automaton (CA) approach to incorporate kinetic data on virus growth for the first time. Specifically, changes in observed patterns of infection spread could be directly linked to previous high-throughput single-cell measures of virus-DIP coinfection. The CA model also provided testable hypotheses on the spatial-temporal distribution of the DIPs, which remain governed by their predator-prey interaction. More generally, this work offers a data-driven computational modeling approach for better understanding of how single infected cells impact the multiround spread of virus infections across cell populations. IMPORTANCE Defective interfering particles (DIPs) compete with intact virus, depleting host cell resources that are essential for virus growth and infection spread. However, it is not known how such competition, strong or weak, ultimately affects the way in which infections spread and cause disease. In this study

  2. Superbackscattering from single dielectric particles

    NASA Astrophysics Data System (ADS)

    Liberal, Iñigo; Ederra, Iñigo; Gonzalo, Ramón; Ziolkowski, Richard W.

    2015-07-01

    We demonstrate that superbackscattering responses can be excited in subwavelength dielectric particles with simple geometries. The superbackscattering response arises from the simultaneous, coherent excitation of electric dipole and magnetic quadrupole resonances. Its signature is a superdirective scattering pattern simultaneously pointing towards both the forward and backward directions. The practical implementation of this effect with Tellurium particles operating in the thermal infrared is also addressed. The examples presented reveal that spherical resonators outperform array-based superbackscatterers in terms of the backscattering peak, compact size, robustness against losses and isotropic response.

  3. Viral ecology of organic and inorganic particles in aquatic systems: avenues for further research

    PubMed Central

    Weinbauer, M.G.; Bettarel, Y.; Cattaneo, R.; Luef, B.; Maier, C.; Motegi, C.; Peduzzi, P.; Mari, X.

    2016-01-01

    Viral abundance and processes in the water column and sediments are well studied for some systems; however, we know relatively little about virus–host interactions on particles and how particles influence these interactions. Here we review virus–prokaryote interactions on inorganic and organic particles in the water column. Profiting from recent methodological progress, we show that confocal laser scanning microscopy in combination with lectin and nucleic acid staining is one of the most powerful methods to visualize the distribution of viruses and their hosts on particles such as organic aggregates. Viral abundance on suspended matter ranges from 105 to 1011 ml−1. The main factors controlling viral abundance are the quality, size and age of aggregates and the exposure time of viruses to aggregates. Other factors such as water residence time likely act indirectly. Overall, aggregates appear to play a role of viral scavengers or reservoirs rather than viral factories. Adsorption of viruses to organic aggregates or inorganic particles can stimulate growth of the free-living prokaryotic community, e.g. by reducing viral lysis. Such mechanisms can affect microbial diversity, food web structure and biogeochemical cycles. Viral lysis of bacterio- and phytoplankton influences the formation and fate of aggregates and can, for example, result in a higher stability of algal flocs. Thus, viruses also influence carbon export; however, it is still not clear whether they short-circuit or prime the biological pump. Throughout this review, emphasis has been placed on defining general problems and knowledge gaps in virus–particle interactions and on providing avenues for further research, particularly those linked to global change. PMID:27478304

  4. Distribution of lead in single atmospheric particles

    NASA Astrophysics Data System (ADS)

    Murphy, D. M.; Hudson, P. K.; Cziczo, D. J.; Gallavardin, S.; Froyd, K. D.; Johnston, M. V.; Middlebrook, A. M.; Reinard, M. S.; Thomson, D. S.; Thornberry, T.; Wexler, A. S.

    2007-03-01

    Three independent single particle mass spectrometers measured Pb in individual aerosol particles. These data provide unprecedented sensitivity and statistical significance for the measurement of Pb in single particles. This paper explores the reasons for the frequency of Pb in fine particles now that most gasoline is unleaded. Trace amounts of Pb were found in 5 to 25% of 250 to 3000 nm diameter particles sampled by both aircraft and surface instruments in the eastern and western United States. Over 5% of particles at a mountain site in Switzerland contained Pb. Particles smaller than 100 nm with high Pb content were also observed by an instrument that was only operated in urban areas. Lead was found on all types of particles, including Pb present on biomass burning particles from remote fires. Less common particles with high Pb contents contributed a majority of the total amount of Pb. Single particles with high Pb content often also contained alkali metals, Zn, Cu, Sn, As, and Sb. The association of Pb with Zn and other metals is also found in IMPROVE network filter data from surface sites. Sources of airborne Pb in the United States are reviewed for consistency with these data. The frequent appearance of trace Pb is consistent with widespread emissions of fine Pb particles from combustion sources followed by coagulation with larger particles during long-range transport. Industrial sources that directly emit Pb-rich particles also contribute to the observations. Clean regions of the western United States show some transport of Pb from Asia but most Pb over the United States comes from North American sources. Resuspension of Pb from soil contaminated by the years of leaded gasoline was not directly apparent.

  5. Distribution of lead in single atmospheric particles

    NASA Astrophysics Data System (ADS)

    Murphy, D. M.; Hudson, P. K.; Cziczo, D. J.; Gallavardin, S.; Froyd, K. D.; Johnston, M. V.; Middlebrook, A. M.; Reinard, M. S.; Thomson, D. S.; Thornberry, T.; Wexler, A. S.

    2007-06-01

    Three independent single particle mass spectrometers measured Pb in individual aerosol particles. These data provide unprecedented sensitivity and statistical significance for the measurement of Pb in single particles. This paper explores the reasons for the frequency of Pb in fine particles now that most gasoline is unleaded. Trace amounts of Pb were found in 5 to 25% of 250 to 3000 nm diameter particles sampled by both aircraft and surface instruments in the eastern and western United States. Over 5% of particles at a mountain site in Switzerland contained Pb. Particles smaller than 100 nm with high Pb content were also observed by an instrument that was only operated in urban areas. Lead was found on all types of particles, including Pb present on biomass burning particles from remote fires. Less common particles with high Pb contents contributed a majority of the total amount of Pb. Single particles with high Pb content often also contained alkali metals, Zn, Cu, Sn, As, and Sb. The association of Pb with Zn and other metals is also found in IMPROVE network filter data from surface sites. Sources of airborne Pb in the United States are reviewed for consistency with these data. The frequent appearance of trace Pb is consistent with widespread emissions of fine Pb particles from combustion sources followed by coagulation with larger particles during long-range transport. Industrial sources that directly emit Pb-rich particles also contribute to the observations. Clean regions of the western United States show some transport of Pb from Asia but most Pb over the United States comes from North American sources. Resuspension of Pb from soil contaminated by the years of leaded gasoline was not directly apparent.

  6. Single particle dynamics in circular accelerators

    SciTech Connect

    Ruth, R.D.

    1986-10-01

    The purpose of this paper is to introduce the reader to the theory associated with the transverse dynamics of single particle, in circular accelerators. The discussion begins with a review of Hamiltonian dynamics and canonical transformations. The case of a single particle in a circular accelerator is considered with a discussion of non-linear terms and chromaticity. The canonical perturbation theory is presented and nonlinear resonances are considered. Finally, the concept of renormalization and residue criterion are examined. (FI)

  7. Microorganism characterization by single particle mass spectrometry.

    PubMed

    Russell, Scott C

    2009-01-01

    In recent years a major effort by several groups has been undertaken to identify bacteria by mass spectrometry at the single cell level. The intent of this review is to highlight the recent progress made in the application of single particle mass spectrometry to the analysis of microorganisms. A large portion of the review highlights improvements in the ionization and mass analysis of bio-aerosols, or particles that contain biologically relevant molecules such as peptides or proteins. While these are not direct applications to bacteria, the results have been central to a progression toward single cell mass spectrometry. Developments in single particle matrix-assisted laser desorption/ionization (MALDI) are summarized. Recent applications of aerosol laser desorption/ionization (LDI) to the analysis of single microorganisms are highlighted. Successful applications of off-line and on-the-fly aerosol MALDI to microorganism detection are discussed. Limitations to current approaches and necessary future achievements are also addressed. PMID:18949817

  8. Single-site cleavage in the 5'-untranslated region of Leishmaniavirus RNA is mediated by the viral capsid protein.

    PubMed Central

    MacBeth, K J; Patterson, J L

    1995-01-01

    Leishmaniavirus (LRV) is a double-stranded RNA virus that persistently infects the protozoan parasite Leishmania. LRV produces a short RNA transcript, corresponding to the 5' end of positive-sense viral RNA, both in vivo and in in vitro polymerase assays. The short transcript is generated by a single site-specific cleavage event in the 5' untranslated region of the 5.3-kb genome. This cleavage event can be reproduced in vitro with purified viral particles and a substrate RNA transcript possessing the viral cleavage site. A region of nucleotides required for cleavage was identified by analyzing the cleavage sites yielding the short transcripts of various LRV isolates. A 6-nt deletion at this cleavage site completely abolished RNA processing. In an in vitro cleavage assay, baculovirus-expressed capsid protein possessed an endonuclease activity identical to that of native virions, showing that the viral capsid protein is the RNA endonuclease. Identification of the LRV capsid protein as an RNA endonuclease is unprecedented among known viral capsid proteins. Images Fig. 1 Fig. 2 Fig. 3 Fig. 4 PMID:7568059

  9. Prevention of radioactive indicator and viral particle transmission with an ointment barrier

    SciTech Connect

    Oz, M.C.; Newbold, J.E.; Lemole, G.M. )

    1991-02-01

    The objective of this study was to determine the efficacy of a lanolin-based gel in preventing radioactive particle and viral penetration. Paired, stacked filter discs were held in a stainless steel support, and the gel was applied manually to the upper surface of the upper filter. Indicator solution containing either radioactive viral particles (3H-labeled simian virus 40 or 3H-labeled woodchuck hepatitis virus) or 20 microliters or 100 microliters of 32P-labeled radioactive compounds of much lower molecular weight then were applied to the upper filter. The filter discs were separated after 30 minutes, and the lower disc was examined for radioactivity in a liquid scintillation counter. Transmission of radioactive particles was statistically significantly reduced by the application of the ointment on the upper filter (from 6.7 +/- 0.1 x 10(5) counts per minute (cpm) to 88 +/- 38 cpm). Transmission of both labeled viral particles also was reduced to a similar degree. Application of protective ointment to the filters significantly reduces transmission of radioactive viral particles and smaller radioactive compounds through filter discs. Use of this ointment may offer similar mechanical protection against the transmission of viruses between patient and healthcare provider.

  10. Localization and force analysis at the single virus particle level using atomic force microscopy

    SciTech Connect

    Liu, Chih-Hao; Horng, Jim-Tong; Chang, Jeng-Shian; Hsieh, Chung-Fan; Tseng, You-Chen; Lin, Shiming

    2012-01-06

    Highlights: Black-Right-Pointing-Pointer Localization of single virus particle. Black-Right-Pointing-Pointer Force measurements. Black-Right-Pointing-Pointer Force mapping. -- Abstract: Atomic force microscopy (AFM) is a vital instrument in nanobiotechnology. In this study, we developed a method that enables AFM to simultaneously measure specific unbinding force and map the viral glycoprotein at the single virus particle level. The average diameter of virus particles from AFM images and the specificity between the viral surface antigen and antibody probe were integrated to design a three-stage method that sets the measuring area to a single virus particle before obtaining the force measurements, where the influenza virus was used as the object of measurements. Based on the purposed method and performed analysis, several findings can be derived from the results. The mean unbinding force of a single virus particle can be quantified, and no significant difference exists in this value among virus particles. Furthermore, the repeatability of the proposed method is demonstrated. The force mapping images reveal that the distributions of surface viral antigens recognized by antibody probe were dispersed on the whole surface of individual virus particles under the proposed method and experimental criteria; meanwhile, the binding probabilities are similar among particles. This approach can be easily applied to most AFM systems without specific components or configurations. These results help understand the force-based analysis at the single virus particle level, and therefore, can reinforce the capability of AFM to investigate a specific type of viral surface protein and its distributions.

  11. Photothermal single particle Rutherford scattering microscopy.

    PubMed

    Selmke, Markus; Cichos, Frank

    2013-03-01

    We demonstrate that the quantum-mechanical description of Rutherford scattering has a photonic counterpart in a new form of single particle photothermal microscopy. Using a split detector we provide experimental evidence that photons are deflected by a photothermal potential that is created by a local refractive index change around a heated nanoparticle. The deflection experienced is shown to be the analog to the deflection of a massive particle wave packet in unscreened spinless Coulomb scattering. The experimentally found focal detection geometry reveals a lateral split feature which will allow new correlation-based velocimetry experiments of absorbing particles with ultrahigh sensitivity. PMID:23521256

  12. Single particle excitations in itinerant antiferromagnets

    SciTech Connect

    Brenig, W.; Kampf, A.P.

    1994-04-01

    The authors present a self-consistent strong coupling scheme to evaluate the single-particle Green`s function for the two dimensional Hubbard model in the spin-density-wave state. The authors analyze the single quasihole properties including its dispersion and its spectral weight factor. Significant incoherent contributions to the spectral function are found resulting from multi spin wave processes in accordance with similar results for the t-J model and small Hubbard clusters.

  13. Classification of capped tubular viral particles in the family of Papovaviridae

    NASA Astrophysics Data System (ADS)

    Keef, T.; Taormina, A.; Twarock, R.

    2006-04-01

    A vital constituent of a virus is its protein shell, called the viral capsid, that encapsulates and hence provides protection for the viral genome. Viral capsids are usually spherical, and for a significant number of viruses they exhibit overall icosahedral symmetry. The corresponding surface lattices, that encode the locations of the capsid proteins and intersubunit bonds, can be modelled by viral tiling theory. It has been shown in vitro that under a variation of the experimental boundary conditions, such as the pH value and salt concentration, tubular particles may appear instead of, or in addition to, spherical ones. In order to develop models that describe the simultaneous assembly of both spherical and tubular variants, and hence study the possibility of triggering tubular malformations as a means of interference with the replication mechanism, viral tiling theory has to be extended to include tubular lattices with end caps. We focus here on the case of Papovaviridae, which play a distinguished role from the viral structural point of view as they correspond to all pentamer lattices, i.e. lattices formed from clusters of five protein subunits throughout. These results pave the way for a generalization of recently developed assembly models.

  14. Tracking viral genomes in host cells at single-molecule resolution.

    PubMed

    Wang, I-Hsuan; Suomalainen, Maarit; Andriasyan, Vardan; Kilcher, Samuel; Mercer, Jason; Neef, Anne; Luedtke, Nathan W; Greber, Urs F

    2013-10-16

    Viral DNA trafficking in cells has large impacts on physiology and disease development. Current methods lack the resolution and accuracy to visualize and quantify viral DNA trafficking at single-molecule resolution. We developed a noninvasive protocol for accurate quantification of viral DNA-genome (vDNA) trafficking in single cells. Ethynyl-modified nucleosides were used to metabolically label newly synthesized adenovirus, herpes virus, and vaccinia virus vDNA, without affecting infectivity. Superresolution microscopy and copper(I)-catalyzed azide-alkyne cycloaddition (click) reactions allowed visualization of infection at single vDNA resolution within mammalian cells. Analysis of adenovirus infection revealed that a large pool of capsid-free vDNA accumulated in the cytosol upon virus uncoating, indicating that nuclear import of incoming vDNA is a bottleneck. The method described here is applicable for the entire replication cycle of DNA viruses and offers opportunities to localize cellular and viral effector machineries on newly replicated viral DNA, or innate immune sensors on cytoplasmic viral DNA. PMID:24139403

  15. Single Particle Tomography in EMAN2

    PubMed Central

    Galaz-Montoya, Jesús G.; Flanagan, John; Schmid, Michael F.; Ludtke, Steven J.

    2015-01-01

    Single particle tomography (SPT or subtomogram averaging) offers a powerful alternative to traditional 2-D single particle reconstruction for studying conformationally or compositionally heterogeneous macromolecules. It can also provide direct observation (without labeling or staining) of complexes inside cells at nanometer resolution. The development of computational methods and tools for SPT remains an area of active research. Here we present the EMAN2.1 SPT toolbox, which offers a full SPT processing pipeline, from particle picking to post-alignment analysis of subtomogram averages, automating most steps. Different algorithm combinations can be applied at each step, providing versatility and allowing for procedural cross-testing and specimen-specific strategies. Alignment methods include all-vs-all, binary tree, iterative single-model refinement, multiple-model refinement, and self-symmetry alignment. An efficient angular search, Graphic Processing Unit (GPU) acceleration and both threaded and distributed parallelism are provided to speed up processing. Finally, automated simulations, per particle reconstruction of subtiltseries, and per-particle Contrast Transfer Function (CTF) correction have been implemented. Processing examples using both real and simulated data are shown for several structures. PMID:25956334

  16. CHARACTERISTICS OF SINGLE PARTICLE COAL COMBUSTION

    EPA Science Inventory

    The paper discusses the measurement of the burning history of single coal particles, using a two-color optical pyrometer. rom intensity traces at two wavelengths, information on burning times and temperatures, the duration of a volatile flame, and projected areas was obtained for...

  17. Sigma 1 protein of mammalian reoviruses extends from the surfaces of viral particles

    SciTech Connect

    Furlong, D.B.; Nibert, M.L.; Fields, B.N.

    1988-01-01

    Electron microscopy revealed structures consisting of long fibers topped with knobs extending from the surfaces of virions of mammalian reoviruses. The morphology of these structures was reminiscent of the fiber protein of adenovirus. Fibers were also seen extending from the reovirus top component and intermediate subviral particles but not from cores, suggesting that the fibers consist of either the ..mu..1C or sigma1 outer capsid protein. Amino acid sequence analysis predicts that the reovirus cell attachment protein sigma1 contains an extended fiber domain. When sigma1 protein was released from viral particles with mild heat and subsequently obtained in isolation, it was found to have a morphology identical to that of the fiber structures seen extending from the viral particles. The identification of an extended form of sigma1 has important implications for its function in cell attachment. Other evidence suggest that sigma1 protein may occur in virions in both an extended and an unextended state.

  18. Annexin V Incorporated into Influenza Virus Particles Inhibits Gamma Interferon Signaling and Promotes Viral Replication

    PubMed Central

    Berri, Fatma; Haffar, Ghina; Lê, Vuong Ba; Sadewasser, Anne; Paki, Katharina; Lina, Bruno; Wolff, Thorsten

    2014-01-01

    ABSTRACT During the budding process, influenza A viruses (IAVs) incorporate multiple host cell membrane proteins. However, for most of them, their significance in viral morphogenesis and infectivity remains unknown. We demonstrate here that the expression of annexin V (A5) is upregulated at the cell surface upon IAV infection and that a substantial proportion of the protein is present in lipid rafts, the site of virus budding. Western blotting and immunogold analysis of highly purified IAV particles showed the presence of A5 in the virion. Significantly, gamma interferon (IFN-γ)-induced Stat phosphorylation and IFN-γ-induced 10-kDa protein (IP-10) production in macrophage-derived THP-1 cells was inhibited by purified IAV particles. Disruption of the IFN-γ signaling pathway was A5 dependent since downregulation of its expression or its blockage reversed the inhibition and resulted in decreased viral replication in vitro. The functional significance of these results was also observed in vivo. Thus, IAVs can subvert the IFN-γ antiviral immune response by incorporating A5 into their envelope during the budding process. IMPORTANCE Many enveloped viruses, including influenza A viruses, bud from the plasma membrane of their host cells and incorporate cellular surface proteins into viral particles. However, for the vast majority of these proteins, only the observation of their incorporation has been reported. We demonstrate here that the host protein annexin V is specifically incorporated into influenza virus particles during the budding process. Importantly, we showed that packaged annexin V counteracted the antiviral activity of gamma interferon in vitro and in vivo. Thus, these results showed that annexin V incorporated in the viral envelope of influenza viruses allow viral escape from immune surveillance. Understanding the role of host incorporated protein into virions may reveal how enveloped RNA viruses hijack the host cell machinery for their own purposes. PMID

  19. Extinction by Single and Multiple Particles

    NASA Astrophysics Data System (ADS)

    Berg, Matthew; Sorensen, Christopher; Chakrabarti, Amit

    2008-03-01

    The combined effect of scattering and absorption is referred to as extinction and is responsible for the redistribution of radiant energy by a particle. This presentation will show that extinction is due to wave interference. Simulations of the energy flow caused by the interference graphically demonstrate how extinction redistributes the energy of incident light. Both single and multi-particle systems are considered. A conceptual, phase-based explanation is given that builds on previous work and illustrates the physical meaning of the optical theorem. Implications regarding the measurement of extinction are discussed.

  20. Apparent subdiffusion inherent to single particle tracking.

    PubMed Central

    Martin, Douglas S; Forstner, Martin B; Käs, Josef A

    2002-01-01

    Subdiffusion and its causes in both in vivo and in vitro lipid membranes have become the focus of recent research. We report apparent subdiffusion, observed via single particle tracking (SPT), in a homogeneous system that only allows normal diffusion (a DMPC monolayer in the fluid state). The apparent subdiffusion arises from slight errors in finding the actual particle position due to noise inherent in all experimental SPT systems. A model is presented that corrects this artifact, and predicts the time scales after which the effect becomes negligible. The techniques and results presented in this paper should be of use in all SPT experiments studying normal and anomalous diffusion. PMID:12324428

  1. Apparent subdiffusion inherent to single particle tracking.

    PubMed

    Martin, Douglas S; Forstner, Martin B; Käs, Josef A

    2002-10-01

    Subdiffusion and its causes in both in vivo and in vitro lipid membranes have become the focus of recent research. We report apparent subdiffusion, observed via single particle tracking (SPT), in a homogeneous system that only allows normal diffusion (a DMPC monolayer in the fluid state). The apparent subdiffusion arises from slight errors in finding the actual particle position due to noise inherent in all experimental SPT systems. A model is presented that corrects this artifact, and predicts the time scales after which the effect becomes negligible. The techniques and results presented in this paper should be of use in all SPT experiments studying normal and anomalous diffusion. PMID:12324428

  2. Electron Cryotomography Studies of Maturing HIV-1 Particles Reveal the Assembly Pathway of the Viral Core

    PubMed Central

    Woodward, Cora L.; Cheng, Sarah N.

    2014-01-01

    ABSTRACT To better characterize the assembly of the HIV-1 core, we have used electron cryotomography (ECT) to image infected cells and the viral particles cryopreserved next to them. We observed progressive stages of virus assembly and egress, including flower-like flat Gag lattice assemblies, hemispherical budding profiles, and virus buds linked to the plasma membrane via a thin membrane neck. The population of budded viral particles contains immature, maturation-intermediate, and mature core morphologies. Structural characteristics of the maturation intermediates suggest that the core assembly pathway involves the formation of a CA sheet that associates with the condensed ribonucleoprotein (RNP) complex. Our analysis also reveals a correlation between RNP localization within the viral particle and the formation of conical cores, suggesting that the RNP helps drive conical core assembly. Our findings support an assembly pathway for the HIV-1 core that begins with a small CA sheet that associates with the RNP to form the core base, followed by polymerization of the CA sheet along one side of the conical core toward the tip, and then closure around the body of the cone. IMPORTANCE During HIV-1 assembly and release, the Gag polyprotein is organized into a signature hexagonal lattice, termed the immature lattice. To become infectious, the newly budded virus must disassemble the immature lattice by proteolyzing Gag and then reassemble the key proteolytic product, the structural protein p24 (CA), into a distinct, mature hexagonal lattice during a process termed maturation. The mature HIV-1 virus contains a conical capsid that encloses the condensed viral genome at its wide base. Mutations or small molecules that interfere with viral maturation also disrupt viral infectivity. Little is known about the assembly pathway that results in the conical core and genome encapsidation. Here, we have used electron cryotomography to structurally characterize HIV-1 particles that are

  3. Single Particle X-ray Diffractive Imaging

    SciTech Connect

    Bogan, M J; Benner, W H; Boutet, S; Rohner, U; Frank, M; Seibert, M; Maia, F; Barty, A; Bajt, S; Riot, V; Woods, B; Marchesini, S; Hau-Riege, S P; Svenda, M; Marklund, E; Spiller, E; Hajdu, J; Chapman, H N

    2007-10-01

    In nanotechnology, strategies for the creation and manipulation of nanoparticles in the gas phase are critically important for surface modification and substrate-free characterization. Recent coherent diffractive imaging with intense femtosecond X-ray pulses has verified the capability of single-shot imaging of nanoscale objects at sub-optical resolutions beyond the radiation-induced damage threshold. By intercepting electrospray-generated particles with a single 15 femtosecond soft-X-ray pulse, we demonstrate diffractive imaging of a nanoscale specimen in free flight for the first time, an important step toward imaging uncrystallized biomolecules.

  4. Gaussian beam photothermal single particle microscopy.

    PubMed

    Selmke, Markus; Braun, Marco; Cichos, Frank

    2012-10-01

    We explore the intuitive lensing picture of laser-heated nanoparticles occurring in single particle photothermal (PT) microscopy. The effective focal length of the thermal lens (TL) is derived from a ray-optics treatment and used to transform the probing focused Gaussian beam with ABCD Gaussian matrix optics. The relative PT signal is obtained from the relative beam-waist change far from the TL. The analytical expression is semiquantitative, capable of describing the entire phenomenology of single particle PT microscopy, and shows that the signal is the product of the point-spread functions of the involved lasers times a linear function of the axial coordinate. The presented particularly simple and intuitive Gaussian beam lensing picture compares favorably to the experimental results for 60 nm gold nanoparticles and provides the prescription for optimum setup calibration. PMID:23201674

  5. Efficiency of single-particle engines

    NASA Astrophysics Data System (ADS)

    Proesmans, Karel; Driesen, Cedric; Cleuren, Bart; Van den Broeck, Christian

    2015-09-01

    We study the efficiency of a single-particle Szilard and Carnot engine. Within a first order correction to the quasistatic limit, the work distribution is found to be Gaussian and the correction factor to average work and efficiency only depends on the piston speed. The stochastic efficiency is studied for both models and the recent findings on efficiency fluctuations are confirmed numerically. Special features are revealed in the zero-temperature limit.

  6. Efficiency of single-particle engines.

    PubMed

    Proesmans, Karel; Driesen, Cedric; Cleuren, Bart; Van den Broeck, Christian

    2015-09-01

    We study the efficiency of a single-particle Szilard and Carnot engine. Within a first order correction to the quasistatic limit, the work distribution is found to be Gaussian and the correction factor to average work and efficiency only depends on the piston speed. The stochastic efficiency is studied for both models and the recent findings on efficiency fluctuations are confirmed numerically. Special features are revealed in the zero-temperature limit. PMID:26465424

  7. Single Nanopores in Silicon Nitride Membranes with Applications to Viral Sensing

    SciTech Connect

    Davenport, M W; Healy, K; Teslich, N; Letant, S E; Siwy, Z S

    2012-03-29

    While current viral sensing methods are extremely sensitive, there is still a need for platforms capable of detecting engineered viruses and being integrated into device architectures for point-of-care assessments. Nanopores could provide a single pathway to achieve these goals.

  8. Coinhibition of viral interferon induction by Benzo(. alpha. )pyrene in association with occupation-related particles

    SciTech Connect

    Hahon, N. West Virginia Univ., Morgantown ); Booth, J.A. ); Flowers, L. )

    1990-06-01

    Benzo({alpha})pyrene (B(a)P) in combination with coal, asbestos, silicate, or metal particles was studied for its inhibitory effects on interferon-{alpha}/{beta} induction by influenza virus in rhesus monkey kidney (LLC-MK{sub 2}) cell monolayers. B(a)P per se had no adverse effect on the induction process. However, when cell cultures were pretreated with B(a)P that was bioactivated by rat liver S9 homogenate, from 52 to 65% inhibition of interferon induction occurred. Significantly greater depression (coinhibition) of viral interferon induction (>83%) resulted when bioactivated B(a)P was incorporated with coal particles representative of coal rank (anthracite, bituminous, lignite, peat). Coinhibition affected by bioactivated B(a)P was coal rank-independent but any interferon inhibitory activity affected by coal particles per se was coal rank-independent. When metals (aluminum, aluminum oxide, ferric oxide, nickel, or chromium) or asbestos fibers were individually mixed with bioactivated B(a)P, coinhibition of cellular interferon synthesis also resulted which was significantly greater than that manifested by bioactivated B(a)P or particles per se. Coinhibition of interferon induction by silicates and the bioactivated hydrocarbon was not in evidence although some silicates alone partially inhibited the induction process. Viral interferon induction was inhibited in a dose-response manner by B(a)P ({+-}S9) in combination with selected particles.

  9. Development of sandwich ELISAs that can distinguish different types of coxsackievirus A16 viral particles.

    PubMed

    Ye, Xiangzhong; Yang, Lisheng; Jia, Jizong; Han, Jinle; Li, Shuxuan; Liu, Yajing; Xu, Longfa; Zhao, Huan; Chen, Yixin; Li, Yimin; Cheng, Tong; Xia, Ningshao

    2016-03-01

    Coxsackievirus A16 (CA16) is one of the major causative agents of hand, foot, and mouth disease (HFMD). No CA16 vaccine candidates have progressed to clinical trials so far. Immunogenicity studies indicated that different CA16 particles have much influence on the efficacy of a candidate vaccine. However, there are still no relevant reports on the methods of detecting different CA16 particles. In this study, we screened several monoclonal antibodies (mAbs) specific for different CA16 particles, and several sandwich enzyme-linked immunoassays (ELISAs) were developed to measure the different types of CA16 viral particles. The mAbs that could only bind denatured or empty capsids could not neutralize CA16. In contrast, the mAbs that could bind mature full particles or all types of particles showed obvious neutralizing activity. The thermal stability of different CA16 particles was evaluated using these sandwich ELISAs. The mature full particles were found to be more thermolabile than the other types of particles and could be stabilized by high concentrations of cations. These methods can be used to assist in the potency control of CA16 vaccines and will promote the development of a CA16 vaccine. PMID:26767830

  10. Stochastic magnetization dynamics in single domain particles

    NASA Astrophysics Data System (ADS)

    Giordano, Stefano; Dusch, Yannick; Tiercelin, Nicolas; Pernod, Philippe; Preobrazhensky, Vladimir

    2013-06-01

    Magnetic particles are largely utilized in several applications ranging from magnetorheological fluids to bioscience and from nanothechnology to memories or logic devices. The behavior of each single particle at finite temperature (under thermal stochastic fluctuations) plays a central role in determining the response of the whole physical system taken into consideration. Here, the magnetization evolution is studied through the Landau-Lifshitz-Gilbert formalism and the non-equilibrium statistical mechanics is introduced with the Langevin and Fokker-Planck methodologies. As result of the combination of such techniques we analyse the stochastic magnetization dynamics and we numerically determine the convergence time, measuring the velocity of attainment of thermodynamic equilibrium, as function of the system temperature.

  11. Single port access holographic particle image velocimetry

    SciTech Connect

    Woodruff, S.D.; Richards, G.A.; Cha, D.J.

    1995-07-01

    An optical system, which requires only a single optical window mounted on a test volume, is proposed for holographic particle image velocimetry (HPIV). The optical system is a derivative of the double-exposure, double-reference-beam, off-axis HPIV system, but the innovative idea behind the system is to use back scattered light from the particles as the object wave. A 45{degree} beam splitter inserted in front of the window serves to admit the illuminating beam and extract the back scattered light. This concept can be of great engineering interest because optical access is often limited to one window in practical devices. The preliminary results of the technique appear quite promising, with current studies aimed at defining the optical resolution capabilities.

  12. Carnot process with a single particle.

    PubMed

    Hoppenau, J; Niemann, M; Engel, A

    2013-06-01

    We determine the statistics of work in isothermal volume changes of a classical ideal gas consisting of a single particle. Combining our results with the findings of Lua and Grosberg [J. Chem. Phys. B 109, 6805 (2005)] on adiabatic expansions and compressions we then analyze the joint probability distribution of heat and work for a microscopic, nonequilibrium Carnot cycle. In the quasistatic limit we recover Carnot efficiency, however, combined with nontrivial distributions of work and heat. With increasing piston speed the efficiency decreases. The efficiency at maximum power stays within recently derived bounds. PMID:23848647

  13. Carnot process with a single particle

    NASA Astrophysics Data System (ADS)

    Hoppenau, J.; Niemann, M.; Engel, A.

    2013-06-01

    We determine the statistics of work in isothermal volume changes of a classical ideal gas consisting of a single particle. Combining our results with the findings of Lua and Grosberg [J. Chem. Phys. BJPCBFK1520-610610.1021/jp0455428 109, 6805 (2005)] on adiabatic expansions and compressions we then analyze the joint probability distribution of heat and work for a microscopic, nonequilibrium Carnot cycle. In the quasistatic limit we recover Carnot efficiency, however, combined with nontrivial distributions of work and heat. With increasing piston speed the efficiency decreases. The efficiency at maximum power stays within recently derived bounds.

  14. Modeling positronium beyond the single particle approximation

    NASA Astrophysics Data System (ADS)

    Zubiaga, A.; Ervasti, M. M.; Makkonen, I.; Harju, A.; Tuomisto, F.; Puska, M. J.

    2016-03-01

    Understanding the properties of the positronium atom in matter is of interest for the interpretation of positron annihilation experiments. This technique has a unique capability for the investigation of nanometer sized voids and pores in soft molecular materials (polymers, liquids or biostructures) and porous materials. However, detailed interpretations of the experimental data rely on modeling of the annihilation properties of positronium in the host material. New applications of the technique are being developed but the computational models still are based on single particle approaches and there is no way to address the influence of the electronic properties of the host material. In this work we discuss new directions of research.

  15. Visualizing interactions between Sindbis virus and cells by single particle tracking

    NASA Astrophysics Data System (ADS)

    Williard, Mary

    2005-03-01

    Sindbis virus infects both mammalian and insect cells. Though not pathogenic in humans, Sindbis is a model for many mosquito- borne viruses that cause human disease, such as West Nile virus. We have used real-time single particle fluorescence microscopy to observe individual Sindbis virus particles as they infect living cells. Fluorescent labels were incorporated into both the viral coat proteins and the lipid envelope of the virus. Kinetics characteristic of free diffusion in solution, slower diffusion inside cells, attachment to spots on the cell surface, and motor protein transport inside cells have been observed. Dequenching of the membrane label is used to report membrane fusion events during the infection process. Tracking individual viral particles allows multiple pathways to be determined without the requirement of synchronicity.

  16. Single Particle States in ^56Ni

    NASA Astrophysics Data System (ADS)

    Sanetullaev, Alisher; Lynch, W. G.; Tsang, M. B.; Bazin, D.; Coupland, D.; Henzl, V.; Henzlova, D.; Kilburn, M.; Lee, Jenny; Rogers, A. M.; Signoracci, A.; Sun, Z. Y.; Youngs, M.; Famiano, M.; Hudan, S.; O'Malley, P.; Peters, W. A.; Schmitt, K.; Shapira, D.; Charity, R. J.; Sobotka, L. G.

    2010-11-01

    Neutron spectroscopic factor of ^56Ni using (p, d) neutron transfer reaction has been measured using 37 MeV/u ^56Ni beam in inverse kinematics. The measurement was performed at NSCL using the high resolution silicon array, HiRA, to detect the deuterons in coincidence with the recoil residues detected in the S800 spectrometer. To test if ^56Ni is a good core, the most direct way is to measure the single particle nature of the neutrons or protons in the f7/2 orbits. Direct measurements of the spectroscopic factors of the neutron hole state in ^56Ni using the pickup (p,d) reaction will determine if the neutron f7/2 orbit is indeed a closed shell. In present work, preliminary experimental results will be presented.

  17. Dielectrophoretic Traps for Single-Particle Patterning

    PubMed Central

    Rosenthal, Adam; Voldman, Joel

    2005-01-01

    We present a novel microfabricated dielectrophoretic trap designed to pattern large arrays of single cells. Because flowing away untrapped cells is often the rate-limiting step during cell patterning, we designed the trap to be strong enough to hold particles against practical flow rates. We experimentally validated the trap strength by measuring the maximum flow rate that polystyrene beads could withstand while remaining trapped. These bead experiments have shown excellent agreement with our model predictions, without the use of fitting parameters. The model was able to provide us with a fundamental understanding of how the traps work, and additionally allowed us to establish a set of design rules for optimizing the traps for a wide range of cell sizes. We provide the foundations for an enabling technology that can be used to pattern cells in unique ways, allowing us to do novel cell biology experiments at the microscale. PMID:15613624

  18. Radiative pyrolysis of single moist wood particles

    SciTech Connect

    Di Blasi, C.; Hernandez, E.G.; Santoro, A.

    2000-04-01

    Radiative pyrolysis of thermally thick beech wood has been investigated through a comparison between dry and moist [11% dry basis (db)] particles, for heat fluxes in the range 27.5--80 kW/m{sup 2}. The initial moisture content has also been varied from 0 to 50% (db) for two radiative fluxes, 27.5 and 49 kW/m{sup 2}, corresponding to slow and fast external heat-transfer rates, as steady surface temperatures are about 625 and 800 K, respectively. For very slow heating, moisture evaporation precedes wood pyrolysis. As the external heating conditions are made more severe and/or the initial moisture content is increased, the two processes take place simultaneously, associated with the propagation of separate fronts along the particle radius. Spatial gradients also increase, while apparent weight loss kinetics form a single-peak rate turn into a two-peak rate. The conversion times increase almost linearly with the initial moisture content, but differences in primary product (char, gas, and liquids) yields and gas composition are negligible.

  19. Single-particle stochastic heat engine.

    PubMed

    Rana, Shubhashis; Pal, P S; Saha, Arnab; Jayannavar, A M

    2014-10-01

    We have performed an extensive analysis of a single-particle stochastic heat engine constructed by manipulating a Brownian particle in a time-dependent harmonic potential. The cycle consists of two isothermal steps at different temperatures and two adiabatic steps similar to that of a Carnot engine. The engine shows qualitative differences in inertial and overdamped regimes. All the thermodynamic quantities, including efficiency, exhibit strong fluctuations in a time periodic steady state. The fluctuations of stochastic efficiency dominate over the mean values even in the quasistatic regime. Interestingly, our system acts as an engine provided the temperature difference between the two reservoirs is greater than a finite critical value which in turn depends on the cycle time and other system parameters. This is supported by our analytical results carried out in the quasistatic regime. Our system works more reliably as an engine for large cycle times. By studying various model systems, we observe that the operational characteristics are model dependent. Our results clearly rule out any universal relation between efficiency at maximum power and temperature of the baths. We have also verified fluctuation relations for heat engines in time periodic steady state. PMID:25375477

  20. Mono-ubiquitylated ORF45 Mediates Association of KSHV Particles with Internal Lipid Rafts for Viral Assembly and Egress

    PubMed Central

    Wang, Xin; Zhu, Nannan; Li, Wenwei; Zhu, Fanxiu; Wang, Yan; Yuan, Yan

    2015-01-01

    Herpesviruses acquire their envelope by budding into the lumen of cytoplasmic membrane vesicles. This process is initiated by component(s) on viral particles, which recognize the budding site where the viral glycoproteins are present and recruit cellular cargo transport and sorting machinery to the site to complete the budding process. Proteins in the tegument layer, connecting capsid and envelope, are candidates for the recognition of budding sites on vesicle membrane and induction of budding and final envelopment. We examined several outer and matrix tegument proteins of Kaposi’s sarcoma-associated herpesvirus (KSHV) and found that ORF45 associates with lipid rafts (LRs) of cellular membrane. LRs are membrane micro-domains, which have been implicated as relay stations in intracellular signaling and transport including viral entry and virion assembly. The ability of ORF45 to target LR is dependent on the mono-ubiquitylation of ORF45 at Lys297 as the mutation at Lys297 (K297R) abolished LR-association of ORF45. The K297R mutation also impairs ORF45 and viral particle co-localization with trans-Golgi network and endosomes, but facilitates ORF45 and viral particles co-localizing with lysosomes. More importantly, the recombinant KSHV carrying ORF45 K297R mutant (BAC-K297R) was found severely defective in producing mature and infectious virion particles in comparison to wild type KSHV (BAC16). Taken together, our results reveal a new function of KSHV tegument protein ORF45 in targeting LR of host cell membrane, promoting viral particles co-localization with trans-Golgi and endosome vesicles and facilitating the maturation and release of virion particles, suggesting that ORF45 plays a role in bringing KSHV particles to the budding site on cytoplasmic vesicle membrane and triggering the viral budding process for final envelopment and virion maturation. PMID:26650119

  1. An efficient plant viral expression system generating orally immunogenic Norwalk virus-like particles

    PubMed Central

    Santi, Luca; Batchelor, Lance; Huang, Zhong; Hjelm, Brooke; Kilbourne, Jacquelyn; Arntzen, Charles J.; Chen, Qiang; Mason, Hugh S.

    2009-01-01

    Virus like particles (VLPs) derived from enteric pathogens like Norwalk virus (NV) are well suited to study oral immunization. We previously described stable transgenic plants that accumulate recombinant NV-like particles (rNV) that were orally immunogenic in mice and humans. The transgenic approach suffers from long generation time and modest level of antigen accumulation. We now overcome these constraints with an efficient tobacco mosaic virus (TMV)-derived transient expression system using leaves of Nicotiana benthamiana. We produced properly assembled rNV at 0.8 mg/g leaf 12 days post infection. Oral immunization of CD1 mice with 100 or 250 μg/dose of partially purified rNV elicited systemic and mucosal immune responses. We conclude that the plant viral transient expression system provides a robust research tool to generate abundant quantities of rNV as enriched, concentrated VLP preparations that are orally immunogenic. PMID:18325641

  2. Determining the Cellular Diversity of Hepatitis C Virus Quasispecies by Single-Cell Viral Sequencing

    PubMed Central

    McLauchlan, John

    2013-01-01

    Single-cell genomics is emerging as an important tool in cellular biology. We describe for the first time a system to investigate RNA virus quasispecies diversity at the cellular level utilizing hepatitis C virus (HCV) replicons. A high-fidelity nested reverse transcription (RT)-PCR assay was developed, and validation using control transcripts of known copy number indicated a detection limit of 3 copies of viral RNA/reaction. This system was used to determine the cellular diversity of subgenomic JFH-1 HCV replicons constitutively expressed in Huh7 cells. Each cell contained a unique quasispecies that was much less diverse than the quasispecies of the bulk cell population from which the single cells were derived, suggesting the occurrence of independent evolution at the cellular level. An assessment of the replicative fitness of the predominant single-cell quasispecies variants indicated a modest reduction in fitness compared to the wild type. Real-time RT-PCR methods capable of determining single-cell viral loads were developed and indicated an average of 113 copies of replicon RNA per cell, correlating with calculated RNA copy numbers in the bulk cell population. This study introduces a single-cell RNA viral-sequencing method with numerous potential applications to explore host-virus interactions during infection. HCV quasispecies diversity varied greatly between cells in vitro, suggesting different within-cell evolutionary pathways. Such divergent trajectories in vivo could have implications for the evolution and establishment of antiviral-resistant variants and host immune escape mutants. PMID:24049174

  3. Plasmonic polymers unraveled through single particle spectroscopy.

    PubMed

    Slaughter, Liane S; Wang, Lin-Yung; Willingham, Britain A; Olson, Jana M; Swanglap, Pattanawit; Dominguez-Medina, Sergio; Link, Stephan

    2014-10-01

    Plasmonic polymers are quasi one-dimensional assemblies of nanoparticles whose optical responses are governed by near-field coupling of localized surface plasmons. Through single particle extinction spectroscopy correlated with electron microscopy, we reveal the effect of the composition of the repeat unit, the chain length, and extent of disorder on the energies, intensities, and line shapes of the collective resonances of individual plasmonic polymers constructed from three different sizes of gold nanoparticles. Our combined experimental and theoretical analysis focuses on the superradiant plasmon mode, which results from the most attractive interactions along the nanoparticle chain and yields the lowest energy resonance in the spectrum. This superradiant mode redshifts with increasing chain length until an infinite chain limit, where additional increases in chain length cause negligible change in the energy of the superradiant mode. We find that, among plasmonic polymers of equal width comprising nanoparticles with different sizes, the onset of the infinite chain limit and its associated energy are dictated by the number of repeat units and not the overall length of the polymer. The intensities and linewidths of the superradiant mode relative to higher energy resonances, however, differ as the size and number of nanoparticles are varied in the plasmonic polymers studied here. These findings provide general guidelines for engineering the energies, intensities, and line shapes of the collective optical response of plasmonic polymers constructed from nanoparticles with sizes ranging from a few tens to one hundred nanometers. PMID:25155111

  4. Single particle electrochemical sensors and methods of utilization

    DOEpatents

    Schoeniger, Joseph; Flounders, Albert W.; Hughes, Robert C.; Ricco, Antonio J.; Wally, Karl; Kravitz, Stanley H.; Janek, Richard P.

    2006-04-04

    The present invention discloses an electrochemical device for detecting single particles, and methods for using such a device to achieve high sensitivity for detecting particles such as bacteria, viruses, aggregates, immuno-complexes, molecules, or ionic species. The device provides for affinity-based electrochemical detection of particles with single-particle sensitivity. The disclosed device and methods are based on microelectrodes with surface-attached, affinity ligands (e.g., antibodies, combinatorial peptides, glycolipids) that bind selectively to some target particle species. The electrodes electrolyze chemical species present in the particle-containing solution, and particle interaction with a sensor element modulates its electrolytic activity. The devices may be used individually, employed as sensors, used in arrays for a single specific type of particle or for a range of particle types, or configured into arrays of sensors having both these attributes.

  5. Immunological and biochemical characterizations of coxsackievirus A6 and A10 viral particles.

    PubMed

    Liu, Chia-Chyi; Guo, Meng-Shin; Wu, Shang-Rung; Lin, Hsiao-Yu; Yang, Ya-Ting; Liu, Wei-Chih; Chow, Yen-Hung; Shieh, Dar-Bin; Wang, Jen-Ren; Chong, Pele

    2016-05-01

    Childhood exanthema caused by different serotypes of coxsackievirus (CV-A) and enterovirus A71 (EV-A71) has become a serious global health problem; it is commonly known as hand, foot, and mouth disease (HFMD). Current EV-A71 vaccine clinical trials have demonstrated that human antibody responses generated by EV-A71 vaccinations do not cross-neutralize coxsackievirus A16 (CV-A16). An effective multivalent HFMD vaccine is urgently needed. From molecular epidemiological studies in Southeast Asia, CV-A6 and CV-A10 are commonly found in HFMD outbreaks. In this study, CV-A6 and CV-A10 were individually cultured in rhabdomyosarcoma (RD) cells grown in medium containing serum, harvested and concentrated. In viral downstream purification, two viral fractions were separated by sucrose gradient zonal ultracentrifugation and detected using a SDS-PAGE analysis and a virus infectivity assay. These two viral fractions were formalin-inactivated, and only the infectious particle fraction was found to be capable of inducing CV-A serotype-specific neutralizing antibody responses in animal immunogenicity studies. These mouse and rabbit antisera also failed to cross-neutralize EV-A71 and CV-A16 infections. Only a combination of formalin-inactivated EV-A71, CV-A6, CV-A10 and CV-A16 multivalent vaccine candidates elicited cross-neutralizing antibody responses in both mouse and rabbit immunogenicity studies. The current results certainly provide important information for multivalent HFMD vaccine development. PMID:26899790

  6. Methods for forming particles from single source precursors

    DOEpatents

    Fox, Robert V.; Rodriguez, Rene G.; Pak, Joshua

    2011-08-23

    Single source precursors are subjected to carbon dioxide to form particles of material. The carbon dioxide may be in a supercritical state. Single source precursors also may be subjected to supercritical fluids other than supercritical carbon dioxide to form particles of material. The methods may be used to form nanoparticles. In some embodiments, the methods are used to form chalcopyrite materials. Devices such as, for example, semiconductor devices may be fabricated that include such particles. Methods of forming semiconductor devices include subjecting single source precursors to carbon dioxide to form particles of semiconductor material, and establishing electrical contact between the particles and an electrode.

  7. Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population

    PubMed Central

    Labonté, Jessica M.; Field, Erin K.; Lau, Maggie; Chivian, Dylan; Van Heerden, Esta; Wommack, K. Eric; Kieft, Thomas L.; Onstott, Tullis C.; Stepanauskas, Ramunas

    2015-01-01

    A major fraction of Earth's prokaryotic biomass dwells in the deep subsurface, where cellular abundances per volume of sample are lower, metabolism is slower, and generation times are longer than those in surface terrestrial and marine environments. How these conditions impact biotic interactions and evolutionary processes is largely unknown. Here we employed single cell genomics to analyze cell-to-cell genome content variability and signatures of horizontal gene transfer (HGT) and viral infections in five cells of Candidatus Desulforudis audaxviator, which were collected from a 3 km-deep fracture water in the 2.9 Ga-old Witwatersrand Basin of South Africa. Between 0 and 32% of genes recovered from single cells were not present in the original, metagenomic assembly of Desulforudis, which was obtained from a neighboring subsurface fracture. We found a transposable prophage, a retron, multiple clustered regularly interspaced short palindromic repeats (CRISPRs) and restriction-modification systems, and an unusually high frequency of transposases in the analyzed single cell genomes. This indicates that recombination, HGT and viral infections are prevalent evolutionary events in the studied population of microorganisms inhabiting a highly stable deep subsurface environment. PMID:25954269

  8. Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population.

    PubMed

    Labonté, Jessica M; Field, Erin K; Lau, Maggie; Chivian, Dylan; Van Heerden, Esta; Wommack, K Eric; Kieft, Thomas L; Onstott, Tullis C; Stepanauskas, Ramunas

    2015-01-01

    A major fraction of Earth's prokaryotic biomass dwells in the deep subsurface, where cellular abundances per volume of sample are lower, metabolism is slower, and generation times are longer than those in surface terrestrial and marine environments. How these conditions impact biotic interactions and evolutionary processes is largely unknown. Here we employed single cell genomics to analyze cell-to-cell genome content variability and signatures of horizontal gene transfer (HGT) and viral infections in five cells of Candidatus Desulforudis audaxviator, which were collected from a 3 km-deep fracture water in the 2.9 Ga-old Witwatersrand Basin of South Africa. Between 0 and 32% of genes recovered from single cells were not present in the original, metagenomic assembly of Desulforudis, which was obtained from a neighboring subsurface fracture. We found a transposable prophage, a retron, multiple clustered regularly interspaced short palindromic repeats (CRISPRs) and restriction-modification systems, and an unusually high frequency of transposases in the analyzed single cell genomes. This indicates that recombination, HGT and viral infections are prevalent evolutionary events in the studied population of microorganisms inhabiting a highly stable deep subsurface environment. PMID:25954269

  9. Plasmonic polymers unraveled through single particle spectroscopy

    NASA Astrophysics Data System (ADS)

    Slaughter, Liane S.; Wang, Lin-Yung; Willingham, Britain A.; Olson, Jana M.; Swanglap, Pattanawit; Dominguez-Medina, Sergio; Link, Stephan

    2014-09-01

    Plasmonic polymers are quasi one-dimensional assemblies of nanoparticles whose optical responses are governed by near-field coupling of localized surface plasmons. Through single particle extinction spectroscopy correlated with electron microscopy, we reveal the effect of the composition of the repeat unit, the chain length, and extent of disorder on the energies, intensities, and line shapes of the collective resonances of individual plasmonic polymers constructed from three different sizes of gold nanoparticles. Our combined experimental and theoretical analysis focuses on the superradiant plasmon mode, which results from the most attractive interactions along the nanoparticle chain and yields the lowest energy resonance in the spectrum. This superradiant mode redshifts with increasing chain length until an infinite chain limit, where additional increases in chain length cause negligible change in the energy of the superradiant mode. We find that, among plasmonic polymers of equal width comprising nanoparticles with different sizes, the onset of the infinite chain limit and its associated energy are dictated by the number of repeat units and not the overall length of the polymer. The intensities and linewidths of the superradiant mode relative to higher energy resonances, however, differ as the size and number of nanoparticles are varied in the plasmonic polymers studied here. These findings provide general guidelines for engineering the energies, intensities, and line shapes of the collective optical response of plasmonic polymers constructed from nanoparticles with sizes ranging from a few tens to one hundred nanometers.Plasmonic polymers are quasi one-dimensional assemblies of nanoparticles whose optical responses are governed by near-field coupling of localized surface plasmons. Through single particle extinction spectroscopy correlated with electron microscopy, we reveal the effect of the composition of the repeat unit, the chain length, and extent of

  10. Quantification of virus-like particles suggests viral infection in corals affected by Porites tissue loss

    NASA Astrophysics Data System (ADS)

    Lawrence, Scott A.; Davy, Joanne E.; Aeby, Greta S.; Wilson, William H.; Davy, Simon K.

    2014-09-01

    Porites tissue loss is a common disease of Porites compressa on Hawaiian reefs. Despite its prevalence, to date, the aetiological agent of the disease has not been found. The apparent lack of a microbial causative agent in the similar disease Porites bleaching with tissue loss, as well as increasing evidence of viral infections in scleractinian corals and Symbiodinium, led us to hypothesise that a virus may be responsible. Electron microscopy revealed the presence of numerous and varied virus-like particles (VLPs) in healthy and diseased P. compressa colonies. While overall virus numbers were similar in all samples, the abundance of a group of icosahedral VLPs differed significantly between healthy and diseased colonies. While not conclusive, these results suggest that viruses may play a role in this disease, and provide a basis for further studies.

  11. Intracerebroventricular and Intravascular Injection of Viral Particles and Fluorescent Microbeads into the Neonatal Brain.

    PubMed

    Kawasaki, Hideya; Kosugi, Isao; Sakao-Suzuki, Makiko; Meguro, Shiori; Tsutsui, Yoshihiro; Iwashita, Toshihide

    2016-01-01

    In the study on the pathogenesis of viral encephalitis, the infection method is critical. The first of the two main infectious routes to the brain is the hematogenous route, which involves infection of the endothelial cells and pericytes of the brain. The second is the intracerebroventricular (ICV) route. Once within the central nervous system (CNS), viruses may spread to the subarachnoid space, meninges, and choroid plexus via the cerebrospinal fluid. In experimental models, the earliest stages of CNS viral distribution are not well characterized, and it is unclear whether only certain cells are initially infected. Here, we have analyzed the distribution of cytomegalovirus (CMV) particles during the acute phase of infection, termed primary viremia, following ICV or intravascular (IV) injection into the neonatal mouse brain. In the ICV injection model, 5 µl of murine CMV (MCMV) or fluorescent microbeads were injected into the lateral ventricle at the midpoint between the ear and eye using a 10-µl syringe with a 27 G needle. In the IV injection model, a 1-ml syringe with a 35 G needle was used. A transilluminator was used to visualize the superficial temporal (facial) vein of the neonatal mouse. We infused 50 µl of MCMV or fluorescent microbeads into the superficial temporal vein. Brains were harvested at different time points post-injection. MCMV genomes were detected using the in situ hybridization method. Fluorescent microbeads or green fluorescent protein expressing recombinant MCMV particles were observed by fluorescent microscopy. These techniques can be applied to many other pathogens to investigate the pathogenesis of encephalitis. PMID:27501398

  12. Distinct Viral Populations Differentiate and Evolve Independently in a Single Perennial Host Plant†

    PubMed Central

    Jridi, Chiraz; Martin, Jean-François; Marie-Jeanne, Véronique; Labonne, Gérard; Blanc, Stéphane

    2006-01-01

    The complex structure of virus populations has been the object of intensive study in bacteria, animals, and plants for over a decade. While it is clear that tremendous genetic diversity is rapidly generated during viral replication, the distribution of this diversity within a single host remains an obscure area in this field of science. Among animal viruses, only Human immunodeficiency virus and Hepatitis C virus populations have recently been thoroughly investigated at an intrahost level, where they are structured as metapopulations, demonstrating that the host cannot be considered simply as a “bag” containing a homogeneous or unstructured swarm of mutant viral genomes. In plants, a few reports suggested a possible heterogeneous distribution of virus variants at different locations within the host but provided no clues as to how this heterogeneity is structured. Here, we report the most exhaustive study of the structure and evolution of a virus population ever reported at the intrahost level through the analysis of a Prunus tree infected by Plum pox virus for over 13 years following a single inoculation event and by using analysis of molecular variance at different hierarchical levels combined with nested clade analysis. We demonstrate that, following systemic invasion of the host, the virus population differentiates into several distinct populations that are isolated in different branches, where they evolve independently through contiguous range expansion while colonizing newly formed organs. Moreover, we present and discuss evidence that the tree harbors a huge “bank” of viral clones, each isolated in one of the myriad leaves. PMID:16474141

  13. Single particle states in the heaviest elements

    SciTech Connect

    Ahmad, I.; Chasman, R.R.

    1995-08-01

    The search for superheavy elements was a major theme of nuclear structure research for the past twenty years. Theoretical predictions of the stability of superheavy elements depend crucially on the single-particle energy level spacings in the vicinity of 114 protons and 184 neutrons. The approach that we are taking is to learn as much as possible about these levels from spectroscopic studies of nuclides in the A = 250 region. This is possible because there are members of the relevant spherical multiplets that drop rapidly in energy with increasing deformation, and are fairly close to ground in the strongly deformed nuclides near A = 250. The orbitals that are important for fixing the shell corrections near N = 184 are the h{sub 11/2}, j{sub 13/2} and k{sub 17/2} spherical states. For each of these spherical orbitals, there is a corresponding deformed orbital whose energy in the A = 250 region is quite sensitive to one of these spherical states, e. g. the 1/2-[761] orbital was already identified in {sup 251}Cf is quite sensitive to the spherical j{sub 13/2} orbital. The position of the 1/2+[880] deformed orbital is very sensitive to the k{sub 17/2} spherical state. According to our calculations, this state should be found at {approximately}1500 KeV in {sup 251}Cf and should be populated in a one-nucleon transfer reaction using an ({alpha},{sup 3}He) reaction. We calculated signatures for the low-lying states in {sup 251}Cf and the calculated energies and signatures are in good agreement with the experimentally observed (d,p) spectrum. We expect to see the high-j states in an ({alpha},{sup 3}He) study. Our analysis of low-lying states in {sup 251}Cf was published. The ({alpha},{sup 3}He) experiment was approved, and is waiting on the preparation of a target.

  14. Microprocessor-based single particle calibration of scintillation counter

    NASA Technical Reports Server (NTRS)

    Mazumdar, G. K. D.; Pathak, K. M.

    1985-01-01

    A microprocessor-base set-up is fabricated and tested for the single particle calibration of the plastic scintillator. The single particle response of the scintillator is digitized by an A/D converter, and a 8085 A based microprocessor stores the pulse heights. The digitized information is printed. Facilities for CRT display and cassette storing and recalling are also made available.

  15. New apparatus of single particle trap system for aerosol visualization

    NASA Astrophysics Data System (ADS)

    Higashi, Hidenori; Fujioka, Tomomi; Endo, Tetsuo; Kitayama, Chiho; Seto, Takafumi; Otani, Yoshio

    2014-08-01

    Control of transport and deposition of charged aerosol particles is important in various manufacturing processes. Aerosol visualization is an effective method to directly observe light scattering signal from laser-irradiated single aerosol particle trapped in a visualization cell. New single particle trap system triggered by light scattering pulse signal was developed in this study. The performance of the device was evaluated experimentally. Experimental setup consisted of an aerosol generator, a differential mobility analyzer (DMA), an optical particle counter (OPC) and the single particle trap system. Polystylene latex standard (PSL) particles (0.5, 1.0 and 2.0 μm) were generated and classified according to the charge by the DMA. Singly charged 0.5 and 1.0 μm particles and doubly charged 2.0 μm particles were used as test particles. The single particle trap system was composed of a light scattering signal detector and a visualization cell. When the particle passed through the detector, trigger signal with a given delay time sent to the solenoid valves upstream and downstream of the visualization cell for trapping the particle in the visualization cell. The motion of particle in the visualization cell was monitored by CCD camera and the gravitational settling velocity and the electrostatic migration velocity were measured from the video image. The aerodynamic diameter obtained from the settling velocity was in good agreement with Stokes diameter calculated from the electrostatic migration velocity for individual particles. It was also found that the aerodynamic diameter obtained from the settling velocity was a one-to-one function of the scattered light intensity of individual particles. The applicability of this system will be discussed.

  16. Photothermal single particle microscopy using a single laser beam

    SciTech Connect

    Selmke, Markus; Heber, André; Braun, Marco; Cichos, Frank

    2014-07-07

    We introduce a single-laser-beam photothermal microscopy scheme for the detection of single absorbing nano-objects. Here, a modulated incident laser beam with a constant intensity offset serves as pump and probe beam at the same time. Using the out-of-phase scattering response of the retarded thermorefractive wave field, the method provides a selective contrast for absorbers over a possible background of scatterers. The use of a single wavelength and a single beam, considerably simplifies the setup and integration of photothermal detection in existing microscopy schemes.

  17. Application of virus-like particles (VLP) to NMR characterization of viral membrane protein interactions.

    PubMed

    Antanasijevic, Aleksandar; Kingsley, Carolyn; Basu, Arnab; Bowlin, Terry L; Rong, Lijun; Caffrey, Michael

    2016-03-01

    The membrane proteins of viruses play critical roles in the virus life cycle and are attractive targets for therapeutic intervention. Virus-like particles (VLP) present the possibility to study the biochemical and biophysical properties of viral membrane proteins in their native environment. Specifically, the VLP constructs contain the entire protein sequence and are comprised of native membrane components including lipids, cholesterol, carbohydrates and cellular proteins. In this study we prepare VLP containing full-length hemagglutinin (HA) or neuraminidase (NA) from influenza and characterize their interactions with small molecule inhibitors. Using HA-VLP, we first show that VLP samples prepared using the standard sucrose gradient purification scheme contain significant amounts of serum proteins, which exhibit high potential for non-specific interactions, thereby complicating NMR studies of ligand-target interactions. We then show that the serum contaminants may be largely removed with the addition of a gel filtration chromatography step. Next, using HA-VLP we demonstrate that WaterLOGSY NMR is significantly more sensitive than Saturation Transfer Difference (STD) NMR for the study of ligand interactions with membrane bound targets. In addition, we compare the ligand orientation to HA embedded in VLP with that of recombinant HA by STD NMR. In a subsequent step, using NA-VLP we characterize the kinetic and binding properties of substrate analogs and inhibitors of NA, including study of the H274Y-NA mutant, which leads to wide spread resistance to current influenza antivirals. In summary, our work suggests that VLP have high potential to become standard tools in biochemical and biophysical studies of viral membrane proteins, particularly when VLP are highly purified and combined with control VLP containing native membrane proteins. PMID:26921030

  18. Development and evaluation of a replicon particle vaccine expressing the E2 glycoprotein of bovine viral diarrhea virus (BVDV) in cattle

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Bovine viral diarrhea virus is one of the most significant and costly viral pathogens of cattle worldwide. Alphavirus-derived replicon particles have been shown to be safe and highly effective vaccine vectors against a variety of human and veterinary pathogens. Replicon particles are non-propagating...

  19. Tracking single particle rotation: Probing dynamics in four dimensions

    DOE PAGESBeta

    Anthony, Stephen Michael; Yu, Yan

    2015-04-29

    Direct visualization and tracking of small particles at high spatial and temporal resolution provides a powerful approach to probing complex dynamics and interactions in chemical and biological processes. Analysis of the rotational dynamics of particles adds a new dimension of information that is otherwise impossible to obtain with conventional 3-D particle tracking. In this review, we survey recent advances in single-particle rotational tracking, with highlights on the rotational tracking of optically anisotropic Janus particles. Furthermore, strengths and weaknesses of the various particle tracking methods, and their applications are discussed.

  20. A combination of size-resolved particle samplers and XRF microprobe technique for single particle study

    NASA Astrophysics Data System (ADS)

    Ma, Chang-Jin; Kim, Ki-Hyun

    It is important to understand the properties of individual airborne particulates that are determined by the processes of various physicochemical reactions occurring in their generation, transformation, and transport. This study describes the application of the X-ray fluorescence (XRF) microprobe technique to the analysis of size-resolved individual particles as well as the results of an experimental study on the comparison of three different particle collection instruments for single particle analysis: a two-stage filter pack, a low pressure Andersen impactor (LPAI), and a micro-orifice uniform deposit impactor (MOUDI). Though LPAI and MOUDI are relatively suitable for multisize-segregated particles sampling compared with the two-stage filter pack sampler, they can easily form particle clusters and finally these particle clusters impede single particle analysis. Even though more particle mass can be collected without overloading on the substrate using MOUDI, by stage rotating, particles are still deposited and form clusters on the concentric circles. When particles are forming a spot (or other shapes of particle cluster), single particle analysis using the XRF micro-beam technique is restricted to individual particles deposited at the edge of the spot. Thus, the sampling duration time depending on the sampler stage should be adjusted for single particle study.

  1. Transport and capture of colloidal particles in single fractures

    SciTech Connect

    Bonano, E.J.; Beyeler, W.E.

    1984-01-01

    In this study, the transport and capture rates of colloidal particles were calculated for a parallel-plate channel simulating a single fracture. The steady-state convective diffusion equation was solved with the particle velocity normal to the walls of the channel being the sum of the external forces acting on the particles. The forces considered were the gravitational, London-van der Waals and electric-double layer forces. The effects of parameters governing these forces and particle production mechanism on the rates of particle capture and transport are determined. The dynamic balance between particle production and capture has a significant effect on the concentration of particles leaving the fracture. The average particle velocity, though higher than the average fluid velocity, seems to be insensitive to phenomena governing particle capture. 8 references, 5 figures.

  2. Targeted supplementation design for improved production and quality of enveloped viral particles in insect cell-baculovirus expression system.

    PubMed

    Monteiro, Francisca; Bernal, Vicente; Chaillet, Maxime; Berger, Imre; Alves, Paula M

    2016-09-10

    The recent approval of vaccines and gene therapy products for human use produced in the Insect Cell-Baculovirus Expression Vector System (IC-BEVS) underlines the high potential and versatility of this platform. The interest in developing robust production processes emerges to cope with manufacturing pressure, as well as stringent product quality guidelines. Previously, we addressed the impact of the baculovirus infection on the physiology of insect host cell lines, identifying key cellular pathways enrolled in heterologous gene/protein expression. In the present work, this knowledge was applied to design tailored media supplementation schemes to boost IC-BEVS production yields and quality of enveloped viral particles: influenza VLPs (Inf-VLP) and baculovirus vectors (BV). The addition of reduced glutathione, antioxidants and polyamines increased the cell specific yields of baculovirus particles up to 3 fold. Cholesterol was identified as the most critical system booster, capable of improving 2.5 and 6-fold cell specific yields of BV and Inf-VLPs, respectively. Surprisingly, the combination of polyamines and cholesterol supplementation improved baculovirus stock quality, by preventing the accumulation of non-infectious particles during viral replication while selectively increasing infectious particles production. In addition, the specific yields of both enveloped viral particles, BVs and Inf-VLPs, were also increased. The correlation between supplement addition and systems productivity was extensively analyzed, providing a critical assessment on final product quantity and quality as drivers of bioprocess optimization efforts. PMID:27378622

  3. Dissecting the Cell Entry Pathway of Dengue Virus by Single-Particle Tracking in Living Cells

    PubMed Central

    Chen, Chen; van der Ende-Metselaar, Heidi; Wilschut, Jan; Zhuang, Xiaowei; Smit, Jolanda M.

    2008-01-01

    Dengue virus (DENV) is an enveloped RNA virus that causes the most common arthropod-borne infection worldwide. The mechanism by which DENV infects the host cell remains unclear. In this work, we used live-cell imaging and single-virus tracking to investigate the cell entry, endocytic trafficking, and fusion behavior of DENV. Simultaneous tracking of DENV particles and various endocytic markers revealed that DENV enters cells exclusively via clathrin-mediated endocytosis. The virus particles move along the cell surface in a diffusive manner before being captured by a pre-existing clathrin-coated pit. Upon clathrin-mediated entry, DENV particles are transported to Rab5-positive endosomes, which subsequently mature into late endosomes through acquisition of Rab7 and loss of Rab5. Fusion of the viral membrane with the endosomal membrane was primarily detected in late endosomal compartments. PMID:19096510

  4. A Sensitive Branched DNA HIV-1 Signal Amplification Viral Load Assay with Single Day Turnaround

    PubMed Central

    Baumeister, Mark A.; Zhang, Nan; Beas, Hilda; Brooks, Jesse R.; Canchola, Jesse A.; Cosenza, Carlo; Kleshik, Felix; Rampersad, Vinod; Surtihadi, Johan; Battersby, Thomas R.

    2012-01-01

    Branched DNA (bDNA) is a signal amplification technology used in clinical and research laboratories to quantitatively detect nucleic acids. An overnight incubation is a significant drawback of highly sensitive bDNA assays. The VERSANT® HIV-1 RNA 3.0 Assay (bDNA) (“Versant Assay”) currently used in clinical laboratories was modified to allow shorter target incubation, enabling the viral load assay to be run in a single day. To dramatically reduce the target incubation from 16–18 h to 2.5 h, composition of only the “Lysis Diluent” solution was modified. Nucleic acid probes in the assay were unchanged. Performance of the modified assay (assay in development; not commercially available) was evaluated and compared to the Versant Assay. Dilution series replicates (>950 results) were used to demonstrate that analytical sensitivity, linearity, accuracy, and precision for the shorter modified assay are comparable to the Versant Assay. HIV RNA-positive clinical specimens (n = 135) showed no significant difference in quantification between the modified assay and the Versant Assay. Equivalent relative quantification of samples of eight genotypes was demonstrated for the two assays. Elevated levels of several potentially interfering endogenous substances had no effect on quantification or specificity of the modified assay. The modified assay with drastically improved turnaround time demonstrates the viability of signal-amplifying technology, such as bDNA, as an alternative to the PCR-based assays dominating viral load monitoring in clinical laboratories. Highly sensitive bDNA assays with a single day turnaround may be ideal for laboratories with especially stringent cost, contamination, or reliability requirements. PMID:22479381

  5. Tracking single-particle rotation during macrophage uptake

    SciTech Connect

    Sanchez, Lucero; Patton, Paul; Anthony, Stephen Michael; Yi, Yi; Yu, Yan

    2015-06-10

    We investigated the rotational dynamics of single microparticles during their internalization by macrophage cells. The microparticles used were triblock patchy particles that display two fluorescent patches on their two poles. The optical anisotropy made it possible to directly visualize and quantify the orientation and rotation of the particles. We show that particles exhibit a mixture of fast and slow rotation as they are uptaken by macrophages and transiently undergo directional rotation during their entry into the cell. As a result, the size of the particles and the surface presentation of ligands exerted a negligible influence on this heterogeneity of particle rotation.

  6. Extinction cross section measurements for a single optically trapped particle

    NASA Astrophysics Data System (ADS)

    Cotterell, Michael I.; Preston, Thomas C.; Mason, Bernard J.; Orr-Ewing, Andrew J.; Reid, Jonathan P.

    2015-08-01

    Bessel beam (BB) optical traps have become widely used to confine single and multiple aerosol particles across a broad range of sizes, from a few microns to < 200 nm in radius. The radiation pressure force exerted by the core of a single, zeroth-order BB incident on a particle can be balanced by a counter-propagating gas flow, allowing a single particle to be trapped indefinitely. The pseudo non-diffracting nature of BBs enables particles to be confined over macroscopic distances along the BB core propagation length; the position of the particle along this length can be finely controlled by variation of the BB laser power. This latter property is exploited to optimize the particle position at the center of the TEM00 mode of a high finesse optical cavity, allowing cavity ring-down spectroscopy (CRDS) to be performed on single aerosol particles and their optical extinction cross section, σext, measured. Further, the variation in the light from the illuminating BB elastically scattered by the particle is recorded as a function of scattering angle. Such intensity distributions are fitted to Lorenz-Mie theory to determine the particle radius. The trends in σext with particle radius are modelled using cavity standing wave Mie simulations and a particle's varying refractive index with changing relative humidity is determined. We demonstrate σext measurements on individual sub-micrometer aerosol particles and determine the lowest limit in particle size that can be probed by this technique. The BB-CRDS method will play a key role in reducing the uncertainty associated with atmospheric aerosol radiative forcing, which remains among the largest uncertainties in climate modelling.

  7. Single-camera, three-dimensional particle tracking velocimetry.

    PubMed

    Peterson, Kevin; Regaard, Boris; Heinemann, Stefan; Sick, Volker

    2012-04-01

    This paper introduces single-camera, three-dimensional particle tracking velocimetry (SC3D-PTV), an image-based, single-camera technique for measuring 3-component, volumetric velocity fields in environments with limited optical access, in particular, optically accessible internal combustion engines. The optical components used for SC3D-PTV are similar to those used for two-camera stereoscopic-µPIV, but are adapted to project two simultaneous images onto a single image sensor. A novel PTV algorithm relying on the similarity of the particle images corresponding to a single, physical particle produces 3-component, volumetric velocity fields, rather than the 3-component, planar results obtained with stereoscopic PIV, and without the reconstruction of an instantaneous 3D particle field. The hardware and software used for SC3D-PTV are described, and experimental results are presented. PMID:22513613

  8. Single-particle mechanism of magnetostriction in magnetoactive elastomers

    NASA Astrophysics Data System (ADS)

    Kalita, Viktor M.; Snarskii, Andrei A.; Zorinets, Denis; Shamonin, Mikhail

    2016-06-01

    Magnetoactive elastomers (MAEs) are composite materials comprised of micrometer-sized ferromagnetic particles in a nonmagnetic elastomer matrix. A single-particle mechanism of magnetostriction in MAEs, assuming the rotation of a soft magnetic, mechanically rigid particle with uniaxial magnetic anisotropy in magnetic fields is identified and considered theoretically within the framework of an alternative model. In this mechanism, the total magnetic anisotropy energy of the filling particles in the matrix is the sum over single particles. Matrix displacements in the vicinity of the particle and the resulting direction of the magnetization vector are calculated. The effect of matrix deformation is pronounced well if the magnetic anisotropy coefficient K is much larger than the shear modulus µ of the elastic matrix. The feasibility of the proposed magnetostriction mechanism in soft magnetoactive elastomers and gels is elucidated. The magnetic-field-induced internal stresses in the matrix lead to effects of magnetodeformation and may increase the elastic moduli of these composite materials.

  9. Observation of Rotational Motion of Single Dusty Particle

    SciTech Connect

    Karasev, V. Yu.; Dzlieva, E. S.; Eikhval'd, A. I.; Ermolenko, M. A.; Golubev, M. S.

    2008-09-07

    Dust particle mechanical condition studying is important for question of dust structure stability and phase transitions in complex plasmas, and for ambient plasmas and dust particles parameters diagnostics. The rotation of single dust particles has been observed, followed with the range of theoretical papers, analyzing possible mechanisms, involving particles into rotation. We are observing single dust grains in stratified glow discharge. Rotation is detected with help of direct laser illumination, when the particle surface defects are lighted. Our observations show, that the majority of dust particles has stationary rotation with frequency about hundred Hz. Also it was founded, that there is frequency dependence on the discharge current by linear law. Qualitative interpretation of investigated phenomena is presented.

  10. Calibration of single particle sizing velocimeters using photomask reticles

    NASA Technical Reports Server (NTRS)

    Hirleman, E. D.; Holve, D. J.; Hovenac, E. A.

    1988-01-01

    The development of photomask reticle calibration standards for single particle instruments is discussed. The calibration method studied involves the use of photomask reticles where the particle artifacts are actually disks of chrome thin film in the clear field reticles produced by photolithography and etching processes. Consideration is given to various aspects of theory, design, and performance.

  11. Complete and repeatable inactivation of HIV-1 viral particles in suspension using a photo-labeled non-nucleoside reverse transcriptase inhibitor.

    PubMed

    Marin-Muller, C; Rios, A; Anderson, D; Siwak, E; Yao, Q

    2013-04-01

    A method is described for achieving repeatable, complete inactivation of HIV, based on photo-inactivation of HIV reverse transcriptase (RT) with a non-nucleoside reverse transcriptase inhibitor (NNRTI), photoactive 4-[[4-[(4-azido-2,6-dimethylphenyl) amino]-2-pyrimidinyl]amino]benzonitrile (PA-DAPYa). These results show that PA-DAPYa inactivated completely a suspension of cell-free HIV-1 viral particles in a dose and time-dependent manner. Using an ELISA assay for p24, it is demonstrated that a 500nM concentration of PA-DAPYa is able to inactivate 500 TCID50 of HIV viral particles in suspension when irradiated with non-microbicidal wavelength UV light for 30min. No active p24 was detected on days 7, 14, and 21 days after culturing the inactivated HIV in peripheral blood mononuclear cells (PBMCs). Several batches of large quantities of HIV viral particles were demonstrated to be inactivated completely and repeatedly by this method. Therefore, a reliable method has been developed to inactivate HIV viral particles in a reproducible manner using an optimal concentration of PA-DAPYa and duration of UV exposure time of the treated particles. The inactivation of viral particles in suspension allows for large-scale production of an injectable formulation of inactivated HIV viral particles for vaccine development which should preserve the conformational and antigenic integrity of viral surface proteins. PMID:23384676

  12. The Peptidoglycan Hydrolase of Staphylococcus aureus Bacteriophage ϕ11 Plays a Structural Role in the Viral Particle

    PubMed Central

    Rodríguez-Rubio, Lorena; Quiles-Puchalt, Nuria; Martínez, Beatriz; Rodríguez, Ana; Penadés, José R.

    2013-01-01

    The role of virion-associated peptidoglycan hydrolases (VAPGHs) in the phage infection cycle is not clear. gp49, the VAPGH from Staphylococcus aureus phage ϕ11, is not essential for phage growth but stabilizes the viral particles. ϕ11Δ49 phages showed a reduced burst size and delayed host lysis. Complementation of gp49 with HydH5 from bacteriophage vB_SauS-phiIPLA88 restored the wild-type phenotype. PMID:23892745

  13. Single Particle Cryo-electron Microscopy and 3-D Reconstruction of Viruses

    PubMed Central

    Guo, Fei; Jiang, Wen

    2014-01-01

    With fast progresses in instrumentation, image processing algorithms, and computational resources, single particle electron cryo-microscopy (cryo-EM) 3-D reconstruction of icosahedral viruses has now reached near-atomic resolutions (3–4 Å). With comparable resolutions and more predictable outcomes, cryo-EM is now considered a preferred method over X-ray crystallography for determination of atomic structure of icosahedral viruses. At near-atomic resolutions, all-atom models or backbone models can be reliably built that allow residue level understanding of viral assembly and conformational changes among different stages of viral life cycle. With the developments of asymmetric reconstruction, it is now possible to visualize the complete structure of a complex virus with not only its icosahedral shell but also its multiple non-icosahedral structural features. In this chapter, we will describe single particle cryo-EM experimental and computational procedures for both near-atomic resolution reconstruction of icosahedral viruses and asymmetric reconstruction of viruses with both icosahedral and non-icosahedral structure components. Procedures for rigorous validation of the reconstructions and resolution evaluations using truly independent de novo initial models and refinements are also introduced. PMID:24357374

  14. Triboelectricity evaluation of single toner particle by electron holography

    SciTech Connect

    Okada, H.; Shindo, D.; Kim, J. J.; Murakami, Y.; Kawase, H.

    2007-09-01

    Understanding electrification is particularly important in materials science since the use of charged particles, e.g., the electrophotographic printer with toner particles, is one of the most successful applications of electrification. However, the charge generation mechanism still remains unclear due to the lack of an appropriate method for evaluating individual fine particles. In this study, we describe an approach for determining the charge of a single toner particle that uses electron holography in combination with a shielding technique. Two long-standing problems in holographic studies--namely, perturbation of the reference electron wave and unwanted charging by illumination--have been overcome by introducing two types of shields in a microscope. Using this method, the amount of charge on a single toner particle was determined, and the surface charge distribution was found to be inhomogeneous. Furthermore, an in situ observation of triboelectricity was conducted inside the microscope.

  15. Triboelectricity evaluation of single toner particle by electron holography

    NASA Astrophysics Data System (ADS)

    Okada, H.; Shindo, D.; Kim, J. J.; Murakami, Y.; Kawase, H.

    2007-09-01

    Understanding electrification is particularly important in materials science since the use of charged particles, e.g., the electrophotographic printer with toner particles, is one of the most successful applications of electrification. However, the charge generation mechanism still remains unclear due to the lack of an appropriate method for evaluating individual fine particles. In this study, we describe an approach for determining the charge of a single toner particle that uses electron holography in combination with a shielding technique. Two long-standing problems in holographic studies—namely, perturbation of the reference electron wave and unwanted charging by illumination—have been overcome by introducing two types of shields in a microscope. Using this method, the amount of charge on a single toner particle was determined, and the surface charge distribution was found to be inhomogeneous. Furthermore, an in situ observation of triboelectricity was conducted inside the microscope.

  16. Tracking single-particle rotation during macrophage uptake

    DOE PAGESBeta

    Sanchez, Lucero; Patton, Paul; Anthony, Stephen Michael; Yi, Yi; Yu, Yan

    2015-06-10

    We investigated the rotational dynamics of single microparticles during their internalization by macrophage cells. The microparticles used were triblock patchy particles that display two fluorescent patches on their two poles. The optical anisotropy made it possible to directly visualize and quantify the orientation and rotation of the particles. We show that particles exhibit a mixture of fast and slow rotation as they are uptaken by macrophages and transiently undergo directional rotation during their entry into the cell. As a result, the size of the particles and the surface presentation of ligands exerted a negligible influence on this heterogeneity of particlemore » rotation.« less

  17. Fluorescence preselection of bioaerosol for single-particle mass spectrometry.

    PubMed

    Stowers, M A; van Wuijckhuijse, A L; Marijnissen, J C M; Kientz, Ch E; Ciach, T

    2006-11-20

    We have designed, constructed, and tested a system that pre-selects the biological fraction of airborne particles from the overall aerosol. The preselection is based on fluorescence emission excited by a continuous 266 nm laser beam. This beam is one of two cw beams used to measure the aerodynamic particle size of sampled particles. The intention in our system is that single particles, based on size and fluorescence emission, can be selected and further examined for chemical composition by mass spectrometry. PMID:17086265

  18. Single-particle electrophoresis in nanochannels.

    PubMed

    Harms, Zachary D; Haywood, Daniel G; Kneller, Andrew R; Selzer, Lisa; Zlotnick, Adam; Jacobson, Stephen C

    2015-01-01

    Electrophoretic mobilities and particle sizes of individual Hepatitis B Virus (HBV) capsids were measured in nanofluidic channels with two nanopores in series. The channels and pores had three-dimensional topography and were milled directly in glass substrates with a focused ion beam instrument assisted by an electron flood gun. The nanochannel between the two pores was 300 nm wide, 100 nm deep, and 2.5 μm long, and the nanopores at each end had dimensions 45 nm wide, 45 nm deep, and 400 nm long. With resistive-pulse sensing, the nanopores fully resolved pulse amplitude distributions of T = 3 HBV capsids (32 nm outer diameter) and T = 4 HBV capsids (35 nm outer diameter) and had sufficient peak capacity to discriminate intermediate species from the T = 3 and T = 4 capsid distributions in an assembly reaction. Because the T = 3 and T = 4 capsids have a wiffle-ball geometry with a hollow core, the observed change in current due to the capsid transiting the nanopore is proportional to the volume of electrolyte displaced by the volume of capsid protein, not the volume of the entire capsid. Both the signal-to-noise ratio of the pulse amplitude and resolution between the T = 3 and T = 4 distributions of the pulse amplitudes increase as the electric field strength is increased. At low field strengths, transport of the larger T = 4 capsid through the nanopores is hindered relative to the smaller T = 3 capsid due to interaction with the pores, but at sufficiently high field strengths, the T = 3 and T = 4 capsids had the same electrophoretic mobilities (7.4 × 10(-5) cm(2) V(-1) s(-1)) in the nanopores and in the nanochannel with the larger cross-sectional area. PMID:25489919

  19. Exacerbation of allergic inflammation in mice exposed to diesel exhaust particles prior to viral infection.

    EPA Science Inventory

    Background: Viral infections and exposure to oxidant air pollutants are two ofthe most important inducers ofasthma exacerbation. Our previous studies have demonstrated that exposure to diesel exhaust increases the susceptibility to influenza virus infections both in epithelial ce...

  20. Computer simulations of single particles in external electric fields.

    PubMed

    Zhou, Jiajia; Schmid, Friederike

    2015-09-14

    Applying electric fields is an attractive way to control and manipulate single particles or molecules, e.g., in lab-on-a-chip devices. However, the response of nanosize objects in electrolyte solution to external fields is far from trivial. It is the result of a variety of dynamical processes taking place in the ion cloud surrounding charged particles and in the bulk electrolyte, and it is governed by an intricate interplay of electrostatic and hydrodynamic interactions. Already systems composed of one single particle in electrolyte solution exhibit a complex dynamical behaviour. In this review, we discuss recent coarse-grained simulations that have been performed to obtain a molecular-level understanding of the dynamic and dielectric response of single particles and single macromolecules to external electric fields. We address both the response of charged particles to constant fields (DC fields), which can be characterized by an electrophoretic mobility, and the dielectric response of both uncharged and charged particles to alternating fields (AC fields), which is described by a complex polarizability. Furthermore, we give a brief survey of simulation algorithms and highlight some recent developments. PMID:26238433

  1. L Particles Transmit Viral Proteins from Herpes Simplex Virus 1-Infected Mature Dendritic Cells to Uninfected Bystander Cells, Inducing CD83 Downmodulation

    PubMed Central

    Kummer, Mirko; Mühl-Zürbes, Petra; Drassner, Christina; Daniel, Christoph; Klewer, Monika; Steinkasserer, Alexander

    2015-01-01

    ABSTRACT Mature dendritic cells (mDCs) are known as the most potent antigen-presenting cells (APCs) since they are also able to prime/induce naive T cells. Thus, mDCs play a pivotal role during the induction of antiviral immune responses. Remarkably, the cell surface molecule CD83, which was shown to have costimulatory properties, is targeted by herpes simplex virus 1 (HSV-1) for viral immune escape. Infection of mDCs with HSV-1 results in downmodulation of CD83, resulting in reduced T cell stimulation. In this study, we report that not only infected mDCs but also uninfected bystander cells in an infected culture show a significant CD83 reduction. We demonstrate that this effect is independent of phagocytosis and transmissible from infected to uninfected mDCs. The presence of specific viral proteins found in these uninfected bystander cells led to the hypothesis that viral proteins are transferred from infected to uninfected cells via L particles. These L particles are generated during lytic replication in parallel with full virions, called H particles. L particles contain viral proteins but lack the viral capsid and DNA. Therefore, these particles are not infectious but are able to transfer several viral proteins. Incubation of mDCs with L particles indeed reduced CD83 expression on uninfected bystander DCs, providing for the first time evidence that functional viral proteins are transmitted via L particles from infected mDCs to uninfected bystander cells, thereby inducing CD83 downmodulation. IMPORTANCE HSV-1 has evolved a number of strategies to evade the host's immune system. Among others, HSV-1 infection of mDCs results in an inhibited T cell activation caused by degradation of CD83. Interestingly, CD83 is lost not only from HSV-1-infected mDCs but also from uninfected bystander cells. The release of so-called L particles, which contain several viral proteins but lack capsid and DNA, during infection is a common phenomenon observed among several viruses, such

  2. Single DNA molecule jamming and history-dependent dynamics during motor-driven viral packaging

    NASA Astrophysics Data System (ADS)

    Keller, Nicholas; Grimes, Shelley; Jardine, Paul J.; Smith, Douglas E.

    2016-08-01

    In many viruses, molecular motors forcibly pack single DNA molecules to near-crystalline density into ~50-100 nm prohead shells. Unexpectedly, we found that packaging frequently stalls in conditions that induce net attractive DNA-DNA interactions. Here, we present findings suggesting that this stalling occurs because the DNA undergoes a nonequilibrium jamming transition analogous to that observed in many soft-matter systems, such as colloidal and granular systems. Experiments in which conditions are changed during packaging to switch DNA-DNA interactions between purely repulsive and net attractive reveal strongly history-dependent dynamics. An abrupt deceleration is usually observed before stalling, indicating that a transition in DNA conformation causes an abrupt increase in resistance. Our findings suggest that the concept of jamming can be extended to a single polymer molecule. However, compared with macroscopic samples of colloidal particles we find that single DNA molecules jam over a much larger range of densities. We attribute this difference to the nanoscale system size, consistent with theoretical predictions for jamming of attractive athermal particles.

  3. Measurement of Raman spectra of single airborne absorbing particles trapped by a single laser beam.

    PubMed

    Ling, Lin; Li, Yong-qing

    2013-02-15

    We demonstrate a method for optical trapping and Raman spectroscopy of micron-sized, airborne absorbing particles using a single focused laser beam. A single Gaussian beam at 532 nm is used to trap and precisely manipulate absorbing airborne particles. The fluctuation of the position of the trapped particles is substantially reduced by controlling the power of the laser beam with a position-sensitive detector and a locking circuit. Raman spectra of the position-stabilized particles or clusters are then measured with an objective and CCD spectrograph. PMID:23455087

  4. High sensitivity fluorescent single particle and single molecule detection apparatus and method

    DOEpatents

    Mathies, Richard A.; Peck, Konan; Stryer, Lubert

    1990-01-01

    Apparatus is described for ultrasensitive detection of single fluorescent particles down to the single fluorescent molecule limit in a fluid or on a substrate comprising means for illuminating a predetermined volume of the fluid or area of the substrate whereby to emit light including background light from the fluid and burst of photons from particles residing in the area. The photon burst is detected in real time to generate output representative signal. The signal is received and the burst of energy from the fluorescent particles is distinguished from the background energy to provide an indication of the number, location or concentration of the particles or molecules.

  5. Characterization of the viral fibroblast growth factor homolog of Helicoverpa armigera single nucleopolyhedrovirus.

    PubMed

    Yin, Feifei; Du, Ruikun; Kuang, Wenhua; Yang, Guang; Wang, Hualin; Deng, Fei; Hu, Zhihong; Wang, Manli

    2016-06-01

    Fibroblast growth factor (FGF) is found throughout multicellular organisms; however, fgf homologs (vfgf) have only been identified among viruses in lepidopteran baculoviruses. The function of vFGFs from Group I alphabaculoviruses, including Autographa californica multiple nucleopolyhedrovirus (AcMNPV) and Bombyx mori nucleopolyhedrovirus (BmNPV), involves accelerated killing of infected larvae by both viruses. The vFGF of Group II alphabaculovirus is structurally different from that of Group I alphabaculovirus, with a larger C-terminal region and additional N-linked glycosylation sites. In this study, we characterized the Group II alphabaculovirus vFGF of Helicoverpa armigera single nucleopolyhedrovirus (HearNPV). The transcription and expression of vfgf was detected at 3 h and 16 h post-infection in HearNPV-infected cells. To further study vFGF function, we constructed vfgf-knockout and -repaired HearNPV bacmids and investigated their affect in both cultured cells and insects. Deletion of vfgf had no effect on budded-virus production or viral DNA replication in cultured HzAM1 cells. However, bioassays showed that HearNPV vfgf deletion significantly increased the median lethal dose and delayed the median lethal time by ∼12 h in the host insect when the virus was delivered orally. These results suggested that vFGF is an important virulent factor for HearNPV infection and propagation in vivo. PMID:27142667

  6. Instrument Development for Single-Particle Albedo Measurements

    NASA Astrophysics Data System (ADS)

    Sanford, T. J.; Murphy, D. M.; Fox, R. W.

    2008-12-01

    The ASTER (Aerosol Scattering To Extinction Ratio) instrument simultaneously measures scattering and extinction by single aerosol particles from which the albedo for each particle can be determined. ASTER employs a high-Q laser cavity to amplify loses in the cavity caused by individual particles to produce measurable extinction signals. The instrument collects light in three separate channels representing backward, forward, and wide-angle scattering. The ratio of forward to total scattering provides a proxy measurement for particle size that Mie scattering calculations show to be largely independent of particle refractive index for diameters below about 2 micrometers. Laboratory measurements on particles of known sizes and scattering properties have been used to assess the performance of the instrument and as a guide for ongoing modifications for eventual field deployment. Results from the current version of the instrument will be presented and compared to previous ASTER data to demonstrate improved performance. Data taken from ambient air have shown modes of highly absorbing particles that would not have been evident from bulk measurements. The single-particle nature of the measurements will provide additional information to complement existing methods for measuring aerosol albedos in the atmosphere.

  7. A Microfluidic-based Hydrodynamic Trap for Single Particles

    PubMed Central

    Johnson-Chavarria, Eric M.; Tanyeri, Melikhan; Schroeder, Charles M.

    2011-01-01

    The ability to confine and manipulate single particles in free solution is a key enabling technology for fundamental and applied science. Methods for particle trapping based on optical, magnetic, electrokinetic, and acoustic techniques have led to major advancements in physics and biology ranging from the molecular to cellular level. In this article, we introduce a new microfluidic-based technique for particle trapping and manipulation based solely on hydrodynamic fluid flow. Using this method, we demonstrate trapping of micro- and nano-scale particles in aqueous solutions for long time scales. The hydrodynamic trap consists of an integrated microfluidic device with a cross-slot channel geometry where two opposing laminar streams converge, thereby generating a planar extensional flow with a fluid stagnation point (zero-velocity point). In this device, particles are confined at the trap center by active control of the flow field to maintain particle position at the fluid stagnation point. In this manner, particles are effectively trapped in free solution using a feedback control algorithm implemented with a custom-built LabVIEW code. The control algorithm consists of image acquisition for a particle in the microfluidic device, followed by particle tracking, determination of particle centroid position, and active adjustment of fluid flow by regulating the pressure applied to an on-chip pneumatic valve using a pressure regulator. In this way, the on-chip dynamic metering valve functions to regulate the relative flow rates in the outlet channels, thereby enabling fine-scale control of stagnation point position and particle trapping. The microfluidic-based hydrodynamic trap exhibits several advantages as a method for particle trapping. Hydrodynamic trapping is possible for any arbitrary particle without specific requirements on the physical or chemical properties of the trapped object. In addition, hydrodynamic trapping enables confinement of a "single" target object in

  8. Three-dimensional single particle tracking in dense dust clouds by stereoscopy of fluorescent particles

    SciTech Connect

    Himpel, Michael; Killer, Carsten; Buttenschoen, Birger; Melzer, Andre

    2012-12-15

    In dense dust clouds of a dusty plasma single particle trajectories are impossible to follow due to occlusion of particles and ambiguities in particle correspondences. By stereoscopic imaging of fluorescent tracer particles, we were able to reconstruct 3D single particle trajectories within dense dust clouds. Several measurements are shown that justify to regard the tracer particles as suitable representatives for the whole dust system. A first analysis of dust density waves in dense clouds already shows that these waves exhibit three-dimensional dynamics at larger wave amplitudes that cannot be resolved by 2D imaging techniques: a broad velocity distribution perpendicular to the oscillation plane due to dust-dust collisions is seen, while the velocity distribution in the oscillation direction is bimodal and shifted due to the bulk wave propagation.

  9. Fixation and chemical analysis of single liquid particle

    NASA Astrophysics Data System (ADS)

    Kasahara, M.; Akashi, S.; Ma, C.-J.; Tohno, S.

    2000-08-01

    The sampling method and treatment procedures to fix liquid droplet as a solid particle were investigated and the elemental analysis of the fixed single particle was also tried applying PIXE and micro-PIXE analyses. Small liquid particles like fog droplet could be easily fixed by exposure to cyanoacrylate vapor within several minutes. Although large liquid particles like raindrops were also fixed successively, some of them were not perfect. Raindrops were easily fixed by freezing method. They existed in stable by exposure to cyanoacrylate vapor after freezing. The elemental concentration of single raindrop separated into 5 size ranges was determined using PIXE and micro-PIXE analysis. The concentration was dependent upon the raindrop size.

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

    NASA Astrophysics Data System (ADS)

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

    2014-06-01

    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.

  11. 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.

  12. Viral meningitis epidemics and a single, recent, recombinant and anthroponotic origin of swine vesicular disease virus

    PubMed Central

    Bruhn, Christian A. W.; Nielsen, Sandra C. Abel; Samaniego, Jose Alfredo; Wadsworth, Jemma; Knowles, Nick J.; Gilbert, M. Thomas P.

    2015-01-01

    Background and objectives: Swine vesicular disease virus (SVDV) is a close relative of the human Enterovirus B serotype, coxsackievirus B5. As the etiological agent of a significant emergent veterinary disease, several studies have attempted to explain its origin. However, several key questions remain, including the full biological ancestry of the virus, and its geographical and temporal origin. Methodology: We sequenced near-complete genomes of 27 SVDV and 13 coxsackievirus B5 samples, all originally isolated between 1966 and 2006, and analysed these in conjunction with existing sequences and historical information. Results: While analyses incorporating 24 additional near-complete SVDV genomic sequences indicate clear signs of within-SVDV recombination, all 51 SVDV isolates remain monophyletic. This supports a hypothesis of a single anthroponotic transfer origin. Analysis of individual coding and non-coding regions supports that SVDV has a recombinant origin between coxsackievirus B5 and another Enterovirus B serotype, most likely coxsackievirus A9. Extensive Bayesian sequence-based analysis of the time of the most recent common ancestor of all analysed sequences places this within a few years around 1961. Epidemiological evidence points to China as an origin, but there are no available samples to test this conclusively. Conclusions and implications: Historical investigation and the clinical aspects of the involved Enterovirus B serotypes, makes the current results consistent with a hypothesis stating that SVDV originated through co-infection, recombination, and a single anthroponotic event, during large viral meningitis epidemics around 1960/1961 involving the ancestral serotypes. The exact geographical origin of SVDV may remain untestable due to historical aspects. PMID:26508717

  13. hCLE/C14orf166, a cellular protein required for viral replication, is incorporated into influenza virus particles

    PubMed Central

    Rodriguez-Frandsen, Ariel; de Lucas, Susana; Pérez-González, Alicia; Pérez-Cidoncha, Maite; Roldan-Gomendio, Alejandro; Pazo, Alejandra; Marcos-Villar, Laura; Landeras-Bueno, Sara; Ortín, Juan; Nieto, Amelia

    2016-01-01

    The influenza A virus polymerase associates with a number of cellular transcription-related factors, including the RNA polymerase II (RNAP II). We previously described that the cellular protein hCLE/C14orf166 interacts with and stimulates influenza virus polymerase as well as RNAP II activities. Here we show that, despite the considerable cellular shut-off observed in infected cells, which includes RNAP II degradation, hCLE protein levels increase throughout infection in a virus replication-dependent manner. Human and avian influenza viruses of various subtypes increase hCLE levels, but other RNA or DNA viruses do not. hCLE colocalises and interacts with viral ribonucleoproteins (vRNP) in the nucleus, as well as in the cytoplasm late in infection. Furthermore, biochemical analysis of purified virus particles and immunoelectron microscopy of infected cells show hCLE in virions, in close association with viral vRNP. These findings indicate that hCLE, a cellular protein important for viral replication, is one of the very few examples of transcription factors that are incorporated into particles of an RNA-containing virus. PMID:26864902

  14. Development of a Charged Particle Microbeam for Targeted and Single Particle Subcellular Irradiation

    SciTech Connect

    Yanch, Jacquelyn C.

    2004-03-12

    The development of a charged particle microbeam for single particle, subcellular irradiations at the Massachusetts Institute of Technology Laboratory for Accelerator Beam Applications (MIT LABA) was initiated under this NEER aeard. The Microbeam apparatus makes use of a pre-existing electrostatic accelerator with a horizontal beam tube.

  15. Mass transfer experiments on single irregular-shaped particles

    SciTech Connect

    Ramezan, M. ); Kale, S.R. ); Anderson, R.J. )

    1991-01-01

    Mass transfer from irregular-shaped naphthalene particles (100-200 {mu}m in size) was studied in an electrodynamic balance. Charged particles were suspended in an electrostatic field directly in line with a calibrated air jet. Mass and size change histories were obtained under ambient conditions, and under steady- and pulsed-flow conditions. For natural convection, the time-averaged Sherwood number was similar to that for spheres. Forced-convection Sherwood number under steady-flow conditions was strongly dependent on particle shape and particle Reynolds number, and was consistently higher than values predicted for spheres at comparable Reynolds numbers. This paper validates the technique and indicates the shape effect on mass transfer from single particles.

  16. Large Silver Halide Single Crystals as Charged Particle Track Detectors

    NASA Technical Reports Server (NTRS)

    Kusmiss, J. H.

    1972-01-01

    The trajectory of the particle is made visible under a microscope by the accumulation of metallic silver at regions of the lattice damaged by the particle. This decoration of the particle track is accomplished by exposure of the crystal to light. The decoration of normally present lattice imperfections such as dislocations can be suppressed by the addition to the crystal of less than ten parts per million of a suitable polyvalent metal impurity. An account of some preliminary attempts to grow thin single crystals of AgCl is given also, and suggestions for a more refined technique are offered.

  17. Single particle nanomechanics in operando batteries via lensless strain mapping.

    PubMed

    Ulvestad, Andrew; Singer, Andrej; Cho, Hyung-Man; Clark, Jesse N; Harder, Ross; Maser, Jorg; Meng, Ying Shirley; Shpyrko, Oleg G

    2014-09-10

    We reveal three-dimensional strain evolution in situ of a single LiNi0.5Mn1.5O4 nanoparticle in a coin cell battery under operando conditions during charge/discharge cycles with coherent X-ray diffractive imaging. We report direct observation of both stripe morphologies and coherency strain at the nanoscale. Our results suggest the critical size for stripe formation is 50 nm. Surprisingly, the single nanoparticle elastic energy landscape, which we map with femtojoule precision, depends on charge versus discharge, indicating hysteresis at the single particle level. This approach opens a powerful new avenue for studying battery nanomechanics, phase transformations, and capacity fade under operando conditions at the single particle level that will enable profound insight into the nanoscale mechanisms that govern electrochemical energy storage systems. PMID:25141157

  18. Beyond single particle mass spectrometry: multidimensional characterisation of individual aerosol particles

    SciTech Connect

    Zelenyuk, Alla; Imre, D.

    2009-09-10

    The behavior of small aerosol particles depends on a number of their physical and chemical properties, many of which are strongly coupled. The size, internal composition, density, shape, morphology, hygroscopicity, index of refraction, activity as cloud condensation nuclei and ice nuclei, and other attributes of individual particles - all play a role in determining particle properties and their impacts. The traditional particle characterization approaches rely on separate parallel measurements that average over an ensemble of particles of different sizes and/or compositions and later attempt to draw correlations between them. As a result such studies overlook critical differences between particles and bulk and miss the fact that individual particles often exhibit major differences. Here we review the recently developed methods to simultaneously measure in-situ and in real time several of the attributes for individual particles using single particle mass spectrometer, SPLAT or its second generation SPLAT II. We also discuss novel approaches developed for classification, visualization and mining of large datasets produced by the multidimensional single particle characterization.

  19. Generalized single-particle cryo-EM--a historical perspective.

    PubMed

    Frank, Joachim

    2016-02-01

    This is a brief account of the earlier history of single-particle cryo-EM of biological molecules lacking internal symmetry, which goes back to the mid-seventies. The emphasis of this review is on the mathematical concepts and computational approaches. It is written as the field experiences a turning point in the wake of the introduction of digital cameras capable of single electron counting, and near-atomic resolution can be reached even for smaller molecules. PMID:26566976

  20. Atomic Bose-Hubbard Systems with Single-Particle Control

    NASA Astrophysics Data System (ADS)

    Preiss, Philipp Moritz

    Experiments with ultracold atoms in optical lattices provide outstanding opportunities to realize exotic quantum states due to a high degree of tunability and control. In this thesis, I present experiments that extend this control from global parameters to the level of individual particles. Using a quantum gas microscope for 87Rb, we have developed a single-site addressing scheme based on digital amplitude holograms. The system self-corrects for aberrations in the imaging setup and creates arbitrary beam profiles. We are thus able to shape optical potentials on the scale of single lattice sites and control the dynamics of individual atoms. We study the role of quantum statistics and interactions in the Bose-Hubbard model on the fundamental level of two particles. Bosonic quantum statistics are apparent in the Hong-Ou-Mandel interference of massive particles, which we observe in tailored double-well potentials. These underlying statistics, in combination with tunable repulsive interactions, dominate the dynamics in single- and two-particle quantum walks. We observe highly coherent position-space Bloch oscillations, bosonic bunching in Hanbury Brown-Twiss interference and the fermionization of strongly interacting bosons. Many-body states of indistinguishable quantum particles are characterized by large-scale spatial entanglement, which is difficult to detect in itinerant systems. Here, we extend the concept of Hong-Ou-Mandel interference from individual particles to many-body states to directly quantify entanglement entropy. We perform collective measurements on two copies of a quantum state and detect entanglement entropy through many-body interference. We measure the second order Renyi entropy in small Bose-Hubbard systems and detect the buildup of spatial entanglement across the superfluid-insulator transition. Our experiments open new opportunities for the single-particle-resolved preparation and characterization of many-body quantum states.

  1. Nanoparticle diffusion within intestinal mucus: Three-dimensional response analysis dissecting the impact of particle surface charge, size and heterogeneity across polyelectrolyte, pegylated and viral particles.

    PubMed

    Abdulkarim, Muthanna; Agulló, Nuria; Cattoz, Beatrice; Griffiths, Peter; Bernkop-Schnürch, Andreas; Borros, Salvador Gómez; Gumbleton, Mark

    2015-11-01

    Multiple particle tracking (MPT) methodology was used to dissect the impact of nanoparticle surface charge and size upon particle diffusion through freshly harvested porcine jejunum mucus. The mucus was characterised rheologically and by atomic force microscopy. To vary nanoparticle surface charge we used a series of self-assembly polyelectrolyte particles composed of varying ratios of the negatively charged polyacrylic acid polymer and the positively charged chitosan polymer. This series included a neutral or near-neutral particle to correspond to highly charged but near-neutral viral particles that appear to effectively permeate mucus. In order to negate the confounding issue of self-aggregation of such neutral synthetic particles a sonication step effectively reduced particle size (to less than 340 nm) for a sufficient period to conduct the tracking experiments. Across the polyelectrolyte particles a broad and meaningful relationship was observed between particle diffusion in mucus (×1000 difference between slowest and fastest particle types), particle size (104-373 nm) and particle surface charge (-29 mV to +19.5 mV), where the beneficial characteristic promoting diffusion was a neutral or near-neutral charge. The diffusion of the neutral polyelectrolyte particle (0.02887 cm S(-1)×10(-9)) compared favourably with that of a highly diffusive PEGylated-PLGA particle (0.03182 cm(2) S(-1)×10(-9)), despite the size of the latter (54 nm diameter) accommodating a reduced steric hindrance with the mucin network. Heterogeneity of particle diffusion within a given particle type revealed the most diffusive 10% sub-population for the neutral polyelectrolyte formulation (5.809 cm(2) S(-1)×10(-9)) to be faster than that of the most diffusive 10% sub-populations obtained either for the PEGylated-PLGA particle (4.061 cm(2) S(-1)×10(-9)) or for a capsid adenovirus particle (1.922 cm(2) S(-1)×10(-9)). While this study has used a simple self-assembly polyelectrolyte system

  2. Modeling Viral Capsid Assembly

    PubMed Central

    2014-01-01

    I present a review of the theoretical and computational methodologies that have been used to model the assembly of viral capsids. I discuss the capabilities and limitations of approaches ranging from equilibrium continuum theories to molecular dynamics simulations, and I give an overview of some of the important conclusions about virus assembly that have resulted from these modeling efforts. Topics include the assembly of empty viral shells, assembly around single-stranded nucleic acids to form viral particles, and assembly around synthetic polymers or charged nanoparticles for nanotechnology or biomedical applications. I present some examples in which modeling efforts have promoted experimental breakthroughs, as well as directions in which the connection between modeling and experiment can be strengthened. PMID:25663722

  3. Quantification of aerosol chemical composition using continuous single particle measurements

    NASA Astrophysics Data System (ADS)

    Jeong, C.-H.; McGuire, M. L.; Godri, K. J.; Slowik, J. G.; Rehbein, P. J. G.; Evans, G. J.

    2011-07-01

    Mass concentrations of sulphate, nitrate, ammonium, organic carbon (OC), elemental carbon (EC) were determined from real time single particle data in the size range 0.1-3.0 μm measured by an Aerosol Time-of-Flight Mass Spectrometer (ATOFMS) at urban and rural sites in Canada. To quantify chemical species within individual particles measured by an ATOFMS, ion peak intensity of m/z -97 for sulphate, -62 for nitrate, +18 for ammonium, +43 for OC, and +36 for EC were scaled using the number and size distribution data by an Aerodynamic Particle Sizer (APS) and a Fast Mobility Particle Sizer (FMPS). Hourly quantified chemical species from ATOFMS single-particle analysis were compared with collocated fine particulate matter (aerodynamic diameter < 2.5 μm, PM2.5) chemical composition measurements by an Aerosol Mass Spectrometer (AMS) at a rural site, a Gas-Particle Ion Chromatograph (GPIC) at an urban site, and a Sunset Lab field OCEC analyzer at both sites. The highest correlation was found for nitrate, with correlation coefficients (Pearson r) of 0.89 (ATOFMS vs. GPIC) and 0.85 (ATOFMS vs. AMS). ATOFMS mass calibration factors, determined for the urban site, were used to calculate mass concentrations of the major PM2.5 chemical components at the rural site near the US border in southern Ontario. Mass reconstruction using the ATOFMS mass calibration factors agreed very well with the PM2.5 mass concentrations measured by a Tapered Element Oscillating Microbalance (TEOM, r = 0.86) at the urban site and a light scattering monitor (DustTrak, r = 0.87) at the rural site. In the urban area nitrate was the largest contributor to PM2.5 mass in the winter, while organics and sulphate contributed ~64 % of the summer PM2.5 in the rural area, suggesting a strong influence of regional/trans-boundary pollution. The mass concentrations of five major species in ten size-resolved particle-types and aerosol acidity of each particle-type were determined for the rural site. On a mass basis

  4. Electrokinetic particle separation in a single-spiral microchannel

    NASA Astrophysics Data System (ADS)

    DuBose, John; Zhu, Junjie; Patel, Saurin; Lu, Xinyu; Tupper, Nathaniel; Stonaker, John M.; Xuan, Xiangchun

    2014-11-01

    The efficient separation of discrete particle species is a topic of interest in numerous research fields for its practical application to problems encountered in both academia and industry. We have recently developed an electrokinetic technique that exploits the curvature-induced dielectrophoresis (C-iDEP) to continuously sort particles by inherent properties in asymmetric double-spiral microchannels. Herein we demonstrate that a single-spiral microchannel is also sufficient for a continuous-flow sheathless electrokinetic particle separation. This method relies on C-iDEP to focus particles to a tight stream and the wall-induced electric lift to manipulate the aligned particles to size-dependent equilibrium positions, both of which happen simultaneously inside the spiral. A theoretical model is developed to understand this size-based separation, which has been implemented for both a binary mixture and a ternary mixture of colloidal particles. The obtained analytical formulae predict with a close agreement both the experimentally measured particle center-wall distance and the necessary electric field for a complete particle focusing in the spiral.

  5. Compressive Characterization of Single Porous SiC Hollow Particles

    NASA Astrophysics Data System (ADS)

    Shunmugasamy, Vasanth Chakravarthy; Zeltmann, Steven E.; Gupta, Nikhil; Strbik, Oliver M.

    2014-06-01

    Silicon carbide hollow spheres are compression tested to understand their energy absorption characteristics. Two types of particles having tap densities of 440 kg/m3 and 790 kg/m3 (referred to as S1 and S2, respectively) were tested in the present study. The process used to fabricate the hollow spheres leads to porosity in the walls, which affects the mechanical properties of the hollow spheres. The porosity in the walls helps in obtaining mechanical bonding between the matrix material and the particle when such particles are used as fillers in composites. The single-particle compression test results show that the S1 and S2 particles had fracture energies of 0.38 × 10-3 J and 3.18 × 10-3 J, respectively. The modulus and fracture energy of the particles were found to increase with increasing diameter. However, the increasing trend shows variations because the wall thickness can vary as an independent parameter. Hollow particle fillers are used in polymer and metal matrices to develop porous composites called syntactic foams. The experimentally measured properties of these particles can be used in theoretical models to design syntactic foams with the desired set of properties for a given application.

  6. Exploring dynamics in living cells by tracking single particles.

    PubMed

    Levi, Valeria; Gratton, Enrico

    2007-01-01

    In the last years, significant advances in microscopy techniques and the introduction of a novel technology to label living cells with genetically encoded fluorescent proteins revolutionized the field of Cell Biology. Our understanding on cell dynamics built from snapshots on fixed specimens has evolved thanks to our actual capability to monitor in real time the evolution of processes in living cells. Among these new tools, single particle tracking techniques were developed to observe and follow individual particles. Hence, we are starting to unravel the mechanisms driving the motion of a wide variety of cellular components ranging from organelles to protein molecules by following their way through the cell. In this review, we introduce the single particle tracking technology to new users. We briefly describe the instrumentation and explain some of the algorithms commonly used to locate and track particles. Also, we present some common tools used to analyze trajectories and illustrate with some examples the applications of single particle tracking to study dynamics in living cells. PMID:17703064

  7. A dual-wavelength single particle aerosol fluorescence monitor

    NASA Astrophysics Data System (ADS)

    Kaye, Paul H.; Stanley, Warren R.; Foot, Virginia; Baxter, Karen; Barrington, Stephen J.

    2005-10-01

    Laser diodes and light-emitting diodes capable of continuous sub-300 nm radiation emission will ultimately represent optimal excitation sources for compact and fieldable bio-aerosol monitors. However, until such devices are routinely available and whilst solid-state UV lasers remain relatively expensive, other low-cost sources of UV can offer advantages. This paper describes one such prototype that employs compact xenon discharge UV sources to excite intrinsic fluorescence from individual particles within an ambient aerosol sample. The prototype monitor samples ambient air via a laminar sheathed-flow arrangement such that particles within the sample flow column are rendered in single file as they intersect the beam from a continuous-wave 660nm diode laser. Each individual particle produces a scattered light signal from which an estimate of particle size (down to ~1 um) may be derived. This same signal also initiates the sequential firing (~10 us apart) of two xenon sources which irradiate the particle with UV pulses centred upon ~280 nm and ~370 nm wavelength, optimal for excitation of bio-fluorophores tryptophan and NADH respectively. For each excitation wavelength, fluorescence is detected across two bands embracing the peak emissions of the same bio-fluorophores. Thus, for each particle, a 2-dimensional fluorescence excitation-emission matrix is recorded together with an estimate of particle size. Current measurement rates are up to ~125 particles/s (limited by the xenon recharge time), corresponding to all particles for concentrations up to ~2 x 104 particles/l. Developments to increase this to ~500 particles/s are in hand. Analysis of results from aerosols of E.coli, BG spores, and a variety of non-biological materials are given.

  8. Single-particle spectroscopic factors for spherical nuclei

    SciTech Connect

    Gnezdilov, N. V.; Saperstein, E. E. Tolokonnikov, S. V.

    2015-01-15

    Within the self-consistent theory of finite Fermi systems, the total single-particle spectroscopic factors for seven doubly magic nuclei of {sup 40}Ca, {sup 48}Ca, {sup 56}Ni, {sup 78}Ni, {sup 100}Sn, {sup 132}Sn, and {sup 208}Pb and for the {sup 188–212}Pb chain of semimagic even lead isotopes are calculated by the energy-density-functional method implemented with a functional in the form proposed by Fayans and his coauthors. The spectroscopic factor is expressed in terms of the Z factor, which is the residue of the single-particle Green’s function at the single-particle pole. The total Z factor calculated in the present study involves both effects of coupling to phonons and the volume Z factor, which is due to the fact that the mass operator features an energy dependence not associated with surface phonons. The volume Z factor is on the same order of magnitude as the phonon-coupling contribution. The volume effect depends only slightly on the nuclear species and on the single-particle state λ. On the contrary, the phonon contribution to the total spectroscopic factor changes upon going over from one state to another and from one nuclear species to another.

  9. Single-particle spectroscopic factors for spherical nuclei

    NASA Astrophysics Data System (ADS)

    Gnezdilov, N. V.; Saperstein, E. E.; Tolokonnikov, S. V.

    2015-01-01

    Within the self-consistent theory of finite Fermi systems, the total single-particle spectroscopic factors for seven doubly magic nuclei of 40Ca, 48Ca, 56Ni, 78Ni, 100Sn, 132Sn, and 208Pb and for the 188-212Pb chain of semimagic even lead isotopes are calculated by the energy-density-functional method implemented with a functional in the form proposed by Fayans and his coauthors. The spectroscopic factor is expressed in terms of the Z factor, which is the residue of the single-particle Green's function at the single-particle pole. The total Z factor calculated in the present study involves both effects of coupling to phonons and the volume Z factor, which is due to the fact that the mass operator features an energy dependence not associated with surface phonons. The volume Z factor is on the same order of magnitude as the phonon-coupling contribution. The volume effect depends only slightly on the nuclear species and on the single-particle state λ. On the contrary, the phonon contribution to the total spectroscopic factor changes upon going over from one state to another and from one nuclear species to another.

  10. Single particle density of trapped interacting quantum gases

    SciTech Connect

    Bala, Renu; Bosse, J.; Pathak, K. N.

    2015-05-15

    An expression for single particle density for trapped interacting gases has been obtained in first order of interaction using Green’s function method. Results are easily simplified for homogeneous quantum gases and are found to agree with famous results obtained by Huang-Yang-Luttinger and Lee-Yang.

  11. Single Particle Orientation and Rotational Tracking (SPORT) in biopysical studies

    SciTech Connect

    Gu, Yan; Ha, Ji Won; Augspurger, Ashley E.; Chen, Kuangcai; Zhu, Shaobin; Fang, Ning

    2013-08-02

    The single particle orientation and rotational tracking (SPORT) techniques have seen rapid development in the past 5 years. Recent technical advances have greatly expanded the applicability of SPORT in biophysical studies. In this feature article, we survey the current development of SPORT and discuss its potential applications in biophysics, including cellular membrane processes and intracellular transport.

  12. Anchorage of HIV on permissive cells leads to coaggregation of viral particles with surface nucleolin at membrane raft microdomains.

    PubMed

    Nisole, Sébastien; Krust, Bernard; Hovanessian, Ara G

    2002-06-10

    The cross-linking of HIV on permissive cells results aggregation of HIV particles with surface nucleolin, CD4, and CXCR4, but without affecting the organization of CD45. In addition, HIV particles and nucleolin coaggregate with glycolipid-enriched membrane microdomains (GEMs) containing ganglioside, and glycosylphosphatidylinositol-linked proteins CD90 and CD59, pointing out that HIV anchorage induces lateral assemblies of specific membrane components into lipid rafts in which surface nucleolin is also incorporated. Consequently, equilibrium density fractionation of extracts from infected cells revealed that HIV proteins and nucleolin copurify with Triton X-100-resistant GEM-associated proteins. After HIV entry, nucleolin is recovered also in fractions containing HIV DNA, viral matrix, and reverse transcriptase, thus suggesting that it could accompany viral entry. We show that surface nucleolin is markedly down-regulated a few hours following HIV entry into permissive cells; an effect that appears to be the consequence of its translocation into the cytoplasm. Our findings demonstrate that anchorage of HIV particles on permissive cells induces aggegation of surface nucleolin and its association with detergent-insoluble lipid raft components. Moreover, they support the suggestion that surface nucleolin and lipid rafts are implicated in early events in the HIV entry process. PMID:12027446

  13. Combustion particles as ice nuclei in an urban environment: Evidence from single-particle mass spectrometry

    NASA Astrophysics Data System (ADS)

    Corbin, J. C.; Rehbein, P. J. G.; Evans, G. J.; Abbatt, J. P. D.

    2012-05-01

    This paper presents measurements of the single-particle composition of ice nuclei (IN) in downtown Toronto, Canada, made at 239 ± 1 K, 134 ± 2% relative humidity with respect to ice (RHi). IN were activated within the University of Toronto Continuous-Flow Diffusion Chamber (UT-CFDC), separated from background aerosol using a pumped counterflow virtual impactor (PCVI), and analyzed using a dual-polarity single-particle mass spectrometer (ATOFMS). To account for particles leaked by the PCVI, the ratio of particles observed at high RHi to low RHi was calculated. This ratio was greater than unity for EC (elemental carbon), BB (biomass burning) and dust particles, however only the increase in EC was statistically significant (1σ level) due to a low number of detected particles. The remaining particle categories were: metal-rich organic carbon (M/OC), potassium-rich OC (K/OC), OC potentially mixed with EC (OC/EC) and “other”, none of which were enhanced in number at high RHi. To complement the direct PCVI observations and enhance the number of spectra available, a second study was performed where particle composition and IN concentrations (CIN) were measured in parallel. IN concentrations were regressed against the same categories as above, and dust, BB and EC particles were identified as the best predictors of CIN. Consistency between these two methods provides increased confidence in their individual results and encourages additional study of these potential IN.

  14. Single-particle spectroscopic measurements of fluorescent graphene quantum dots.

    PubMed

    Xu, Qinfeng; Zhou, Qi; Hua, Zheng; Xue, Qi; Zhang, Chunfeng; Wang, Xiaoyong; Pan, Dengyu; Xiao, Min

    2013-12-23

    We have performed the first single-particle spectroscopic measurements on individual graphene quantum dots (GQDs) and revealed several intriguing fluorescent phenomena that are otherwise hidden in the optical studies of ensemble GQDs. First, despite noticeable differences in the size and the number of layers from particle to particle, all of the GQDs studied possess almost the same spectral lineshapes and peak positions. Second, GQDs with more layers are normally brighter emitters but are associated with shorter fluorescent lifetimes. Third, the fluorescent spectrum of GQDs was red-shifted upon being aged in air, possibly due to the water desorption effect. Finally, the missing emission of single photons and stable fluorescence without any intermittent behavior were observed from individual GQDs. PMID:24251867

  15. Life and death of a single catalytic cracking particle.

    PubMed

    Meirer, Florian; Kalirai, Sam; Morris, Darius; Soparawalla, Santosh; Liu, Yijin; Mesu, Gerbrand; Andrews, Joy C; Weckhuysen, Bert M

    2015-04-01

    Fluid catalytic cracking (FCC) particles account for 40 to 45% of worldwide gasoline production. The hierarchical complex particle pore structure allows access of long-chain feedstock molecules into active catalyst domains where they are cracked into smaller, more valuable hydrocarbon products (for example, gasoline). In this process, metal deposition and intrusion is a major cause for irreversible catalyst deactivation and shifts in product distribution. We used x-ray nanotomography of industrial FCC particles at differing degrees of deactivation to quantify changes in single-particle macroporosity and pore connectivity, correlated to iron and nickel deposition. Our study reveals that these metals are incorporated almost exclusively in near-surface regions, severely limiting macropore accessibility as metal concentrations increase. Because macropore channels are "highways" of the pore network, blocking them prevents feedstock molecules from reaching the catalytically active domains. Consequently, metal deposition reduces conversion with time on stream because the internal pore volume, although itself unobstructed, becomes largely inaccessible. PMID:26601160

  16. Horizontal deflection of single particle in a paramagnetic fluid.

    PubMed

    Liu, S; Yi, Xiang; Leaper, M; Miles, N J

    2014-06-01

    This paper describes the horizontal deflection behaviour of a single particle in paramagnetic fluids under a high-gradient superconducting magnetic field. A glass box was designed to carry out experiments and test assumptions. It was found that the particles were deflected away from the magnet bore centre and particles with different density and/or susceptibility settled at a certain position on the container floor due to the combined forces of gravity and magneto-Archimedes as well as lateral buoyant (displacement) force. Matlab was chosen to simulate the movement of the particle in the magnetic fluid, the simulation results were in good accordance with experimental data. The results presented here, though, are still very much in their infancy, which could potentially form the basis of a new approach to separating materials based on a combination of density and susceptibility. PMID:24894886

  17. On-line single particle analysis of environmental tobacco smoke

    SciTech Connect

    Prather, K.A.; Morrical, B.O.

    1995-12-01

    Environmental Tobacco Smoke (ETS) is a major component in indoor and outdoor air pollution. It has been estimated that ETS accounts for approximately 2.7% of fine organic aerosol emissions in the Los Angeles area and the adverse health effects of cigarette emissions have been well documented. Particulate analysis by conventional analytical methods, such as GC/MS, do not provide information on individual aerosol particles due to the off-line collection and sampling procedures. Aerosol Time-Flight Mass Spectrometry is an on-line analytical technique that is uniquely capable of single particle analysis, simultaneously providing information on particle size and chemical composition. It will be demonstrated that this technique can be used to show how the chemical composition of ETS particles changes as a function of size. Data demonstrating the ability to monitor chemical composition and size change as a function of time will also be presented.

  18. Optimal diffusion coefficient estimation in single-particle tracking

    PubMed Central

    Michalet, Xavier; Berglund, Andrew J.

    2016-01-01

    Single-particle tracking is increasingly used to extract quantitative parameters on single molecules and their environment, while advances in spatial and temporal resolution of tracking techniques inspire new questions and avenues of investigation. Correspondingly, sophisticated analytical methods are constantly developed to obtain more refined information from measured trajectories. Here we point out some fundamental limitations of these approaches due to the finite length of trajectories, the presence of localization error, and motion blur, focusing on the simplest motion regime of free diffusion in an isotropic medium (Brownian motion). We show that two recently proposed algorithms approach the theoretical limit of diffusion coefficient uncertainty. We discuss the practical performance of the algorithms as well as some important implications of these results for single-particle tracking. PMID:23005136

  19. The character of single particle sulfate in Baltimore

    NASA Astrophysics Data System (ADS)

    Lake, Derek A.; Tolocka, Michael P.; Johnston, Murray V.; Wexler, Anthony S.

    2004-10-01

    A major component of PM2.5 in urban aerosol in the eastern United States is sulfate. The eastern US is heavily influenced by regional sources (e.g. coal combustion in the Ohio River Valley) and also by local sources. From March to December 2002, the Baltimore aerosol was characterized with the real-time single-particle mass spectrometer RSMS III. RSMS III is capable of simultaneous positive/negative ion detection of size selected particles between 45 and 1250 nm in diameter. The negative ion detection ability allows sulfate to be monitored. Particles were first sorted into two groups based on the negative ion spectra: (1) those with sulfate detected and (2) those with no sulfate detected. The two groups were further sub-divided by ART 2-a analysis of the positive ion spectra to determine which particle compositions are most/least likely to contain detectable sulfate. A separate analysis was also performed on the positive ion spectra to determine the presence/absence of specific metals in the group of particles with and without sulfate. The correlation of positive and negative ion spectra in this manner allows particle types that are strongly associated with sulfate to be distinguished from those which are not. Particle types strongly correlated with sulfate are nitrate, organic carbon/nitrate (OCAN) and vanadium. Particle types weakly associated with sulfate include carbon and potassium/sodium. Many particles contain both sulfate and nitrate, which suggests that they are acid neutralized. While laser ablation mass spectrometry has inherent limitations for particulate sulfate detection, the results presented here suggest that sulfate detection by this method is a reasonable indicator of particle source and atmospheric transformation.

  20. The use of Nanotrap particles technology in capturing HIV-1 virions and viral proteins from infected cells.

    PubMed

    Jaworski, Elizabeth; Saifuddin, Mohammed; Sampey, Gavin; Shafagati, Nazly; Van Duyne, Rachel; Iordanskiy, Sergey; Kehn-Hall, Kylene; Liotta, Lance; Petricoin, Emanuel; Young, Mary; Lepene, Benjamin; Kashanchi, Fatah

    2014-01-01

    HIV-1 infection results in a chronic but incurable illness since long-term HAART can keep the virus to an undetectable level. However, discontinuation of therapy rapidly increases viral burden. Moreover, patients under HAART frequently develop various metabolic disorders and HIV-associated neuronal disease. Today, the main challenge of HIV-1 research is the elimination of the residual virus in infected individuals. The current HIV-1 diagnostics are largely comprised of serological and nucleic acid based technologies. Our goal is to integrate the nanotrap technology into a standard research tool that will allow sensitive detection of HIV-1 infection. This study demonstrates that majority of HIV-1 virions in culture supernatants and Tat/Nef proteins spiked in culture medium can be captured by nanotrap particles. To determine the binding affinities of different baits, we incubated target molecules with nanotrap particles at room temperature. After short sequestration, materials were either eluted or remained attached to nanotrap particles prior to analysis. The unique affinity baits of nanotrap particles preferentially bound HIV-1 materials while excluded albumin. A high level capture of Tat or Tat peptide by NT082 and NT084 particles was measured by western blot (WB). Intracellular Nef protein was captured by NT080, while membrane-associated Nef was captured by NT086 and also detected by WB. Selective capture of HIV-1 particles by NT073 and NT086 was measured by reverse transcriptase assay, while capture of infectious HIV-1 by these nanoparticles was demonstrated by functional transactivation in TZM-bl cells. We also demonstrated specific capture of HIV-1 particles and exosomes-containing TAR-RNA in patients' serum by NT086 and NT082 particles, respectively, using specific qRT-PCR. Collectively, our data indicate that certain types of nanotrap particles selectively capture specific HIV-1 molecules, and we propose to use this technology as a platform to enhance HIV-1

  1. The Use of Nanotrap Particles Technology in Capturing HIV-1 Virions and Viral Proteins from Infected Cells

    PubMed Central

    Sampey, Gavin; Shafagati, Nazly; Van Duyne, Rachel; Iordanskiy, Sergey; Kehn-Hall, Kylene; Liotta, Lance; Petricoin, Emanuel; Young, Mary; Lepene, Benjamin; Kashanchi, Fatah

    2014-01-01

    HIV-1 infection results in a chronic but incurable illness since long-term HAART can keep the virus to an undetectable level. However, discontinuation of therapy rapidly increases viral burden. Moreover, patients under HAART frequently develop various metabolic disorders and HIV-associated neuronal disease. Today, the main challenge of HIV-1 research is the elimination of the residual virus in infected individuals. The current HIV-1 diagnostics are largely comprised of serological and nucleic acid based technologies. Our goal is to integrate the nanotrap technology into a standard research tool that will allow sensitive detection of HIV-1 infection. This study demonstrates that majority of HIV-1 virions in culture supernatants and Tat/Nef proteins spiked in culture medium can be captured by nanotrap particles. To determine the binding affinities of different baits, we incubated target molecules with nanotrap particles at room temperature. After short sequestration, materials were either eluted or remained attached to nanotrap particles prior to analysis. The unique affinity baits of nanotrap particles preferentially bound HIV-1 materials while excluded albumin. A high level capture of Tat or Tat peptide by NT082 and NT084 particles was measured by western blot (WB). Intracellular Nef protein was captured by NT080, while membrane-associated Nef was captured by NT086 and also detected by WB. Selective capture of HIV-1 particles by NT073 and NT086 was measured by reverse transcriptase assay, while capture of infectious HIV-1 by these nanoparticles was demonstrated by functional transactivation in TZM-bl cells. We also demonstrated specific capture of HIV-1 particles and exosomes-containing TAR-RNA in patients' serum by NT086 and NT082 particles, respectively, using specific qRT-PCR. Collectively, our data indicate that certain types of nanotrap particles selectively capture specific HIV-1 molecules, and we propose to use this technology as a platform to enhance HIV-1

  2. Ambient particle characterization by single particle aerosol mass spectrometry in an urban area of Beijing

    NASA Astrophysics Data System (ADS)

    Li, Lei; Li, Mei; Huang, Zhengxu; Gao, Wei; Nian, Huiqing; Fu, Zhong; Gao, Jian; Chai, Fahe; Zhou, Zhen

    2014-09-01

    To investigate the composition and possible sources of aerosol particles in Beijing urban area, a single particle aerosol mass spectrometer (SPAMS) was deployed from April 22 to May 4, 2011. 510,341 particles out of 2,953,200 sized particles were characterized by SPAMS in combination with the ART-2a neural network algorithm. The particles were classified as rich-K (39.79%), carbonaceous species (32.7%), industry metal (19.2%), dust (5.7%), and rich-Na (1.76%). Industrial emissions related particles, rich-Fe, rich-Pb, and K-nitrate, were the major components of aerosol particles during haze periods, which were mainly from the steel plants and metal smelting processes around Beijing. Under stagnant meterological conditions, these regional emissions have a vital effect on haze formation. Organic carbon (OC) particles were attributed to biomass burning. NaK-EC was likely to come from local traffic emissions. Internally mixed organic and elemental carbon (OCEC) was found to be from possible sources of local traffic emission and biomass burning. It was found that coarse dust particles were mainly composed of four different types of dust particles, dust-Si, dust-Ca, dust-Al, and dust-Ti. It is the first time that SPAMS was used to study a dust storm in Beijing. Our results showed that SPAMS could be a powerful tool in the identification and apportionment of aerosol sources in Beijing, providing useful reference information for environmental control and management.

  3. Two-particle and single-particle spin-dependent interactions in topological insulators

    NASA Astrophysics Data System (ADS)

    Radu, Marius; Lyanda-Geller, Yuli

    2014-03-01

    We derive single-particle and two-particle interaction Hamiltonians describing physics of two-dimensional topological insulators based on HgTe-CdTe quantum well structures by using k . p theory and extended Kane model. We include contributions from upper conduction band with orbital states of p-symmetry that bring about the terms describing lack of inversion symmetry in host semiconductors. Single-particle Hamiltonian and two-particle Hamiltonian contain important spin-dependent diagonal and off-diagonal terms. We demonstrate how these terms affect spin currents, interference effects in conductance such as weak localization and anti-localization, and contribute to spin relaxation and dephasing. The spin-dependent interaction terms couple orbital motion of one particle with evolution of spin of the other particle. Such particle-particle interactions do not conserve spin and lower the symmetry of exchange interactions, leading, e.g., to Dzyaloshinskii-Moriya exchange term. Support of Purdue Center for Topological Materials is gratefully acknowledged.

  4. Chemical compositions of subway particles in Seoul, Korea determined by a quantitative single particle analysis.

    PubMed

    Kang, Sunni; Hwang, HeeJin; Park, YooMyung; Kim, HyeKyoung; Ro, Chul-Un

    2008-12-15

    A novel single particle analytical technique, low-Z particle electron probe X-ray microanalysis, was applied to characterize seasonal subway samples collected at a subway station in Seoul, Korea. For all 8 samples collected twice in each season, 4 major types of subway particles, based on their chemical compositions, are significantly encountered: Fe-containing; soil-derived; carbonaceous; and secondary nitrate and/or sulfate particles. Fe-containing particles are generated indoors from wear processes at rail-wheel-brake interfaces while the others may be introduced mostly from the outdoor urban atmosphere. Fe-containing particles are the most frequently encountered with relative abundances in the range of 61-79%. In this study, it is shown that Fe-containing subway particles almost always exist either as partially or fully oxidized forms in underground subway microenvironments. Their relative abundances of Fe-containing particles increase as particle sizes decrease. Relative abundances of Fe-containing particles are higher in morning samples than in afternoon samples because of heavier train traffic in the morning. In the summertime samples, Fe-containing particles are the most abundantly encountered, whereas soil-derived and nitrate/sulfate particles are the least encountered, indicating the air-exchange between indoor and outdoor environments is limited in the summer, owing to the air-conditioning in the subway system. In our work, it was observed that the relative abundances of the particles of outdoor origin vary somewhat among seasonal samples to a lesser degree, reflecting that indoor emission sources predominate. PMID:19174870

  5. Combustion of a single magnesium particle in water vapor

    NASA Astrophysics Data System (ADS)

    Huang, Li-Ya; Xia, Zhi-Xun; Zhang, Wei-Hua; Huang, Xu; Hu, Jian-Xin

    2015-09-01

    The combustion of magnesium particles in water vapor is of interest for underwater propulsion and hydrogen production. In this work, the combustion process of a single magnesium particle in water vapor is studied both experimentally and theoretically. Combustion experiments are conducted in a combustor filled with motionless water vapor. Condensation of gas-phase magnesia on the particle surface is confirmed and gas-phase combustion flame characteristics are observed. With the help of an optical filter and a neutral optical attenuator, flame structures are captured and determined. Flame temperature profiles are measured by an infrared thermometer. Combustion residue is a porous oxide shell of disordered magnesia crystal, which may impose a certain influence on the diffusivity of gas phases. A simplified one-dimensional, spherically symmetric, quasi-steady combustion model is then developed. In this model, the condensation of gas-phase magnesia on the particle surface and its influence on the combustion process are included, and the Stefan problem on the particle surface is also taken into consideration. With the combustion model, the parameters of flame temperature, flame diameter, and the burning time of the particle are solved analytically under the experimental conditions. A reasonable agreement between the experimental and modeling results is demonstrated, and several features to improve the model are identified. Project supported by the National Natural Science Foundation of China (Grant No. 51406231).

  6. Comparison of Major and Minor Viral SNPs Identified through Single Template Sequencing and Pyrosequencing in Acute HIV-1 Infection

    PubMed Central

    Bouzek, Heather; Kim, Moon; Deng, Wenjie; Larsen, Brendan B.; Zhao, Hong; Bumgarner, Roger E.; Rolland, Morgane; Mullins, James I.

    2015-01-01

    Massively parallel sequencing (MPS) technologies, such as 454-pyrosequencing, allow for the identification of variants in sequence populations at lower levels than consensus sequencing and most single-template Sanger sequencing experiments. We sought to determine if the greater depth of population sampling attainable using MPS technology would allow detection of minor variants in HIV founder virus populations very early in infection in instances where Sanger sequencing detects only a single variant. We compared single nucleotide polymorphisms (SNPs) during acute HIV-1 infection from 32 subjects using both single template Sanger and 454-pyrosequencing. Pyrosequences from a median of 2400 viral templates per subject and encompassing 40% of the HIV-1 genome, were compared to a median of five individually amplified near full-length viral genomes sequenced using Sanger technology. There was no difference in the consensus nucleotide sequences over the 3.6kb compared in 84% of the subjects infected with single founders and 33% of subjects infected with multiple founder variants: among the subjects with disagreements, mismatches were found in less than 1% of the sites evaluated (of a total of nearly 117,000 sites across all subjects). The majority of the SNPs observed only in pyrosequences were present at less than 2% of the subject’s viral sequence population. These results demonstrate the utility of the Sanger approach for study of early HIV infection and provide guidance regarding the design, utility and limitations of population sequencing from variable template sources, and emphasize parameters for improving the interpretation of massively parallel sequencing data to address important questions regarding target sequence evolution. PMID:26317928

  7. A Primer to Single-Particle Cryo-Electron Microscopy

    PubMed Central

    Cheng, Yifan; Grigorieff, Nikolaus; Penczek, Pawel A.; Walz, Thomas

    2015-01-01

    Summary Cryo-electron microscopy (cryo-EM) of single-particle specimens is used to determine the structure of proteins and macromolecular complexes without the need for crystals. Recent advances in detector technology and software algorithms now allow images of unprecedented quality to be recorded and structures to be determined at near-atomic resolution. However, compared with X-ray crystallography, cryo-EM is a young technique with distinct challenges. This primer explains the different steps and considerations involved in structure determination by single-particle cryo-EM to provide an overview for scientists wishing to understand more about this technique and the interpretation of data obtained with it, as well as a starting guide for new practitioners. PMID:25910204

  8. Multifocus confocal Raman microspectroscopy for rapid single-particle analysis.

    PubMed

    Kong, Lingbo; Zhang, Pengfei; Setlow, Peter; Li, Yong-qing

    2011-12-01

    We have developed a multifocus confocal Raman microspectroscopy system that allows simultaneous analyses of ≈ 80 individual biological or airborne microparticles based on a precise image-guided technique. Multiple individual particles adhered in random positions on a coverslip were illuminated by a multifocus excitation pattern formed by rapidly steering a single laser beam with a pair of galvo-mirrors, and their Raman scatterings were synchronously projected with another galvo-mirror to different rows of a CCD chip for parallel spectroscopic analyses. We show that this technique can be used to rapidly identify single airborne particles or bacteria collected on a slide and to monitor germination dynamics of multiple bacterial spores in real-time. PMID:22191908

  9. High resolution single particle refinement in EMAN2.1.

    PubMed

    Bell, James M; Chen, Muyuan; Baldwin, Philip R; Ludtke, Steven J

    2016-05-01

    EMAN2.1 is a complete image processing suite for quantitative analysis of grayscale images, with a primary focus on transmission electron microscopy, with complete workflows for performing high resolution single particle reconstruction, 2-D and 3-D heterogeneity analysis, random conical tilt reconstruction and subtomogram averaging, among other tasks. In this manuscript we provide the first detailed description of the high resolution single particle analysis pipeline and the philosophy behind its approach to the reconstruction problem. High resolution refinement is a fully automated process, and involves an advanced set of heuristics to select optimal algorithms for each specific refinement task. A gold standard FSC is produced automatically as part of refinement, providing a robust resolution estimate for the final map, and this is used to optimally filter the final CTF phase and amplitude corrected structure. Additional methods are in-place to reduce model bias during refinement, and to permit cross-validation using other computational methods. PMID:26931650

  10. Hydroxyapatite-mediated separation of double-stranded DNA, single-stranded DNA, and RNA genomes from natural viral assemblages.

    PubMed

    Andrews-Pfannkoch, Cynthia; Fadrosh, Douglas W; Thorpe, Joyce; Williamson, Shannon J

    2010-08-01

    Metagenomics can be used to determine the diversity of complex, often unculturable, viral communities with various nucleic acid compositions. Here, we report the use of hydroxyapatite chromatography to efficiently fractionate double-stranded DNA (dsDNA), single-stranded DNA (ssDNA), dsRNA, and ssRNA genomes from known bacteriophages. Linker-amplified shotgun libraries were constructed to generate sequencing reads from each hydroxyapatite fraction. Greater than 90% of the reads displayed significant similarity to the expected genomes at the nucleotide level. These methods were applied to marine viruses collected from the Chesapeake Bay and the Dry Tortugas National Park. Isolated nucleic acids were fractionated using hydroxyapatite chromatography followed by linker-amplified shotgun library construction and sequencing. Taxonomic analysis demonstrated that the majority of environmental sequences, regardless of their source nucleic acid, were most similar to dsDNA viruses, reflecting the bias of viral metagenomic sequence databases. PMID:20543058

  11. Towards an integrated optical single aerosol particle lab.

    PubMed

    Horstmann, Marcel; Probst, Karl; Fallnich, Carsten

    2012-01-21

    We present a manipulation and characterization system for single airborne particles which is integrated onto a microscope slide. Trapped particles are manipulated by means of radiation pressure and characterized by cavity enhanced Raman spectroscopy. Optical fibers are used to deliver the trapping laser light as well as to collect the Raman scattered light, allowing for a flexible usage of the device. The system features a sample chamber which is separated from an aerosol-flooded injection chamber by means of a light guiding glass-capillary. The coupling of this device with an aerosol optical tweezers setup to selectively load its trapping sites is demonstrated. Finally, a route towards chip-integrated handling and processing of multiple particles is shown and the first results are presented. PMID:22105700

  12. Cryptanalysis of quantum secret sharing with d -level single particles

    NASA Astrophysics Data System (ADS)

    Lin, Song; Guo, Gong-De; Xu, Yong-Zhen; Sun, Ying; Liu, Xiao-Fen

    2016-06-01

    In a recent paper [V. Karimipour and M. Asoudeh, Phys. Rev. A 92, 030301(R) (2015)], 10.1103/PhysRevA.92.030301, a multiparty quantum secret-sharing protocol based on d -level single particles was proposed. We discussed the security of this protocol and found that it is not secure for any one dishonest participant who can recover the secret without the aid of other participants.

  13. Spin resonance strength calculation through single particle tracking for RHIC

    SciTech Connect

    Luo, Y.; Dutheil, Y.; Huang, H.; Meot, F.; Ranjbar, V.

    2015-05-03

    The strengths of spin resonances for the polarized-proton operation in the Relativistic Heavy Ion Collider are currently calculated with the code DEPOL, which numerically integrates through the ring based on an analytical approximate formula. In this article, we test a new way to calculate the spin resonance strengths by performing Fourier transformation to the actual transverse magnetic fields seen by a single particle traveling through the ring. Comparison of calculated spin resonance strengths is made between this method and DEPOL.

  14. Detection and Tracking of Dual-Labeled HIV Particles Using Wide-Field Live Cell Imaging to Follow Viral Core Integrity.

    PubMed

    Mamede, João I; Hope, Thomas J

    2016-01-01

    Live cell imaging is a valuable technique that allows the characterization of the dynamic processes of the HIV-1 life cycle. Here, we present a method of production and imaging of dual-labeled HIV viral particles that allows the visualization of two events. Varying release of the intravirion fluid phase marker reveals virion fusion and the loss of the integrity of HIV viral cores with the use of live wide-field fluorescent microscopy. PMID:26714704

  15. Single-File Escape of Colloidal Particles from Microfluidic Channels.

    PubMed

    Locatelli, Emanuele; Pierno, Matteo; Baldovin, Fulvio; Orlandini, Enzo; Tan, Yizhou; Pagliara, Stefano

    2016-07-15

    Single-file diffusion is a ubiquitous physical process exploited by living and synthetic systems to exchange molecules with their environment. It is paramount to quantify the escape time needed for single files of particles to exit from constraining synthetic channels and biological pores. This quantity depends on complex cooperative effects, whose predominance can only be established through a strict comparison between theory and experiments. By using colloidal particles, optical manipulation, microfluidics, digital microscopy, and theoretical analysis we uncover the self-similar character of the escape process and provide closed-formula evaluations of the escape time. We find that the escape time scales inversely with the diffusion coefficient of the last particle to leave the channel. Importantly, we find that at the investigated microscale, bias forces as tiny as 10^{-15}  N determine the magnitude of the escape time by drastically reducing interparticle collisions. Our findings provide crucial guidelines to optimize the design of micro- and nanodevices for a variety of applications including drug delivery, particle filtering, and transport in geometrical constrictions. PMID:27472142

  16. DETERMINATION OF STOKES SHAPE FACTOR FOR SINGLE PARTICLES AND AGGLOMERATES

    SciTech Connect

    Matyas, Josef; Schaible, Micah J.; Vienna, John D.

    2011-09-01

    The large octahedral crystals of spinel can precipitate from glass during the high-level waste vitrification process and potentially block the glass discharge riser of electrically heated ceramic melters. To help predict the settling behavior of spinel in the riser, the settling of single particles and agglomerates was studied in stagnant and transparent viscosity oils at room temperature with developed optical particle-dynamics-analyzer. Determined dimensions and terminal settling velocities of particles were used for calculation of their Stokes shape factors. Calculated shape factor for the glass beads was almost identical with the theoretical shape factor of 2/9 for a perfect sphere. The shape factor for single spinel crystal was about 7.6 % higher compare to the theoretically predicted value for octahedron. Stokes shape factor of irregularly shaped multi-particle agglomerates was lower than that of the glass beads and individual spinel crystals because of the higher surface drag caused by the larger surface area to volume ratio.

  17. Single-File Escape of Colloidal Particles from Microfluidic Channels

    NASA Astrophysics Data System (ADS)

    Locatelli, Emanuele; Pierno, Matteo; Baldovin, Fulvio; Orlandini, Enzo; Tan, Yizhou; Pagliara, Stefano

    2016-07-01

    Single-file diffusion is a ubiquitous physical process exploited by living and synthetic systems to exchange molecules with their environment. It is paramount to quantify the escape time needed for single files of particles to exit from constraining synthetic channels and biological pores. This quantity depends on complex cooperative effects, whose predominance can only be established through a strict comparison between theory and experiments. By using colloidal particles, optical manipulation, microfluidics, digital microscopy, and theoretical analysis we uncover the self-similar character of the escape process and provide closed-formula evaluations of the escape time. We find that the escape time scales inversely with the diffusion coefficient of the last particle to leave the channel. Importantly, we find that at the investigated microscale, bias forces as tiny as 10-15 N determine the magnitude of the escape time by drastically reducing interparticle collisions. Our findings provide crucial guidelines to optimize the design of micro- and nanodevices for a variety of applications including drug delivery, particle filtering, and transport in geometrical constrictions.

  18. Automated single particle detection and tracking for large microscopy datasets

    PubMed Central

    Wilson, Rhodri S.; Yang, Lei; Dun, Alison; Smyth, Annya M.; Duncan, Rory R.; Rickman, Colin

    2016-01-01

    Recent advances in optical microscopy have enabled the acquisition of very large datasets from living cells with unprecedented spatial and temporal resolutions. Our ability to process these datasets now plays an essential role in order to understand many biological processes. In this paper, we present an automated particle detection algorithm capable of operating in low signal-to-noise fluorescence microscopy environments and handling large datasets. When combined with our particle linking framework, it can provide hitherto intractable quantitative measurements describing the dynamics of large cohorts of cellular components from organelles to single molecules. We begin with validating the performance of our method on synthetic image data, and then extend the validation to include experiment images with ground truth. Finally, we apply the algorithm to two single-particle-tracking photo-activated localization microscopy biological datasets, acquired from living primary cells with very high temporal rates. Our analysis of the dynamics of very large cohorts of 10 000 s of membrane-associated protein molecules show that they behave as if caged in nanodomains. We show that the robustness and efficiency of our method provides a tool for the examination of single-molecule behaviour with unprecedented spatial detail and high acquisition rates. PMID:27293801

  19. Single-particle Lagrangian and structure statistics in kinematically simulated particle-laden turbulent flows

    NASA Astrophysics Data System (ADS)

    Murray, S.; Lightstone, M. F.; Tullis, S.

    2016-03-01

    Kinematic simulation (KS) is a means of generating a turbulent-like velocity field, in a manner that enforces a desired input Eulerian energy spectrum. Such models have also been applied in particle-laden flows, due to their ability to enforce spatial organization of the fluid velocity field when simulating the trajectories of individual Lagrangian particles. A critical evaluation of KS is presented; in particular, we examine its ability to reproduce single-particle Lagrangian statistics. Also the ability of KS to reproduce the preferential concentration of inertial particles is examined. Some computational results are presented, in which particles are transported alternatively by (1) turbulence generated by direct numerical simulation (DNS) of the incompressible Navier-Stokes equations, and (2) KS. The effect of unsteadiness formulation in particular is examined. We find that even steady KS qualitatively reproduces the continuity effect, clustering of inertial particles, the elevated dispersion of inertial particles over fluid particles, and the intermittency of Lagrangian velocity signals, but generally not to the same extent as is seen in the DNS.

  20. Strategies for single particle manipulation using acoustic and flow fields.

    PubMed

    Oberti, S; Möller, D; Neild, A; Dual, J; Beyeler, F; Nelson, B J; Gutmann, S

    2010-02-01

    Acoustic radiation forces have often been used for the manipulation of large amounts of micrometer sized suspended particles. The nature of acoustic standing wave fields is such that they are present throughout the whole fluidic volume; this means they are well suited to such operations, with all suspended particles reacting at the same time upon exposure. Here, this simultaneous positioning capability is exploited to pre-align particles along the centerline of channels, so that they can successively be removed by means of an external tool for further analysis. This permits a certain degree of automation in single particle manipulation processes to be achieved as initial identification of particles' location is no longer necessary, rather predetermined. Two research fields in which applications are found have been identified. First, the manipulation of copolymer beads and cells using a microgripper is presented. Then, sample preparation for crystallographic analysis by positioning crystals into a loop using acoustic manipulation and a laminar flow will be presented. PMID:19837446

  1. Age determination of single plutonium particles after chemical separation

    NASA Astrophysics Data System (ADS)

    Shinonaga, T.; Donohue, D.; Ciurapinski, A.; Klose, D.

    2009-01-01

    Age determination of single plutonium particles was demonstrated using five particles of the standard reference material, NBS 947 (Plutonium Isotopic Standard. National Bureau of Standards, Washington, D.C. 20234, August 19, 1982, currently distributed as NBL CRM-137) and the radioactive decay of 241Pu into 241Am. The elemental ratio of Am/Pu in Pu particles found on a carbon planchet was measured by wavelength dispersive X-ray spectrometry (WDX) coupled to a scanning electron microscope (SEM). After the WDX measurement, each plutonium particle, with an average size of a few μm, was picked up and relocated to a silicon wafer inside the SEM chamber using a micromanipulator. The silicon wafer was then transferred to a quartz tube for dissolution in an acid solution prior to chemical separation. After the Pu was chemically separated from Am and U, the isotopic ratios of Pu ( 240Pu/ 239Pu, 241Pu/ 239Pu and 242Pu/ 239Pu) were measured with a thermal ionization mass spectrometer (TIMS) for the calculation of Pu age. The age of particles determined in this study was in good agreement with the expected age (35.9 a) of NBS 947 within the measurement uncertainty.

  2. Single virus particle mass detection using microresonators with nanoscale thickness

    NASA Astrophysics Data System (ADS)

    Gupta, A.; Akin, D.; Bashir, R.

    2004-03-01

    In this letter, we present the microfabrication and application of arrays of silicon cantilever beams as microresonator sensors with nanoscale thickness to detect the mass of individual virus particles. The dimensions of the fabricated cantilever beams were in the range of 4-5 μm in length, 1-2 μm in width and 20-30 nm in thickness. The virus particles we used in the study were vaccinia virus, which is a member of the Poxviridae family and forms the basis of the smallpox vaccine. The frequency spectra of the cantilever beams, due to thermal and ambient noise, were measured using a laser Doppler vibrometer under ambient conditions. The change in resonant frequency as a function of the virus particle mass binding on the cantilever beam surface forms the basis of the detection scheme. We have demonstrated the detection of a single vaccinia virus particle with an average mass of 9.5 fg. These devices can be very useful as components of biosensors for the detection of airborne virus particles.

  3. Conflicting Selection Pressures Will Constrain Viral Escape from Interfering Particles: Principles for Designing Resistance-Proof Antivirals.

    PubMed

    Rast, Luke I; Rouzine, Igor M; Rozhnova, Ganna; Bishop, Lisa; Weinberger, Ariel D; Weinberger, Leor S

    2016-05-01

    The rapid evolution of RNA-encoded viruses such as HIV presents a major barrier to infectious disease control using conventional pharmaceuticals and vaccines. Previously, it was proposed that defective interfering particles could be developed to indefinitely control the HIV/AIDS pandemic; in individual patients, these engineered molecular parasites were further predicted to be refractory to HIV's mutational escape (i.e., be 'resistance-proof'). However, an outstanding question has been whether these engineered interfering particles-termed Therapeutic Interfering Particles (TIPs)-would remain resistance-proof at the population-scale, where TIP-resistant HIV mutants may transmit more efficiently by reaching higher viral loads in the TIP-treated subpopulation. Here, we develop a multi-scale model to test whether TIPs will maintain indefinite control of HIV at the population-scale, as HIV ('unilaterally') evolves toward TIP resistance by limiting the production of viral proteins available for TIPs to parasitize. Model results capture the existence of two intrinsic evolutionary tradeoffs that collectively prevent the spread of TIP-resistant HIV mutants in a population. First, despite their increased transmission rates in TIP-treated sub-populations, unilateral TIP-resistant mutants are shown to have reduced transmission rates in TIP-untreated sub-populations. Second, these TIP-resistant mutants are shown to have reduced growth rates (i.e., replicative fitness) in both TIP-treated and TIP-untreated individuals. As a result of these tradeoffs, the model finds that TIP-susceptible HIV strains continually outcompete TIP-resistant HIV mutants at both patient and population scales when TIPs are engineered to express >3-fold more genomic RNA than HIV expresses. Thus, the results provide design constraints for engineering population-scale therapies that may be refractory to the acquisition of antiviral resistance. PMID:27152856

  4. Drift correction of the dissolved signal in single particle ICPMS.

    PubMed

    Cornelis, Geert; Rauch, Sebastien

    2016-07-01

    A method is presented where drift, the random fluctuation of the signal intensity, is compensated for based on the estimation of the drift function by a moving average. It was shown using single particle ICPMS (spICPMS) measurements of 10 and 60 nm Au NPs that drift reduces accuracy of spICPMS analysis at the calibration stage and during calculations of the particle size distribution (PSD), but that the present method can again correct the average signal intensity as well as the signal distribution of particle-containing samples skewed by drift. Moreover, deconvolution, a method that models signal distributions of dissolved signals, fails in some cases when using standards and samples affected by drift, but the present method was shown to improve accuracy again. Relatively high particle signals have to be removed prior to drift correction in this procedure, which was done using a 3 × sigma method, and the signals are treated separately and added again. The method can also correct for flicker noise that increases when signal intensity is increased because of drift. The accuracy was improved in many cases when flicker correction was used, but when accurate results were obtained despite drift, the correction procedures did not reduce accuracy. The procedure may be useful to extract results from experimental runs that would otherwise have to be run again. Graphical Abstract A method is presented where a spICP-MS signal affected by drift (left) is corrected (right) by adjusting the local (moving) averages (green) and standard deviations (purple) to the respective values at a reference time (red). In combination with removing particle events (blue) in the case of calibration standards, this method is shown to obtain particle size distributions where that would otherwise be impossible, even when the deconvolution method is used to discriminate dissolved and particle signals. PMID:27095581

  5. Single-particle absorption spectroscopy by photothermal contrast.

    PubMed

    Yorulmaz, Mustafa; Nizzero, Sara; Hoggard, Anneli; Wang, Lin-Yung; Cai, Yi-Yu; Su, Man-Nung; Chang, Wei-Shun; Link, Stephan

    2015-05-13

    Removing effects of sample heterogeneity through single-molecule and single-particle techniques has advanced many fields. While background free luminescence and scattering spectroscopy is widely used, recording the absorption spectrum only is rather difficult. Here we present an approach capable of recording pure absorption spectra of individual nanostructures. We demonstrate the implementation of single-particle absorption spectroscopy on strongly scattering plasmonic nanoparticles by combining photothermal microscopy with a supercontinuum laser and an innovative calibration procedure that accounts for chromatic aberrations and wavelength-dependent excitation powers. Comparison of the absorption spectra to the scattering spectra of the same individual gold nanoparticles reveals the blueshift of the absorption spectra, as predicted by Mie theory but previously not detectable in extinction measurements that measure the sum of absorption and scattering. By covering a wavelength range of 300 nm, we are furthermore able to record absorption spectra of single gold nanorods with different aspect ratios. We find that the spectral shift between absorption and scattering for the longitudinal plasmon resonance decreases as a function of nanorod aspect ratio, which is in agreement with simulations. PMID:25849105

  6. Simultaneous Single-Particle Superlocalization and Rotational Tracking

    SciTech Connect

    Gu, Yan; Wang, Gufeng; Fang, Ning

    2013-01-30

    Superlocalization of single molecules and nanoparticles has become an essential procedure to bring new insights into nanoscale structures and dynamics of biological systems. In the present study, superlocalization is combined with the newly introduced differential interference contrast (DIC) microscopy-based single-particle orientation and rotational tracking. The new technique overcomes the difficulty in localization of the antisymmetric DIC point spread function by using a dual-modality microscope configuration for simultaneous rotational tracking and localization of single gold nanorods with nanometer-scale precision. The new imaging setup has been applied to study the steric hindrance induced by relatively large cargos in the microtubule gliding assay and to track nanocargos in the crowded cellular environment. This technique has great potential in the study of biological processes where both localization and rotational information are required.

  7. Maturation of the viral core enhances the fusion of HIV-1 particles with primary human T cells and monocyte-derived macrophages

    SciTech Connect

    Jiang Jiyang; Aiken, Christopher . E-mail: chris.aiken@vanderbilt.edu

    2006-03-15

    HIV-1 infection requires fusion of viral and cellular membranes in a reaction catalyzed by the viral envelope proteins gp120 and gp41. We recently reported that efficient HIV-1 particle fusion with target cells is linked to maturation of the viral core by an activity of the gp41 cytoplasmic domain. Here, we show that maturation enhances the fusion of a variety of recombinant viruses bearing primary and laboratory-adapted Env proteins with primary human CD4{sup +} T cells. Overall, HIV-1 fusion was more dependent on maturation for viruses bearing X4-tropic envelope proteins than for R5-tropic viruses. Fusion of HIV-1 with monocyte-derived macrophages was also dependent on particle maturation. We conclude that the ability to couple fusion to particle maturation is a common feature of HIV-1 Env proteins and may play an important role during HIV-1 replication in vivo.

  8. Impact of viral activators and epigenetic regulators on HIV-1 LTRs containing naturally occurring single nucleotide polymorphisms.

    PubMed

    Shah, Sonia; Pirrone, Vanessa; Alexaki, Aikaterini; Nonnemacher, Michael R; Wigdahl, Brian

    2015-01-01

    Following human immunodeficiency virus type 1 (HIV-1) integration into host cell DNA, the viral promoter can become transcriptionally silent in the absence of appropriate signals and factors. HIV-1 gene expression is dependent on regulatory elements contained within the long terminal repeat (LTR) that drive the synthesis of viral RNAs and proteins through interaction with multiple host and viral factors. Previous studies identified single nucleotide polymorphisms (SNPs) within CCAAT/enhancer binding protein (C/EBP) site I and Sp site III (3T, C-to-T change at position 3, and 5T, C-to-T change at position 5 of the binding site, respectively, when compared to the consensus B sequence) that are low affinity binding sites and correlate with more advanced stages of HIV-1 disease. Stably transfected cell lines containing the wild type, 3T, 5T, and 3T5T LTRs were developed utilizing bone marrow progenitor, T, and monocytic cell lines to explore the LTR phenotypes associated with these genotypic changes from an integrated chromatin-based microenvironment. Results suggest that in nonexpressing cell clones LTR-driven gene expression occurs in a SNP-specific manner in response to LTR activation or treatment with trichostatin A treatment, indicating a possible cell type and SNP-specific mechanism behind the epigenetic control of LTR activation. PMID:25629043

  9. Volumetric particle image velocimetry with a single plenoptic camera

    NASA Astrophysics Data System (ADS)

    Fahringer, Timothy W.; Lynch, Kyle P.; Thurow, Brian S.

    2015-11-01

    A novel three-dimensional (3D), three-component (3C) particle image velocimetry (PIV) technique based on volume illumination and light field imaging with a single plenoptic camera is described. A plenoptic camera uses a densely packed microlens array mounted near a high resolution image sensor to sample the spatial and angular distribution of light collected by the camera. The multiplicative algebraic reconstruction technique (MART) computed tomography algorithm is used to reconstruct a volumetric intensity field from individual snapshots and a cross-correlation algorithm is used to estimate the velocity field from a pair of reconstructed particle volumes. This work provides an introduction to the basic concepts of light field imaging with a plenoptic camera and describes the unique implementation of MART in the context of plenoptic image data for 3D/3C PIV measurements. Simulations of a plenoptic camera using geometric optics are used to generate synthetic plenoptic particle images, which are subsequently used to estimate the quality of particle volume reconstructions at various particle number densities. 3D reconstructions using this method produce reconstructed particles that are elongated by a factor of approximately 4 along the optical axis of the camera. A simulated 3D Gaussian vortex is used to test the capability of single camera plenoptic PIV to produce a 3D/3C vector field, where it was found that lateral displacements could be measured to approximately 0.2 voxel accuracy in the lateral direction and 1 voxel in the depth direction over a 300× 200× 200 voxel volume. The feasibility of the technique is demonstrated experimentally using a home-built plenoptic camera based on a 16-megapixel interline CCD camera and a 289× 193 array of microlenses and a pulsed Nd:YAG laser. 3D/3C measurements were performed in the wake of a low Reynolds number circular cylinder and compared with measurements made using a conventional 2D/2C PIV system. Overall, single camera

  10. Characteristics of Artificial Virus-like Particles Assembled in vitro from Potato Virus X Coat Protein and Foreign Viral RNAs.

    PubMed

    Arkhipenko, M V; Petrova, E K; Nikitin, N A; Protopopova, A D; Dubrovin, E V; Yaminskii, I V; Rodionova, N P; Karpova, O V; Atabekov, J G

    2011-07-01

    Potato virus X (PVX) and some other potexviruses can be reconstitutedin vitrofrom viral coat protein (CP) and RNA. PVX CP is capable of forming viral ribonucleoprotein complexes (vRNP) not only with homologous, but also with foreign RNAs. This paper presents the structure and properties of vRNP assembledin vitroupon incubation of PVX CP and RNAs of various plant and animal viruses belonging to different taxonomic groups. We have shown that the morphology and translational properties of vRNPs containing foreign (heterologous) RNA are identical to those of homological vRNP (PVX RNA - PVX CP). Our data suggest that the assembly of the "mixed" vRNPin vitrocould be started at the 5'-proximal region of the RNA, producing a helical structure of vRNPs with foreign nucleic acids. The formation of heterologous vRNPin vitrowith PVX CP appears not to require a specific 5' end RNA nucleotide sequence, and the PVX CP seems to be able to pack foreign genetic material of various sizes and compositions into artificial virus-like particles. PMID:22649692

  11. Charged-particle spectroscopy in organic semiconducting single crystals

    NASA Astrophysics Data System (ADS)

    Ciavatti, A.; Sellin, P. J.; Basiricò, L.; Fraleoni-Morgera, A.; Fraboni, B.

    2016-04-01

    The use of organic materials as radiation detectors has grown, due to the easy processability in liquid phase at room temperature and the possibility to cover large areas by means of low cost deposition techniques. Direct charged-particle detectors based on solution-grown Organic Semiconducting Single Crystals (OSSCs) are shown to be capable to detect charged particles in pulse mode, with very good peak discrimination. The direct charged-particle detection in OSSCs has been assessed both in the planar and in the vertical axes, and a digital pulse processing algorithm has been used to perform pulse height spectroscopy and to study the charge collection efficiency as a function of the applied bias voltage. Taking advantage of the charge spectroscopy and the good peak discrimination of pulse height spectra, an Hecht-like behavior of OSSCs radiation detectors is demonstrated. It has been possible to estimate the mobility-lifetime value in organic materials, a fundamental parameter for the characterization of radiation detectors, whose results are equal to μτcoplanar = (5 .5 ± 0.6 ) × 10-6 cm2/V and μτsandwich = (1 .9 ± 0.2 ) × 10-6 cm2/V, values comparable to those of polycrystalline inorganic detectors. Moreover, alpha particles Time-of-Flight experiments have been carried out to estimate the drift mobility value. The results reported here indicate how charged-particle detectors based on OSSCs possess a great potential as low-cost, large area, solid-state direct detectors operating at room temperature. More interestingly, the good detection efficiency and peak discrimination observed for charged-particle detection in organic materials (hydrogen-rich molecules) are encouraging for their further exploitation in the detection of thermal and high-energy neutrons.

  12. Life and death of a single catalytic cracking particle

    PubMed Central

    Meirer, Florian; Kalirai, Sam; Morris, Darius; Soparawalla, Santosh; Liu, Yijin; Mesu, Gerbrand; Andrews, Joy C.; Weckhuysen, Bert M.

    2015-01-01

    Fluid catalytic cracking (FCC) particles account for 40 to 45% of worldwide gasoline production. The hierarchical complex particle pore structure allows access of long-chain feedstock molecules into active catalyst domains where they are cracked into smaller, more valuable hydrocarbon products (for example, gasoline). In this process, metal deposition and intrusion is a major cause for irreversible catalyst deactivation and shifts in product distribution. We used x-ray nanotomography of industrial FCC particles at differing degrees of deactivation to quantify changes in single-particle macroporosity and pore connectivity, correlated to iron and nickel deposition. Our study reveals that these metals are incorporated almost exclusively in near-surface regions, severely limiting macropore accessibility as metal concentrations increase. Because macropore channels are “highways” of the pore network, blocking them prevents feedstock molecules from reaching the catalytically active domains. Consequently, metal deposition reduces conversion with time on stream because the internal pore volume, although itself unobstructed, becomes largely inaccessible. PMID:26601160

  13. DNA-Directed Antibody Immobilization for Enhanced Detection of Single Viral Pathogens.

    PubMed

    Seymour, Elif; Daaboul, George G; Zhang, Xirui; Scherr, Steven M; Ünlü, Nese Lortlar; Connor, John H; Ünlü, M Selim

    2015-10-20

    Here, we describe the use of DNA-conjugated antibodies for rapid and sensitive detection of whole viruses using a single-particle interferometric reflectance imaging sensor (SP-IRIS), a simple, label-free biosensor capable of imaging individual nanoparticles. First, we characterize the elevation of the antibodies conjugated to a DNA sequence on a three-dimensional (3-D) polymeric surface using a fluorescence axial localization technique, spectral self-interference fluorescence microscopy (SSFM). Our results indicate that using DNA linkers results in significant elevation of the antibodies on the 3-D polymeric surface. We subsequently show the specific detection of pseudotyped vesicular stomatitis virus (VSV) as a model virus on SP-IRIS platform. We demonstrate that DNA-conjugated antibodies improve the capture efficiency by achieving the maximal virus capture for an antibody density as low as 0.72 ng/mm(2), whereas for unmodified antibody, the optimal virus capture requires six times greater antibody density on the sensor surface. We also show that using DNA conjugated anti-EBOV GP (Ebola virus glycoprotein) improves the sensitivity of EBOV-GP carrying VSV detection compared to directly immobilized antibodies. Furthermore, utilizing a DNA surface for conversion to an antibody array offers an easier manufacturing process by replacing the antibody printing step with DNA printing. The DNA-directed immobilization technique also has the added advantages of programmable sensor surface generation based on the need and resistance to high temperatures required for microfluidic device fabrication. These capabilities improve the existing SP-IRIS technology, resulting in a more robust and versatile platform, ideal for point-of-care diagnostics applications. PMID:26378807

  14. Authenticated multi-user quantum key distribution with single particles

    NASA Astrophysics Data System (ADS)

    Lin, Song; Wang, Hui; Guo, Gong-De; Ye, Guo-Hua; Du, Hong-Zhen; Liu, Xiao-Fen

    2016-03-01

    Quantum key distribution (QKD) has been growing rapidly in recent years and becomes one of the hottest issues in quantum information science. During the implementation of QKD on a network, identity authentication has been one main problem. In this paper, an efficient authenticated multi-user quantum key distribution (MQKD) protocol with single particles is proposed. In this protocol, any two users on a quantum network can perform mutual authentication and share a secure session key with the assistance of a semi-honest center. Meanwhile, the particles, which are used as quantum information carriers, are not required to be stored, therefore the proposed protocol is feasible with current technology. Finally, security analysis shows that this protocol is secure in theory.

  15. Conflicting Selection Pressures Will Constrain Viral Escape from Interfering Particles: Principles for Designing Resistance-Proof Antivirals

    PubMed Central

    Rast, Luke I.; Rouzine, Igor M.; Rozhnova, Ganna; Bishop, Lisa; Weinberger, Ariel D.; Weinberger, Leor S.

    2016-01-01

    The rapid evolution of RNA-encoded viruses such as HIV presents a major barrier to infectious disease control using conventional pharmaceuticals and vaccines. Previously, it was proposed that defective interfering particles could be developed to indefinitely control the HIV/AIDS pandemic; in individual patients, these engineered molecular parasites were further predicted to be refractory to HIV’s mutational escape (i.e., be ‘resistance-proof’). However, an outstanding question has been whether these engineered interfering particles—termed Therapeutic Interfering Particles (TIPs)—would remain resistance-proof at the population-scale, where TIP-resistant HIV mutants may transmit more efficiently by reaching higher viral loads in the TIP-treated subpopulation. Here, we develop a multi-scale model to test whether TIPs will maintain indefinite control of HIV at the population-scale, as HIV (‘unilaterally’) evolves toward TIP resistance by limiting the production of viral proteins available for TIPs to parasitize. Model results capture the existence of two intrinsic evolutionary tradeoffs that collectively prevent the spread of TIP-resistant HIV mutants in a population. First, despite their increased transmission rates in TIP-treated sub-populations, unilateral TIP-resistant mutants are shown to have reduced transmission rates in TIP-untreated sub-populations. Second, these TIP-resistant mutants are shown to have reduced growth rates (i.e., replicative fitness) in both TIP-treated and TIP-untreated individuals. As a result of these tradeoffs, the model finds that TIP-susceptible HIV strains continually outcompete TIP-resistant HIV mutants at both patient and population scales when TIPs are engineered to express >3-fold more genomic RNA than HIV expresses. Thus, the results provide design constraints for engineering population-scale therapies that may be refractory to the acquisition of antiviral resistance. PMID:27152856

  16. Organic aerosol mixing observed by single-particle mass spectrometry.

    PubMed

    Robinson, Ellis Shipley; Saleh, Rawad; Donahue, Neil M

    2013-12-27

    We present direct measurements of mixing between separately prepared organic aerosol populations in a smog chamber using single-particle mass spectra from the high-resolution time-of-flight aerosol mass spectrometer (HR-ToF-AMS). Docosane and docosane-d46 (22 carbon linear solid alkane) did not show any signs of mixing, but squalane and squalane-d62 (30 carbon branched liquid alkane) mixed on the time scale expected from a condensational-mixing model. Docosane and docosane-d46 were driven to mix when the chamber temperature was elevated above the melting point for docosane. Docosane vapors were shown to mix into squalane-d62, but not the other way around. These results are consistent with low diffusivity in the solid phase of docosane particles. We performed mixing experiments on secondary organic aerosol (SOA) surrogate systems finding that SOA derived from toluene-d8 (a surrogate for anthropogenic SOA (aSOA)) does not mix into squalane (a surrogate for hydrophobic primary organic aerosol (POA)) but does mix into SOA derived from α-pinene (biogenic SOA (bSOA) surrogate). For the aSOA/POA, the volatility of either aerosol does not limit gas-phase diffusion, indicating that the two particle populations do not mix simply because they are immiscible. In the aSOA/bSOA system, the presence of toluene-d8-derived SOA molecules in the α-pinene-derived SOA provides evidence that the diffusion coefficient in α-pinene-derived SOA is high enough for mixing on the time scale of 1 min. The observations from all of these mixing experiments are generally invisible to bulk aerosol composition measurements but are made possible with single-particle composition data. PMID:24131283

  17. Nature of single-particle states in disordered graphene

    NASA Astrophysics Data System (ADS)

    Nag, Sabyasachi; Garg, Arti; Ramakrishnan, T. V.

    2016-06-01

    We analyze the nature of the single-particle states, away from the Dirac point in the presence of long-range charge impurities in a tight-binding model for electrons on a two-dimensional honeycomb lattice which is of direct relevance for graphene. For a disorder potential V (r ⃗) =V0exp(-| r ⃗-r⃗imp|2/ξ2) , we demonstrate that not only the Dirac state but all the single-particle states remain extended for weak-enough disorder. Based on our numerical calculations of inverse participation ratio, dc conductivity, diffusion coefficient, and the localization length from time evolution dynamics of the wave packet, we show that the threshold Vth required to localize a single-particle state of energy E (k ⃗) is minimum for the states near the band edge and is maximum for states near the band center, implying a mobility edge starting from the band edge for weak disorder and moving towards the band center as the disorder strength increases. This can be explained in terms of the low-energy Hamiltonian at any point k ⃗ which has the same nature as that at the Dirac point. From the nature of the eigenfunctions, it follows that a weak long-range impurity will cause weak antilocalization effects, which can be suppressed, giving localization if the strength of impurities is sufficiently large to cause intervalley scattering. The intervalley spacing 2 | k ⃗| increases as one moves in from the band edge towards the band center, which is reflected in the behavior of Vth and the mobility edge.

  18. Dirac single particle and plasmon excitations in topological insulators

    NASA Astrophysics Data System (ADS)

    Lupi, Stefano

    Topological Insulators (TIs), like Bi2Se3 and Bi2Te3, are one of the most intriguing issues at focus in Condensed Matter Physics. TIs exhibit a band gap in the bulk like ordinary insulators, but have intrinsic 2D conducting states on their edge and surface. This means that the topology, associated with the electronic wavefunctions of the system, changes discontinuously when passing from the bulk to the surface. The edge states arise from a strong spin-orbit coupling, and they are backscattering protected, i.e. not sensitive to disorder (except that coming from magnetic impurities). Such as graphene, TIs surface charge transport is carried out by Dirac fermions, with a very high surface carrier density (n >= 1013 cm-2) , compared to typical values on metal surfaces. Apart single particle excitations, Dirac fermions in TIs sustain exotic plasmonic (collective) modes whose properties of tunability and temperature dependence can be used for photonics applications at the nanoscale. Moreover, unlike plasmons in metals, Dirac plasmons in TIs are expected to be strongly affected by an external magnetic field B due to fact that the cyclotron frequency is comparable to the the plasmon frequency, in particular when plasmons are engineered in the terahertz region of the electromagnetic spectrum. In this talk, after a general review on the properties of Topological Insulators, I will discuss the terahertz linear response of Dirac plasmons in TIs and their behavior under a strong magnetic field up to 30 T. The appearance of strong non-linear optical effects, when the THz electric field reaches values on the order of 1 MV/cm, will be also discussed. In the second part of the talk, I will discuss the sub-ps dynamics of Dirac single-particle and collective excitations as measured by optical-pump THz-probe experiments. Both the steady state and time-resolved experiments provide a unifying picture of single particle and collective electronic excitations in Topological Insulators.

  19. Single-particle cryo-EM at crystallographic resolution

    PubMed Central

    Cheng, Yifan

    2015-01-01

    Until only a few years ago, single-particle electron cryo-microscopy (cryo-EM) was usually not the first choice for many structural biologists due to its limited resolution in the range of nanometer to subnanometer. Now, this method rivals X-ray crystallography in terms of resolution and can be used to determine atomic structures of macromolecules that are either refractory to crystallization or difficult to crystallize in specific functional states. In this review, I discuss the recent breakthroughs in both hardware and software that transformed cryo-microscopy, enabling understanding of complex biomolecules and their functions at atomic level. PMID:25910205

  20. Relativistic symmetries in nuclear single-particle spectra

    NASA Astrophysics Data System (ADS)

    Guo, Jian-You; Liang, Hao Zhao; Meng, Jie; Zhou, Shan-Gui

    Symmetry is a fundamental concept in quantum physics. The quasi-degeneracy between single-particle orbitals (n, l, j = l + 1/2) and (n -1, l + 2, j = l + 3/2) indicates a hidden symmetry in atomic nuclei, the so-called pseudospin symmetry. Since the pseudospin symmetry was recognized as a relativistic symmetry in 1990s, many special features, including the spin symmetry for anti-nucleons, and many new concepts have been introduced. In this Chapter, we will illustrate the schematic picture of spin and pseudospin symmetries, derive the basic formalism, highlight the recent progress from several different aspects, and discuss selected open issues in this topic.

  1. Influenza viral load and peramivir kinetics after single administration and proposal of regimens for peramivir administration against resistant variants.

    PubMed

    Sato, Masatoki; Ito, Masaki; Suzuki, Shigeo; Sakuma, Hiroko; Takeyama, Aya; Oda, Shinichi; Watanabe, Masahiro; Hashimoto, Koichi; Miyazaki, Kyohei; Kawasaki, Yukihiko; Hosoya, Mitsuaki

    2015-03-01

    We estimated the efficacy of the current single administration of peramivir on the basis of peramivir pharmacokinetics in the upper respiratory tract (URT) and determined the predictive peramivir concentration-time curve to assess its efficacy against viruses with decreased susceptibility to neuraminidase inhibitors. Serum, nasal swab, or aspiration samples were collected from 28 patients treated with 10 mg/kg body weight peramivir. The sequential influenza viral RNA load and susceptibility after peramivir administration were measured using a quantitative real-time reverse transcription-PCR and neuraminidase inhibition assay. The peramivir concentrations in the serum and URT after a single administration at 10 mg/kg were measured, and the predictive blood and URT peramivir concentration-time curves were determined to assess various administration regimens against resistant variants. The peramivir concentration decreased to <0.1% of the maximum concentration of drug in serum (Cmax) at 24 h after administration. Rapid elimination of peramivir from the URT by 48 h after administration may contribute to an increase in the influenza A viral load after day 3 but not to a decrease in the influenza B viral load, despite the absence of a decrease in the susceptibility to peramivir. A longer maintenance of a high level of peramivir in the URT is expected by divided administration rather than once-daily administration. When no clinical improvement is observed in patients with normal susceptibility influenza A and B, peramivir readministration should be considered. In severe cases caused by resistant variants, better inhibitory effectiveness and less frequent adverse events are expected by divided administration rather than once-daily administration with an increased dosage. PMID:25547357

  2. Influenza Viral Load and Peramivir Kinetics after Single Administration and Proposal of Regimens for Peramivir Administration against Resistant Variants

    PubMed Central

    Ito, Masaki; Suzuki, Shigeo; Sakuma, Hiroko; Takeyama, Aya; Oda, Shinichi; Watanabe, Masahiro; Hashimoto, Koichi; Miyazaki, Kyohei; Kawasaki, Yukihiko; Hosoya, Mitsuaki

    2014-01-01

    We estimated the efficacy of the current single administration of peramivir on the basis of peramivir pharmacokinetics in the upper respiratory tract (URT) and determined the predictive peramivir concentration-time curve to assess its efficacy against viruses with decreased susceptibility to neuraminidase inhibitors. Serum, nasal swab, or aspiration samples were collected from 28 patients treated with 10 mg/kg body weight peramivir. The sequential influenza viral RNA load and susceptibility after peramivir administration were measured using a quantitative real-time reverse transcription-PCR and neuraminidase inhibition assay. The peramivir concentrations in the serum and URT after a single administration at 10 mg/kg were measured, and the predictive blood and URT peramivir concentration-time curves were determined to assess various administration regimens against resistant variants. The peramivir concentration decreased to <0.1% of the maximum concentration of drug in serum (Cmax) at 24 h after administration. Rapid elimination of peramivir from the URT by 48 h after administration may contribute to an increase in the influenza A viral load after day 3 but not to a decrease in the influenza B viral load, despite the absence of a decrease in the susceptibility to peramivir. A longer maintenance of a high level of peramivir in the URT is expected by divided administration rather than once-daily administration. When no clinical improvement is observed in patients with normal susceptibility influenza A and B, peramivir readministration should be considered. In severe cases caused by resistant variants, better inhibitory effectiveness and less frequent adverse events are expected by divided administration rather than once-daily administration with an increased dosage. PMID:25547357

  3. Single Event Rates for Devices Sensitive to Particle Energy

    NASA Technical Reports Server (NTRS)

    Edmonds, L. D.; Scheick, L. Z.; Banker, M. W.

    2012-01-01

    Single event rates (SER) can include contributions from low-energy particles such that the linear energy transfer (LET) is not constant. Previous work found that the environmental description that is most relevant to the low-energy contribution to the rate is a "stopping rate per unit volume" even when the physical mechanisms for a single-event effect do not require an ion to stop in some device region. Stopping rate tables are presented for four heavy-ion environments that are commonly used to assess device suitability for space applications. A conservative rate estimate utilizing limited test data is derived, and the example of SEGR rate in a power MOSFET is presented.

  4. The linac coherent light source single particle imaging road map

    SciTech Connect

    Aquila, A.; Barty, A.; Bostedt, C.; Boutet, S.; Carini, G.; dePonte, D.; Drell, P.; Doniach, S.; Downing, K. H.; Earnest, T.; Elmlund, H.; Elser, V.; Gühr, M.; Hajdu, J.; Hastings, J.; Hau-Riege, S. P.; Huang, Z.; Lattman, E. E.; Maia, F. R.N.C.; Marchesini, S.; Ourmazd, A.; Pellegrini, C.; Schlichting, I.; Schroer, C.; Spence, J. C. H.; Vartanyants, I. A.; Wakatsuki, S.; Weis, W. I.; Williams, G. J.

    2015-07-01

    Intense femtosecond x-ray pulses from free-electron laser sources allow the imaging of individual particles in a single shot. Early experiments at the Linac Coherent Light Source (LCLS) have led to rapid progress in the field and, so far, coherent diffractive images have been recorded from biological specimens, aerosols, and quantum systems with a few-tens-of-nanometers resolution. In March 2014, LCLS held a workshop to discuss the scientific and technical challenges for reaching the ultimate goal of atomic resolution with single-shot coherent diffractive imaging. This paper summarizes the workshop findings and presents the roadmap toward reaching atomic resolution, 3D imaging at free-electron laser sources.

  5. The linac coherent light source single particle imaging road map

    DOE PAGESBeta

    Aquila, A.; Barty, A.; Bostedt, C.; Boutet, S.; Carini, G.; dePonte, D.; Drell, P.; Doniach, S.; Downing, K. H.; Earnest, T.; et al

    2015-07-01

    Intense femtosecond x-ray pulses from free-electron laser sources allow the imaging of individual particles in a single shot. Early experiments at the Linac Coherent Light Source (LCLS) have led to rapid progress in the field and, so far, coherent diffractive images have been recorded from biological specimens, aerosols, and quantum systems with a few-tens-of-nanometers resolution. In March 2014, LCLS held a workshop to discuss the scientific and technical challenges for reaching the ultimate goal of atomic resolution with single-shot coherent diffractive imaging. This paper summarizes the workshop findings and presents the roadmap toward reaching atomic resolution, 3D imaging at free-electronmore » laser sources.« less

  6. The linac coherent light source single particle imaging road map.

    PubMed

    Aquila, A; Barty, A; Bostedt, C; Boutet, S; Carini, G; dePonte, D; Drell, P; Doniach, S; Downing, K H; Earnest, T; Elmlund, H; Elser, V; Gühr, M; Hajdu, J; Hastings, J; Hau-Riege, S P; Huang, Z; Lattman, E E; Maia, F R N C; Marchesini, S; Ourmazd, A; Pellegrini, C; Santra, R; Schlichting, I; Schroer, C; Spence, J C H; Vartanyants, I A; Wakatsuki, S; Weis, W I; Williams, G J

    2015-07-01

    Intense femtosecond x-ray pulses from free-electron laser sources allow the imaging of individual particles in a single shot. Early experiments at the Linac Coherent Light Source (LCLS) have led to rapid progress in the field and, so far, coherent diffractive images have been recorded from biological specimens, aerosols, and quantum systems with a few-tens-of-nanometers resolution. In March 2014, LCLS held a workshop to discuss the scientific and technical challenges for reaching the ultimate goal of atomic resolution with single-shot coherent diffractive imaging. This paper summarizes the workshop findings and presents the roadmap toward reaching atomic resolution, 3D imaging at free-electron laser sources. PMID:26798801

  7. Towards single particle imaging of human chromosomes at SACLA

    NASA Astrophysics Data System (ADS)

    Robinson, Ian; Schwenke, Joerg; Yusuf, Mohammed; Estandarte, Ana; Zhang, Fucai; Chen, Bo; Clark, Jesse; Song, Changyong; Nam, Daewoong; Joti, Yasumasa; Tono, Kensuke; Yabashi, Makina; Ratnasari, Gina; Kaneyoshi, Kohei; Takata, Hideaki; Fukui, Kiichi

    2015-12-01

    Single particle imaging (SPI) is one of the front-page opportunities which were used to motivate the construction of the first x-ray free electron lasers (XFELs). SPI’s big advantage is that it avoids radiation damage to biological samples because the diffraction takes place in femtosecond single shots before any atomic motion can take place in the sample, hence before the onset of radiation damage. This is the ‘diffract before destruction’ theme, destruction being assured from the high x-ray doses used. This article reports our collaboration’s first attempt at SPI using the SACLA XFEL facility in June 2015. The report is limited to experience with the instrumentation and examples of data because we have not yet had time to invert them to images.

  8. The linac coherent light source single particle imaging road map

    PubMed Central

    Aquila, A.; Barty, A.; Bostedt, C.; Boutet, S.; Carini, G.; dePonte, D.; Drell, P.; Doniach, S.; Downing, K. H.; Earnest, T.; Elmlund, H.; Elser, V.; Gühr, M.; Hajdu, J.; Hastings, J.; Hau-Riege, S. P.; Huang, Z.; Lattman, E. E.; Maia, F. R. N. C.; Marchesini, S.; Ourmazd, A.; Pellegrini, C.; Santra, R.; Schlichting, I.; Schroer, C.; Spence, J. C. H.; Vartanyants, I. A.; Wakatsuki, S.; Weis, W. I.; Williams, G. J.

    2015-01-01

    Intense femtosecond x-ray pulses from free-electron laser sources allow the imaging of individual particles in a single shot. Early experiments at the Linac Coherent Light Source (LCLS) have led to rapid progress in the field and, so far, coherent diffractive images have been recorded from biological specimens, aerosols, and quantum systems with a few-tens-of-nanometers resolution. In March 2014, LCLS held a workshop to discuss the scientific and technical challenges for reaching the ultimate goal of atomic resolution with single-shot coherent diffractive imaging. This paper summarizes the workshop findings and presents the roadmap toward reaching atomic resolution, 3D imaging at free-electron laser sources. PMID:26798801

  9. Binding of Norwalk virus viral-like particles to veins of romaine lettuce

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Noroviruses (NoV) annually cause millions of cases of gastrointestinal disease in the United States. NoV are associated with raw shellfish outbreaks, particularly oysters, which are thought to bioaccumulate NoV particles during the filter feeding process. NoV outbreaks, however, have been known to o...

  10. Understanding particle size and distance driven competition of interparticle interactions and effective single-particle anisotropy

    NASA Astrophysics Data System (ADS)

    Pacakova, B.; Mantlikova, A.; Niznansky, D.; Kubickova, S.; Vejpravova, J.

    2016-05-01

    Magnetic response of single-domain nanoparticles (NPs) in concentrated systems is strongly affected by mutual interparticle interactions. However, particle proximity significantly influences single-particle effective anisotropy. To solve which of these two phenomena plays a dominant role in the magnetic response of real NP systems, systematic study on samples with well-defined parameters is required. In our work, we prepared a series of nanocomposites constituted of highly-crystalline and well-isolated CoFe2O4 NPs embedded in an amorphous SiO2 matrix using a single-molecule precursor method. This preparation method enabled us to reach a wide interval of particle size and concentration. We observed that the characteristic parameters of the single-domain state (coercivity, blocking temperature) and dipole–dipole interaction energy ({{E}\\text{d-\\text{d}}} ) scaled with each other and increased with increasing {{≤ft({{d}\\text{XRD}}/r\\right)}3} , where d XRD was the NP diameter and r was the interparticle distance. Our results are in excellent agreement with Monte-Carlo simulations of the particle growth. Moreover, we demonstrated that the contribution of {{E}\\text{d-\\text{d}}} acting as an additional energetic barrier to the superspin reversal or as an average static field did not sufficiently explain how the concentrated NP systems responded to an external magnetic field. Alternations in the blocking temperature and coercivity of our NP systems accounted for reformed relaxations of the NP superspins and modified effective anisotropy energy of the interacting NPs. Therefore, the concept of modified NP effective anisotropy explains the magnetic response of our concentrated NP systems better than the concept of the energy barrier influenced by interparticle interactions.

  11. Understanding particle size and distance driven competition of interparticle interactions and effective single-particle anisotropy.

    PubMed

    Pacakova, B; Mantlikova, A; Niznansky, D; Kubickova, S; Vejpravova, J

    2016-05-25

    Magnetic response of single-domain nanoparticles (NPs) in concentrated systems is strongly affected by mutual interparticle interactions. However, particle proximity significantly influences single-particle effective anisotropy. To solve which of these two phenomena plays a dominant role in the magnetic response of real NP systems, systematic study on samples with well-defined parameters is required. In our work, we prepared a series of nanocomposites constituted of highly-crystalline and well-isolated CoFe2O4 NPs embedded in an amorphous SiO2 matrix using a single-molecule precursor method. This preparation method enabled us to reach a wide interval of particle size and concentration. We observed that the characteristic parameters of the single-domain state (coercivity, blocking temperature) and dipole-dipole interaction energy ([Formula: see text]) scaled with each other and increased with increasing [Formula: see text], where d XRD was the NP diameter and r was the interparticle distance. Our results are in excellent agreement with Monte-Carlo simulations of the particle growth. Moreover, we demonstrated that the contribution of [Formula: see text] acting as an additional energetic barrier to the superspin reversal or as an average static field did not sufficiently explain how the concentrated NP systems responded to an external magnetic field. Alternations in the blocking temperature and coercivity of our NP systems accounted for reformed relaxations of the NP superspins and modified effective anisotropy energy of the interacting NPs. Therefore, the concept of modified NP effective anisotropy explains the magnetic response of our concentrated NP systems better than the concept of the energy barrier influenced by interparticle interactions. PMID:27122013

  12. Chikungunya virus fusion properties elucidated by single-particle and bulk approaches.

    PubMed

    van Duijl-Richter, Mareike K S; Blijleven, Jelle S; van Oijen, Antoine M; Smit, Jolanda M

    2015-08-01

    Chikungunya virus (CHIKV) is a rapidly spreading, enveloped alphavirus causing fever, rash and debilitating polyarthritis. No specific treatment or vaccines are available to treat or prevent infection. For the rational design of vaccines and antiviral drugs, it is imperative to understand the molecular mechanisms involved in CHIKV infection. A critical step in the life cycle of CHIKV is fusion of the viral membrane with a host cell membrane. Here, we elucidate this process using ensemble-averaging liposome-virus fusion studies, in which the fusion behaviour of a large virus population is measured, and a newly developed microscopy-based single-particle assay, in which the fusion kinetics of an individual particle can be visualised. The combination of these approaches allowed us to obtain detailed insight into the kinetics, lipid dependency and pH dependency of hemifusion. We found that CHIKV fusion is strictly dependent on low pH, with a threshold of pH 6.2 and optimal fusion efficiency below pH 5.6. At this pH, CHIKV fuses rapidly with target membranes, with typically half of the fusion occurring within 2 s after acidification. Cholesterol and sphingomyelin in the target membrane were found to strongly enhance the fusion process. By analysing our single-particle data using kinetic models, we were able to deduce that the number of rate-limiting steps occurring before hemifusion equals about three. To explain these data, we propose a mechanistic model in which multiple E1 fusion trimers are involved in initiating the fusion process. PMID:25872739

  13. Quantitative comparison of algorithms for tracking single fluorescent particles.

    PubMed

    Cheezum, M K; Walker, W F; Guilford, W H

    2001-10-01

    Single particle tracking has seen numerous applications in biophysics, ranging from the diffusion of proteins in cell membranes to the movement of molecular motors. A plethora of computer algorithms have been developed to monitor the sub-pixel displacement of fluorescent objects between successive video frames, and some have been claimed to have "nanometer" resolution. To date, there has been no rigorous comparison of these algorithms under realistic conditions. In this paper, we quantitatively compare specific implementations of four commonly used tracking algorithms: cross-correlation, sum-absolute difference, centroid, and direct Gaussian fit. Images of fluorescent objects ranging in size from point sources to 5 microm were computer generated with known sub-pixel displacements. Realistic noise was added and the above four algorithms were compared for accuracy and precision. We found that cross-correlation is the most accurate algorithm for large particles. However, for point sources, direct Gaussian fit to the intensity distribution is the superior algorithm in terms of both accuracy and precision, and is the most robust at low signal-to-noise. Most significantly, all four algorithms fail as the signal-to-noise ratio approaches 4. We judge direct Gaussian fit to be the best algorithm when tracking single fluorophores, where the signal-to-noise is frequently near 4. PMID:11566807

  14. Global phase diagram and single particle excitations in Kondo insulators

    NASA Astrophysics Data System (ADS)

    Si, Qimiao; Pixley, Jedediah; Yu, Rong; Paschen, Silke

    Motivated by quantum criticality in Kondo insulators tuned by pressure or doping we study the effects of magnetic frustration and the properties of the single particle excitations in a Kondo lattice model. Focusing on the Kondo insulating limit we study the Shastry-Sutherland Kondo lattice and determine the zero temperature phase diagram, which incorporates a valence bond solid, antiferromagnet, and Kondo insulating ground states, with metal-to-insulator quantum phase transitions. We argue that this phase diagram is generic and represents a ``global'' phase diagram of Kondo insulators in terms of quantum fluctuations and the Kondo interaction. We then focus on the momentum distribution of single particle excitations within the Kondo insulating ground state. We show how features of the Fermi-surface of the underlying conduction electrons appear in the Kondo insulating phase. Lastly, we discuss the implications of our results for quantum criticality in Kondo insulators as well as for the recent de Haas-von Alphen measurements in the Kondo insulator SmB6.

  15. Optimal estimation of diffusion coefficients from single-particle trajectories

    NASA Astrophysics Data System (ADS)

    Vestergaard, Christian L.; Blainey, Paul C.; Flyvbjerg, Henrik

    2014-02-01

    How does one optimally determine the diffusion coefficient of a diffusing particle from a single-time-lapse recorded trajectory of the particle? We answer this question with an explicit, unbiased, and practically optimal covariance-based estimator (CVE). This estimator is regression-free and is far superior to commonly used methods based on measured mean squared displacements. In experimentally relevant parameter ranges, it also outperforms the analytically intractable and computationally more demanding maximum likelihood estimator (MLE). For the case of diffusion on a flexible and fluctuating substrate, the CVE is biased by substrate motion. However, given some long time series and a substrate under some tension, an extended MLE can separate particle diffusion on the substrate from substrate motion in the laboratory frame. This provides benchmarks that allow removal of bias caused by substrate fluctuations in CVE. The resulting unbiased CVE is optimal also for short time series on a fluctuating substrate. We have applied our estimators to human 8-oxoguanine DNA glycolase proteins diffusing on flow-stretched DNA, a fluctuating substrate, and found that diffusion coefficients are severely overestimated if substrate fluctuations are not accounted for.

  16. Enrichment of Mineral Dust Storm Particles with Sea Salt Elements - Using bulk and Single Particle Analyses

    NASA Astrophysics Data System (ADS)

    Mamane, Y.; Perrino, C.; Yossef, O.

    2009-12-01

    Mineral aerosol emitted from African and Asian deserts plays an important role in the atmosphere. During their long-range transport, the physical and chemical properties of mineral dust particles change due to heterogeneous reactions with trace gases, coagulation with other particles, and in-cloud processing. These processes affect the optical and hygroscopic properties of dust particles, and in general influencing the physics and chemistry of the atmosphere. Four African and Arabian dust storm episodes affecting the East Mediterranean Coast in the spring of 2006 have been characterized, to determine if atmospheric natural dust particles are enriched with sea salt and anthropogenic pollution. Particle samplers included PM10 and manual dichotomous sampler that collected fine and coarse particles. Three sets of filters were used: Teflon filters for gravimetric, elemental and ionic analyses; Pre-fired Quartz-fiber filters for elemental and organic carbon; and Nuclepore filters for scanning electron microscopy analysis. Computer-controlled scanning electron microscopy (Philips XL 30 ESEM) was used to analyze single particle, for morphology, size and chemistry of selected filter samples. A detailed chemical and microscopical characterization has been performed for the particles collected during dust event days and during clear days. The Saharan and Arabian air masses increased significantly the daily mass concentrations of the coarse and the fine particle fractions. Carbonates, mostly as soil calcites mixed with dolomites, and silicates are the major components of the coarse fraction, followed by sea salt particles. In addition, the levels of anthropogenic heavy metals and sea salt elements registered during the dust episode were considerably higher than levels recorded during clear days. Sea salt elements contain Na and Cl, and smaller amounts of Mg, K, S and Br. Cl ranges from 300 to 5500 ng/m3 and Na from 100 to almost 2400 ng/m3. The Cl to Na ratio on dusty days in

  17. Dynamics of Single Chains of Suspended Ferrofluid Particles

    NASA Technical Reports Server (NTRS)

    Cutillas, S.; Liu, J.

    1999-01-01

    We present an experimental study of the dynamics of isolated chains made of super-paramagnetic particles under the influence of a magnetic field. The motivation of this work is to understand if the chain fluctuations exist and, if it does, how does the fluctuation affect chain aggregation. We find that single chains strongly fluctuate and that the characteristic frequency of their fluctuations is inversely proportional to the magnetic field strength. The higher the field the lower the characteristic frequency of the chain fluctuations. In the high magnetic field limit, chains behave like rigid rods without any internal motions. In this work, we used ferrofluid particles suspended in water. These particles do not have any intrinsic magnetization. Once a magnetic field is applied, a dipole moment is induced in each particle, proportional to the magnetic field. A dipolar magnetic interaction then occurs between particles. If dipole-dipole magnetic energy is higher than the thermal energy, the result is a structure change inside the dipolar fluid. The ratio of these two energies is expressed by a coupling constant lambda as: lambda = (pi(a(exp 3))(chi(exp 2))(mu(sub 0))(H(sub 0))(exp 2))/18kT Where a is the particle radius, mu(sub 0) is the vacuum magnetic permeability, H(sub 0) the applied magnetic field, k the Boltzmann constant and T the absolute temperature. If lambda > 1, magnetic particles form chains along the field direction. The lateral coalescence of several chains may form bigger aggregates especially if the particle volume fraction is high. While many studies and applications deal with the rheological properties and the structural changes of these dipolar fluids, this work focuses on the understanding of the chain dynamics. In order to probe the chain dynamics, we used dynamic light scattering (DLS) in self-beating mode as our experimental technique. The experimental geometry is such that the scattering plane is perpendicular to the magnetic field

  18. Three-dimensional single-particle tracking in live cells: news from the third dimension

    NASA Astrophysics Data System (ADS)

    Dupont, A.; Gorelashvili, M.; Schüller, V.; Wehnekamp, F.; Arcizet, D.; Katayama, Y.; Lamb, D. C.; Heinrich, D.

    2013-07-01

    Single-particle tracking (SPT) is of growing importance in the biophysical community. It is used to investigate processes such as drug and gene delivery, viral uptake, intracellular trafficking or membrane-bound protein mobility. Traditionally, SPT is performed in two dimensions (2D) because of its technical simplicity. However, life occurs in three dimensions (3D) and many methods have been recently developed to track particles in 3D. Now, is the third dimension worth the effort? Here we investigate the differences between the 2D and 3D analyses of intracellular transport with the 3D development of a time-resolved mean square displacement (MSD) analysis introduced previously. The 3D trajectories, and the 2D projections, of fluorescent nanoparticles were obtained with an orbital tracking microscope in two different cell types: in Dictyostelium discoideum ameba and in adherent, more flattened HuH-7 human cells. As expected from the different 3D organization of both cells’ cytoskeletons, a third of the active transport was lost upon projection in the ameba whereas the identification of the active phases was barely affected in the HuH-7 cells. In both cell types, we found intracellular diffusion to be anisotropic and the diffusion coefficient values derived from the 2D analysis were therefore biased.

  19. The ESyS_Particle: A New 3-D Discrete Element Model with Single Particle Rotation

    NASA Astrophysics Data System (ADS)

    Wang, Yucang; Mora, Peter

    In this paper, the Discrete Element Model (DEM) is reviewed, and the ESyS_Particle, our new version of DEM, is introduced. We particularly highlight some of the major physical concerns about DEMs and major differences between our model and most current DEMs. In the new model, single particle rotation is introduced and represented by a unit quaternion. For each 3-D particle, six degrees of freedom are employed: three for translational motion, and three for orientation. Six kinds of relative motions are permitted between two neighboring particles, and six interactions are transferred, i.e., radial, two shearing forces, twisting and two bending torques. The relative rotation between two particles is decomposed into two sequence-independent rotations such that all interactions due to the relative motions between interactive rigid bodies can be uniquely determined. This algorithm can give more accurate results because physical principles are obeyed. A theoretical analysis about how to choose the model parameters is presented. Several numerical tests have been carried out, the results indicate that most laboratory tests can be well reproduced using our model.

  20. N-Terminally Myristoylated Feline Foamy Virus Gag Allows Env-Independent Budding of Sub-Viral Particles

    PubMed Central

    Liu, Yang; Kim, Yong-Boum; Löchelt, Martin

    2011-01-01

    Foamy viruses (FVs) are distinct retroviruses classified as Spumaretrovirinae in contrast to the other retroviruses, the Orthoretrovirinae. As a unique feature of FVs, Gag is not sufficient for sub-viral particle (SVP) release. In primate and feline FVs (PFV and FFV), particle budding completely depends on the cognate FV Env glycoproteins. It was recently shown that an artificially added N-terminal Gag myristoylation signal (myr-signal) overcomes this restriction in PFV inducing an Orthoretrovirus-like budding phenotype. Here we show that engineered, heterologous N-terminal myr-signals also induce budding of the distantly related FFV Gag. The budding efficiency depends on the myr-signal and its location relative to the N-terminus of Gag. When the first nine amino acid residues of FFV Gag were replaced by known myr-signals, the budding efficiency as determined by the detection of extracellular SVPs was low. In contrast, adding myr-signals to the intact N-terminus of FFV Gag resulted in a more efficient SVP release. Importantly, budding of myr-Gag proteins was sensitive towards inhibition of cellular N-myristoyltransferases. As expected, the addition or insertion of myr-signals that allowed Env-independent budding of FFV SVPs also retargeted Gag to plasma membrane-proximal sites and other intracellular membrane compartments. The data confirm that membrane-targeted FV Gag has the capacity of SVP formation. PMID:22163342

  1. N-terminally myristoylated feline foamy virus Gag allows Env-independent budding of sub-viral particles.

    PubMed

    Liu, Yang; Kim, Yong-Boum; Löchelt, Martin

    2011-11-01

    Foamy viruses (FVs) are distinct retroviruses classified as Spumaretrovirinae in contrast to the other retroviruses, the Orthoretrovirinae. As a unique feature of FVs, Gag is not sufficient for sub-viral particle (SVP) release. In primate and feline FVs (PFV and FFV), particle budding completely depends on the cognate FV Env glycoproteins. It was recently shown that an artificially added N-terminal Gag myristoylation signal (myr-signal) overcomes this restriction in PFV inducing an Orthoretrovirus-like budding phenotype. Here we show that engineered, heterologous N-terminal myr-signals also induce budding of the distantly related FFV Gag. The budding efficiency depends on the myr-signal and its location relative to the N-terminus of Gag. When the first nine amino acid residues of FFV Gag were replaced by known myr-signals, the budding efficiency as determined by the detection of extracellular SVPs was low. In contrast, adding myr-signals to the intact N-terminus of FFV Gag resulted in a more efficient SVP release. Importantly, budding of myr-Gag proteins was sensitive towards inhibition of cellular N-myristoyltransferases. As expected, the addition or insertion of myr-signals that allowed Env-independent budding of FFV SVPs also retargeted Gag to plasma membrane-proximal sites and other intracellular membrane compartments. The data confirm that membrane-targeted FV Gag has the capacity of SVP formation. PMID:22163342

  2. Dynamics of Single Chains of Suspended Ferrofluid Particles

    NASA Technical Reports Server (NTRS)

    Cutillas, S.; Liu, J.

    1999-01-01

    We present an experimental study of the dynamics of isolated chains made of super-paramagnetic particles under the influence of a magnetic field. The motivation of this work is to understand if the chain fluctuations exist and, if it does, how does the fluctuation affect chain aggregation. We find that single chains strongly fluctuate and that the characteristic frequency of their fluctuations is inversely proportional to the magnetic field strength. The higher the field the lower the characteristic frequency of the chain fluctuations. In the high magnetic field limit, chains behave like rigid rods without any internal motions. In this work, we used ferrofluid particles suspended in water. These particles do not have any intrinsic magnetization. Once a magnetic field is applied, a dipole moment is induced in each particle, proportional to the magnetic field. A dipolar magnetic interaction then occurs between particles. If dipole-dipole magnetic energy is higher than the thermal energy, the result is a structure change inside the dipolar fluid. The ratio of these two energies is expressed by a coupling constant lambda as: lambda = (pi(a(exp 3))(chi(exp 2))(mu(sub 0))(H(sub 0))(exp 2))/18kT Where a is the particle radius, mu(sub 0) is the vacuum magnetic permeability, H(sub 0) the applied magnetic field, k the Boltzmann constant and T the absolute temperature. If lambda > 1, magnetic particles form chains along the field direction. The lateral coalescence of several chains may form bigger aggregates especially if the particle volume fraction is high. While many studies and applications deal with the rheological properties and the structural changes of these dipolar fluids, this work focuses on the understanding of the chain dynamics. In order to probe the chain dynamics, we used dynamic light scattering (DLS) in self-beating mode as our experimental technique. The experimental geometry is such that the scattering plane is perpendicular to the magnetic field

  3. Radial inhomogeneities in particle composition of single, levitated aerosol particles observed by Mie resonance spectroscopy (Invited)

    NASA Astrophysics Data System (ADS)

    Krieger, U. K.; Steimer, S.; Lienhard, D.; Bastelberger, S.

    2013-12-01

    Recent observations have indicated that organic aerosol particles in the atmosphere may exist in an amorphous semi-solid or even solid (i.e. glassy) state, e.g. [1]. The influence of highly viscous and glassy states on the timescale of aerosol particle equilibration with respect to water vapor have been investigated for some model systems of atmospheric aerosol, e.g. [2,3]. In particular, it has been shown that the kinetics of the water absorption/desorption process is controlled entirely by liquid-phase diffusion of water molecules for a highly viscous aerosol particle. A liquid phase diffusion model based on numerically solving the non-linear diffusion equation predicts strong internal gradients in water concentration when condensed phase diffusion impedes the water uptake from the gas phase [2]. Here we observe and quantify the internal concentration gradients in single, levitated, micron size aerosol particles of aqueous MBTCA (3-methyl-1,2,3-Butanetricarboxylic acid) and shikimic acid using elastic Mie resonance spectroscopy. A single, aqueous particle is levitated in an electro-dynamic balance (for details see [2]), dried for several days at room temperature, cooled to the target temperature and exposed to a rapid change in relative humidity. In addition to measuring the elastically backscattered light of a 'white light ' LED source and recording the full spectrum with a spectrograph as in [2], we use a tunable diode laser (TDL) to scan high resolution TE- and TM spectra. This combination allows observing various Mie resonance mode orders simultaneously. Since we perform the experiment at low temperatures and low humidities the changes in the Mie-spectra due to water uptake are sufficiently slow to resolve the kinetics. Experimental Mie resonance spectra are inverted to concentration profiles of water within the particle by applying the numerical diffusion model [2] in conjunction with Mie calculations of multilayered spheres [4]. Potential implications for

  4. Particle migration analysis in iterative classification of cryo-EM single-particle data

    PubMed Central

    Chen, Bo; Shen, Bingxin; Frank, Joachim

    2014-01-01

    Recently developed classification methods have enabled resolving multiple biological structures from cryo-EM data collected on heterogeneous biological samples. However, there remains the problem of how to base the decisions in the classification on the statistics of the cryo-EM data, to reduce the subjectivity in the process. Here, we propose a quantitative analysis to determine the iteration of convergence and the number of distinguishable classes, based on the statistics of the single particles in an iterative classification scheme. We start the classification with more number of classes than anticipated based on prior knowledge, and then combine the classes that yield similar reconstructions. The classes yielding similar reconstructions can be identified from the migrating particles (jumpers) during consecutive iterations after the iteration of convergence. We therefore termed the method “jumper analysis”, and applied it to the output of RELION 3D classification of a benchmark experimental dataset. This work is a step forward toward fully automated single-particle reconstruction and classification of cryo-EM data. PMID:25449317

  5. Tracking of single fluorescent particles in three dimensions: use of cylindrical optics to encode particle position.

    PubMed

    Kao, H P; Verkman, A S

    1994-09-01

    We present a novel optical technique for three-dimensional tracking of single fluorescent particles using a modified epifluorescence microscope containing a weak cylindrical lens in the detection optics and a microstepper-controlled fine focus. Images of small, fluorescent particles were circular in focus but ellipsoidal above and below focus; the major axis of the ellipsoid shifted by 90 degrees in going through focus. Particle z position was determined from the image shape and orientation by applying a peak detection algorithm to image projections along the x and y axes; x, y position was determined from the centroid of the particle image. Typical spatial resolution was 12 nm along the optical axis and 5 nm in the image plane with a maximum sampling rate of 3-4 Hz. The method was applied to track fluorescent particles in artificial solutions and living cells. In a solution of viscosity 30 cP, the mean squared distance (MSD) traveled by a 264 nm diameter rhodamine-labeled bead was linear with time to 20 s. The measured diffusion coefficient, 0.0558 +/- 0.001 micron2/s (SE, n = 4), agreed with the theoretical value of 0.0556 micron2/s. Statistical variability of MSD curves for a freely diffusing bead was in quantitative agreement with Monte Carlo simulations of three-dimensional random walks. In a porous glass matrix, the MSD data was curvilinear and showed reduced bead diffusion. In cytoplasm of Swiss 3T3 fibroblasts, bead diffusion was restricted. The water permeability in individual Chinese Hamster Ovary cells was measured from the z movement of a fluorescent bead fixed at the cell surface in response osmotic gradients; water permeability was increased by > threefold in cells expressing CHIP28 water channels. The simplicity and precision of this tracking method may be useful to quantify the complex trajectories of fluorescent particles in living cells. PMID:7811944

  6. Kinetically coupled folding of a single HIV-1 glycoprotein 41 complex in viral membrane fusion and inhibition

    PubMed Central

    Jiao, Junyi; Rebane, Aleksander A.; Ma, Lu; Gao, Ying; Zhang, Yongli

    2015-01-01

    HIV-1 glycoprotein 41 (gp41) mediates viral entry into host cells by coupling its folding energy to membrane fusion. Gp41 folding is blocked by fusion inhibitors, including the commercial drug T20, to treat HIV/AIDS. However, gp41 folding intermediates, energy, and kinetics are poorly understood. Here, we identified the folding intermediates of a single gp41 trimer-of-hairpins and measured their associated energy and kinetics using high-resolution optical tweezers. We found that folding of gp41 hairpins was energetically independent but kinetically coupled: Each hairpin contributed a folding energy of ∼−23 kBT, but folding of one hairpin successively accelerated the folding rate of the next one by ∼20-fold. Membrane-mimicking micelles slowed down gp41 folding and reduced the stability of the six-helix bundle. However, the stability was restored by cooperative folding of the membrane-proximal external region. Surprisingly, T20 strongly inhibited gp41 folding by actively displacing the C-terminal hairpin strand in a force-dependent manner. The inhibition was abolished by a T20-resistant gp41 mutation. The energetics and kinetics of gp41 folding established by us provides a basis to understand viral membrane fusion, infection, and therapeutic intervention. PMID:26038562

  7. Simultaneous detection of five notifiable viral diseases of cattle by single-tube multiplex real-time RT-PCR.

    PubMed

    Wernike, Kerstin; Hoffmann, Bernd; Beer, Martin

    2015-06-01

    Multiplexed real-time PCR (qPCR) assays enable the detection of several target genes in a single reaction, which is applicable for simultaneous testing for the most important viral diseases in samples obtained from ruminants with unspecific clinical symptoms. Here, reverse transcription qPCR (RT-qPCR) systems for the detection of bovine viral diarrhoea virus (BVDV) and bluetongue virus (BTV) were combined with an internal control system based on the beta-actin gene. Additionally, a background screening for three further major pathogens of cloven-hoofed animals reportable to the World Organisation for Animal Health, namely foot-and-mouth disease virus, epizootic haemorrhagic disease virus, and Rift Valley fever virus, was integrated using the identical fluorophore for the respective RT-qPCR assays. Every pathogen-specific assay had an analytical sensitivity of at least 100 genome copies per reaction within the multiplex approach, and a series of reference samples and clinical specimens obtained from cattle, but also from small ruminants, were detected reliably. The qPCR systems integrated in the background screening were even not influenced by the simultaneous amplification of very high BVDV and BTV genome copy numbers. The newly developed multiplex qPCR allows the specific and sensitive detection of five of the most important diseases of ruminants and could be used in the context of monitoring programs or for differential diagnostics. PMID:25746154

  8. Inhomogeneities in particle composition of single, levitated aerosol particles observed by Mie resonance spectroscopy

    NASA Astrophysics Data System (ADS)

    Krieger, Ulrich; Lienhard, Daniel; Bastelberger, Sandra; Steimer, Sarah

    2014-05-01

    Recent observations have indicated that organic aerosol particles in the atmosphere may exist in an amorphous semi-solid or even solid (i.e. glassy) state, e.g. [1]. The influence of highly viscous and glassy states on the timescale of aerosol particle equilibration with respect to water vapor have been investigated for some model systems of atmospheric aerosol, e.g. [2,3]. In particular, it has been shown that the kinetics of the water absorption/desorption process is controlled entirely by liquid-phase diffusion of water molecules for a highly viscous aerosol particle. A liquid phase diffusion model based on numerically solving the non-linear diffusion equation predicts strong internal gradients in water concentration when condensed phase diffusion impedes the water uptake from the gas phase [2]. Here we observe and quantify the internal concentration gradients in single, levitated, micron size aerosol particles of aqueous shikimic acid using elastic Mie resonance spectroscopy. A single, aqueous particle is levitated in an electro-dynamic balance (for details see [2]), dried for several days at room temperature, cooled to the target temperature and exposed to a rapid change in relative humidity. In addition to measuring the elastically backscattered light of a "white light" LED source and recording the full spectrum with a spectrograph as in [2], we use a tunable diode laser (TDL) to scan high resolution TE- and TM spectra. This combination allows observing various Mie resonance mode orders simultaneously. Since we perform the experiment at low temperatures and low humidities the changes in the Mie-spectra due to water uptake are sufficiently slow to resolve the kinetics. Experimental Mie resonance spectra are inverted to concentration profiles of water within the particle by applying the numerical diffusion model [2] in conjunction with Mie calculations of multilayered spheres [4]. [1] A. Virtanen et al. (2010): An amorphous solid state of biogenic secondary

  9. Accelerated Detection of Viral Particles by Combining AC Electric Field Effects and Micro-Raman Spectroscopy

    PubMed Central

    Tomkins, Matthew Robert; Liao, David Shiqi; Docoslis, Aristides

    2015-01-01

    A detection method that combines electric field-assisted virus capture on antibody-decorated surfaces with the “fingerprinting” capabilities of micro-Raman spectroscopy is demonstrated for the case of M13 virus in water. The proof-of-principle surface mapping of model bioparticles (protein coated polystyrene spheres) captured by an AC electric field between planar microelectrodes is presented with a methodology for analyzing the resulting spectra by comparing relative peak intensities. The same principle is applied to dielectrophoretically captured M13 phage particles whose presence is indirectly confirmed with micro-Raman spectroscopy using NeutrAvidin-Cy3 as a labeling molecule. It is concluded that the combination of electrokinetically driven virus sampling and micro-Raman based signal transduction provides a promising approach for time-efficient and in situ detection of viruses. PMID:25580902

  10. Information storage and retrieval in a single levitating colloidal particle.

    PubMed

    Myers, Christopher J; Celebrano, Michele; Krishnan, Madhavi

    2015-10-01

    The binary switch is a basic component of digital information. From phase-change alloys to nanomechanical beams, molecules and atoms, new strategies for controlled bistability hold great interest for emerging technologies. We present a generic methodology for precise and parallel spatiotemporal control of nanometre-scale matter in a fluid, and demonstrate the ability to attain digital functionalities such as switching, gating and data storage in a single colloid, with further implications for signal amplification and logic operations. This fluid-phase bit can be arrayed at high densities, manipulated by either electrical or optical fields, supports low-energy, high-speed operation and marks a first step toward 'colloidal information'. The principle generalizes to any system where spatial perturbation of a particle elicits a differential response amenable to readout. PMID:26280408

  11. Information storage and retrieval in a single levitating colloidal particle

    NASA Astrophysics Data System (ADS)

    Myers, Christopher J.; Celebrano, Michele; Krishnan, Madhavi

    2015-10-01

    The binary switch is a basic component of digital information. From phase-change alloys to nanomechanical beams, molecules and atoms, new strategies for controlled bistability hold great interest for emerging technologies. We present a generic methodology for precise and parallel spatiotemporal control of nanometre-scale matter in a fluid, and demonstrate the ability to attain digital functionalities such as switching, gating and data storage in a single colloid, with further implications for signal amplification and logic operations. This fluid-phase bit can be arrayed at high densities, manipulated by either electrical or optical fields, supports low-energy, high-speed operation and marks a first step toward ‘colloidal information’. The principle generalizes to any system where spatial perturbation of a particle elicits a differential response amenable to readout.

  12. Membrane protein structures without crystals, by single particle electron cryomicroscopy

    PubMed Central

    Vinothkumar, Kutti R

    2015-01-01

    It is an exciting period in membrane protein structural biology with a number of medically important protein structures determined at a rapid pace. However, two major hurdles still remain in the structural biology of membrane proteins. One is the inability to obtain large amounts of protein for crystallization and the other is the failure to get well-diffracting crystals. With single particle electron cryomicroscopy, both these problems can be overcome and high-resolution structures of membrane proteins and other labile protein complexes can be obtained with very little protein and without the need for crystals. In this review, I highlight recent advances in electron microscopy, detectors and software, which have allowed determination of medium to high-resolution structures of membrane proteins and complexes that have been difficult to study by other structural biological techniques. PMID:26435463

  13. Single Particle Jumps in Sheared SiO2

    NASA Astrophysics Data System (ADS)

    McMahon, Sean; Vollmayr-Lee, Katharina; Cookmeyer, Jonathan; Horbach, Juergen

    We study the dynamics of a sheared glass via molecular dynamics simulations. Using the BKS potential we simulate the strong glass former SiO2. The system is initially well equilibrated at a high temperature, then quenched to a temperature below the glass transition, and, after a waiting time at the desired low temperature, sheared with constant strain rate. We present preliminary results of an analysis of single particle trajectories of the sheared glass. We acknowledge the support via NSF REU Grant #PHY-1156964, DoD ASSURE program, and NSF-MRI CHE-1229354 as part of the MERCURY high-performance computer consortium. We thank G.P. Shrivastav, Ch. Scherer and B. Temelso.

  14. Large Area Directed Self-Assembly of Sub-10 nm Particles with Single Particle Positioning Resolution.

    PubMed

    Asbahi, Mohamed; Mehraeen, Shafigh; Wang, Fuke; Yakovlev, Nikolai; Chong, Karen S L; Cao, Jianshu; Tan, Mei Chee; Yang, Joel K W

    2015-09-01

    Directed self-assembly of nanoparticles (DSA-n) holds great potential for device miniaturization in providing patterning resolution and throughput that exceed existing lithographic capabilities. Although nanoparticles excel at assembling into regular close-packed arrays, actual devices on the other hand are often laid out in sparse and complex configurations. Hence, the deterministic positioning of single or few particles at specific positions with low defect density is imperative. Here, we report an approach of DSA-n that satisfies these requirements with less than 1% defect density over micrometer-scale areas and at technologically relevant sub-10 nm dimensions. This technique involves a simple and robust process where a solvent film containing sub-10 nm gold nanoparticles climbs against gravity to coat a prepatterned template. Particles are placed individually into nanoscale cavities, or between nanoposts arranged in varying degrees of geometric complexity. Brownian dynamics simulations suggest a mechanism in which the particles are pushed into the template by a nanomeniscus at the drying front. This process enables particle-based self-assembly to access the sub-10 nm dimension, and for device fabrication to benefit from the wealth of chemically synthesized nanoparticles with unique material properties. PMID:26274574

  15. Cluster analysis of WIBS single-particle bioaerosol data

    NASA Astrophysics Data System (ADS)

    Robinson, N. H.; Allan, J. D.; Huffman, J. A.; Kaye, P. H.; Foot, V. E.; Gallagher, M.

    2013-02-01

    Hierarchical agglomerative cluster analysis was performed on single-particle multi-spatial data sets comprising optical diameter, asymmetry and three different fluorescence measurements, gathered using two dual Wideband Integrated Bioaerosol Sensors (WIBSs). The technique is demonstrated on measurements of various fluorescent and non-fluorescent polystyrene latex spheres (PSL) before being applied to two separate contemporaneous ambient WIBS data sets recorded in a forest site in Colorado, USA, as part of the BEACHON-RoMBAS project. Cluster analysis results between both data sets are consistent. Clusters are tentatively interpreted by comparison of concentration time series and cluster average measurement values to the published literature (of which there is a paucity) to represent the following: non-fluorescent accumulation mode aerosol; bacterial agglomerates; and fungal spores. To our knowledge, this is the first time cluster analysis has been applied to long-term online primary biological aerosol particle (PBAP) measurements. The novel application of this clustering technique provides a means for routinely reducing WIBS data to discrete concentration time series which are more easily interpretable, without the need for any a priori assumptions concerning the expected aerosol types. It can reduce the level of subjectivity compared to the more standard analysis approaches, which are typically performed by simple inspection of various ensemble data products. It also has the advantage of potentially resolving less populous or subtly different particle types. This technique is likely to become more robust in the future as fluorescence-based aerosol instrumentation measurement precision, dynamic range and the number of available metrics are improved.

  16. Cluster analysis of WIBS single particle bioaerosol data

    NASA Astrophysics Data System (ADS)

    Robinson, N. H.; Allan, J. D.; Huffman, J. A.; Kaye, P. H.; Foot, V. E.; Gallagher, M.

    2012-09-01

    Hierarchical agglomerative cluster analysis was performed on single-particle multi-spatial datasets comprising optical diameter, asymmetry and three different fluorescence measurements, gathered using two dual Waveband Integrated Bioaerosol Sensor (WIBS). The technique is demonstrated on measurements of various fluorescent and non-fluorescent polystyrene latex spheres (PSL) before being applied to two separate contemporaneous ambient WIBS datasets recorded in a forest site in Colorado, USA as part of the BEACHON-RoMBAS project. Cluster analysis results between both datasets are consistent. Clusters are tentatively interpreted by comparison of concentration time series and cluster average measurement values to the published literature (of which there is a paucity) to represent: non-fluorescent accumulation mode aerosol; bacterial agglomerates; and fungal spores. To our knowledge, this is the first time cluster analysis has been applied to long term online PBAP measurements. The novel application of this clustering technique provides a means for routinely reducing WIBS data to discrete concentration time series which are more easily interpretable, without the need for any a priori assumptions concerning the expected aerosol types. It can reduce the level of subjectivity compared to the more standard analysis approaches, which are typically performed by simple inspection of various ensemble data products. It also has the advantage of potentially resolving less populous or subtly different particle types. This technique is likely to become more robust in the future as fluorescence-based aerosol instrumentation measurement precision, dynamic range and the number of available metrics is improved.

  17. Single crystal niobium tubes for particle colliders accelerator cavities

    SciTech Connect

    Murphy, James E

    2013-02-28

    The objective of this research project is to produce single crystal niobium (Nb) tubes for use as particle accelerator cavities for the Fermi laboratory’s International Linear Collider project. Single crystal Nb tubes may have superior performance compared to a polycrystalline tubes because the absence of grain boundaries may permit the use of higher accelerating voltages. In addition, Nb tubes that are subjected to the high temperature, high vacuum crystallization process are very pure and well annealed. Any impurity with a significantly higher vapor pressure than Nb should be decreased by the relatively long exposure at high temperature to the high vacuum environment. After application of the single crystal process, the surfaces of the Nb tubes are bright and shiny, and the tube resembles an electro polished Nb tube. For these reasons, there is interest in single crystal Nb tubes and in a process that will produce single crystal tubes. To convert a polycrystalline niobium tube into a single crystal, the tube is heated to within a few hundred °C of the melting temperature of niobium, which is 2477 °C. RF heating is used to rapidly heat the tube in a narrow zone and after reaching the operating temperature, the hot zone is slowly passed along the length of the tube. For crystallization tests with Nb tubes, the traverse rate was in the range of 1-10 cm per hour. All the crystallization tests in this study were performed in a water-cooled, stainless steel chamber under a vacuum of 5 x10-6 torr or better. In earliest tests of the single crystal growth process, the Nb tubes had an OD of 1.9 cm and a wall thickness of 0.15 mm. With these relatively small Nb tubes, the single crystal process was always successful in producing single crystal tubes. In these early tests, the operating temperature was normally maintained at 2200 °C, and the traverse rate was 5 cm per hour. In the next test series, the Nb tube size was increased to 3.8 cm OD and the wall thickness was

  18. Troika of single particle tracking programing: SNR enhancement, particle identification, and mapping

    PubMed Central

    Shuang, Bo; Chen, Jixin; Kisley, Lydia

    2014-01-01

    single particle tracking (SPT) techniques provide a microscopic approach to probe in vivo and in vitro structure and reactions. Automatic analysis of SPT data with high efficiency and accuracy spurs the development of SPT algorithms. In this perspective, we review a range of available techniques used in SPT analysis programs. In addition, we present an example SPT program step-by-step to provide a guide so that researchers can use, modify, and/or write a SPT program for their own purposes. PMID:24263676

  19. Troika of single particle tracking programing: SNR enhancement, particle identification, and mapping.

    PubMed

    Shuang, Bo; Chen, Jixin; Kisley, Lydia; Landes, Christy F

    2014-01-14

    Single particle tracking (SPT) techniques provide a microscopic approach to probe in vivo and in vitro structure and reactions. Automatic analysis of SPT data with high efficiency and accuracy spurs the development of SPT algorithms. In this perspective, we review a range of available techniques used in SPT analysis programs. In addition, we present an example SPT program step-by-step to provide a guide so that researchers can use, modify, and/or write a SPT program for their own purposes. PMID:24263676

  20. Single molecule λ-DNA stretching studied by microfluidics and single particle tracking

    NASA Astrophysics Data System (ADS)

    Wang, Jun; Lu, Chang

    2007-10-01

    DNA stretching has been an intensively studied topic due to its involvement in the cellular functions. In this work, we studied DNA stretching based on microfluidics and single particle tracking techniques. Microfluidics generates well-defined flow field within microscale channels and potentially allows the incorporation of chemical and biological assays with the single molecule experiments. Single DNA molecules were tethered to the channel bottom (glass) at one end and to fluorescent microbeads at the other end. The microscale flow exerted hydrodynamic force on the microbead with a magnitude dependent on the flow rate. The force-extension curves of the single DNA molecules were obtained by localizing the fluorescent microbead with nanometer precision at different flow rates. We were able to obtain DNA force-extension curves which fit the wormlike chain model very well. Furthermore, we also observed plateaus at low forces (15-30pN) in these curves when the hydrodynamic force was kept constant for a duration of 10s at each flow rate. One possible reason is that stretching force with long duration lowers the activation barrier for the conformational changes of a double-stranded DNA molecule. We expect that this approach will be useful for studying the force associated with biological events involving single DNA molecules in general.

  1. Viral protein requirements for assembly and release of human parainfluenza virus type 3 virus-like particles.

    PubMed

    Bracken, Megan K; Hayes, Brandon C; Kandel, Suresh R; Scott-Shemon, Deja; Ackerson, Larissa; Hoffman, Michael A

    2016-06-01

    To understand the roles of human parainfluenza virus 3 (HPIV3) proteins in assembly and release, viral proteins were expressed individually and in combination in 293T cells. Expression of the matrix (M) protein triggered release of enveloped, matrix-containing virus-like particles (VLPs) from cells. When M was co-expressed with the nucleocapsid (N), fusion (F) or haemagglutinin-neuraminidase (HN) proteins, VLPs that contained M+N, M+F and M+HN, respectively, were generated, suggesting that M can independently interact with each protein to facilitate assembly and release. Additionally, expression of N protein enabled incorporation of the phosphoprotein (P) into VLPs, likely due to known N-P interactions. Finally, the HPIV3 C protein did not enhance VLP release, in contrast to observations with the related Sendai virus. These findings reinforce the central importance of the M protein in virus assembly and release, but also illustrate the variable roles of other paramyxovirus proteins during these processes. PMID:26960133

  2. A new coincidence model for single particle counters, Part I: Theory and experimental verification.

    PubMed

    Knapp, J Z; Abramson, L R

    1994-01-01

    The prerequisites for estimating the effect of signal coincidence on both particle undercounting and the injection of false counts in the implementation of U.S.P. 788 contaminating particle assays by light extinction particle counters are defined. These include a particle concentration measure that varies with particle size and a new model of the counting process. Both prerequisites have been verified empirically: a single normalized equation describes the coincidence effect in all single particle counters. The single parameter of the normalized equation is the number of effective detector volumes per milliliter. A maximum undercount limit of 5% is proposed based on adequately suspended particles. Using the SVP U.S.P. XXII acceptance limits of 10,000 particles per container or the PMA propose 6,000 particles per container maximum for particles > 10 microns in U.S.P. XXIII, undercount errors are estimated for the smallest container sizes. The large concentration of particles below the controlled 10 microns particle size, that has been documented in injectable solutions, can pose an additional 788 measurement hazard. A Poisson model is used to estimate and control the injection of false particle counts into the mandated measurement through particle coincidence. Acceptable counting accuracy limits with present particle counting systems can be achieved by understanding the capabilities of the particle counter measurement system and using a dilution technique when appropriate. The new model of the counting process and the new particle concentration measures can result in standard, conservative, instrument specifications for use in Pharmacopeial contamination testing and in GLP user evaluation tests. Part I of this paper includes the theory of the coincidence effect on particle counting and the particle size distribution measured. A summary of the experimental verification employed to determine coincidence count loss as a function of particle concentration for single

  3. Human Monoclonal Antibodies Against a Plethora of Viral Pathogens From Single Combinatorial Libraries

    NASA Astrophysics Data System (ADS)

    Williamson, R. Anthony; Burioni, Roberto; Sanna, Pietro P.; Partridge, Lynda J.; Barbas, Carlos F., III; Burton, Dennis R.

    1993-05-01

    Conventional antibody generation usually requires active immunization with antigen immediately prior to the preparation procedure. Combinatorial antibody library technology offers the possibility of cloning a range of antibody specificities at a single point in time and then accessing these specificities at will. Here we show that human monoclonal antibody Fab fragments against a plethora of infectious agents can be readily derived from a single library. Further examination of a number of libraries shows that whenever antibody against a pathogen can be detected in the serum of the donor, then specific antibodies can be derived from the corresponding library. We describe the generation of human Fab fragments against herpes simplex virus types 1 and 2, human cytomegalovirus, varicella zoster virus, rubella, human immunodeficiency virus type 1, and respiratory syncytial virus. The antibodies are shown to be highly specific and a number are effective in neutralizing virus in vitro.

  4. Human monoclonal antibodies against a plethora of viral pathogens from single combinatorial libraries.

    PubMed Central

    Williamson, R A; Burioni, R; Sanna, P P; Partridge, L J; Barbas, C F; Burton, D R

    1993-01-01

    Conventional antibody generation usually requires active immunization with antigen immediately prior to the preparation procedure. Combinatorial antibody library technology offers the possibility of cloning a range of antibody specificities at a single point in time and then accessing these specificities at will. Here we show that human monoclonal antibody Fab fragments against a plethora of infectious agents can be readily derived from a single library. Further examination of a number of libraries shows that whenever antibody against a pathogen can be detected in the serum of the donor, then specific antibodies can be derived from the corresponding library. We describe the generation of human Fab fragments against herpes simplex virus types 1 and 2, human cytomegalovirus, varicella zoster virus, rubella, human immunodeficiency virus type 1, and respiratory syncytial virus. The antibodies are shown to be highly specific and a number are effective in neutralizing virus in vitro. Images Fig. 1 Fig. 2 PMID:7683424

  5. Investigation of refractory black carbon-containing particle morphologies using the single-particle soot photometer (SP2)

    DOE PAGESBeta

    Sedlacek, III, Arthur J.; Lewis, Ernie R.; Onasch, Timothy B.; Lambe, Andrew T.; Davidovits, Paul

    2015-07-24

    An important source of uncertainty in radiative forcing by absorbing aerosol particles is the uncertainty in their morphologies (i.e., the location of the absorbing substance on/in the particles). To examine the effects of particle morphology on the response of an individual black carbon-containing particle in a Single-Particle Soot Photometer (SP2), a series of experiments was conducted to investigate black carbon-containing particles of known morphology using Regal black (RB), a proxy for collapsed soot, as the light-absorbing substance. Particles were formed by coagulation of RB with either a solid substance (sodium chloride or ammonium sulfate) or a liquid substance (dioctyl sebacate),more » and by condensation with dioctyl sebacate, the latter experiment forming particles in a core-shell configuration. Each particle type experienced fragmentation (observed as negative lagtimes), and each yielded similar lagtime responses in some instances, confounding attempts to differentiate particle morphology using current SP2 lagtime analysis. SP2 operating conditions, specifically laser power and sample flow rate, which in turn affect the particle heating and dissipation rates, play an important role in the behavior of particles in the SP2, including probability of fragmentation. This behavior also depended on the morphology of the particles and on the thermo-chemical properties of the non-RB substance. Although these influences cannot currently be unambiguously separated, the SP2 analysis may still provide useful information on particle mixing states and black carbon particle sources.« less

  6. Investigation of refractory black carbon-containing particle morphologies using the single-particle soot photometer (SP2)

    SciTech Connect

    Sedlacek, III, Arthur J.; Lewis, Ernie R.; Onasch, Timothy B.; Lambe, Andrew T.; Davidovits, Paul

    2015-07-24

    An important source of uncertainty in radiative forcing by absorbing aerosol particles is the uncertainty in their morphologies (i.e., the location of the absorbing substance on/in the particles). To examine the effects of particle morphology on the response of an individual black carbon-containing particle in a Single-Particle Soot Photometer (SP2), a series of experiments was conducted to investigate black carbon-containing particles of known morphology using Regal black (RB), a proxy for collapsed soot, as the light-absorbing substance. Particles were formed by coagulation of RB with either a solid substance (sodium chloride or ammonium sulfate) or a liquid substance (dioctyl sebacate), and by condensation with dioctyl sebacate, the latter experiment forming particles in a core-shell configuration. Each particle type experienced fragmentation (observed as negative lagtimes), and each yielded similar lagtime responses in some instances, confounding attempts to differentiate particle morphology using current SP2 lagtime analysis. SP2 operating conditions, specifically laser power and sample flow rate, which in turn affect the particle heating and dissipation rates, play an important role in the behavior of particles in the SP2, including probability of fragmentation. This behavior also depended on the morphology of the particles and on the thermo-chemical properties of the non-RB substance. Although these influences cannot currently be unambiguously separated, the SP2 analysis may still provide useful information on particle mixing states and black carbon particle sources.

  7. Nanoscale structural features determined by AFM for single virus particles.

    PubMed

    Chen, Shu-wen W; Odorico, Michael; Meillan, Matthieu; Vellutini, Luc; Teulon, Jean-Marie; Parot, Pierre; Bennetau, Bernard; Pellequer, Jean-Luc

    2013-11-21

    In this work, we propose "single-image analysis", as opposed to multi-image averaging, for extracting valuable information from AFM images of single bio-particles. This approach allows us to study molecular systems imaged by AFM under general circumstances without restrictions on their structural forms. As feature exhibition is a resolution correlation, we have performed AFM imaging on surfaces of tobacco mosaic virus (TMV) to demonstrate variations of structural patterns with probing resolution. Two AFM images were acquired with the same tip at different probing resolutions in terms of pixel width, i.e., 1.95 and 0.49 nm per pixel. For assessment, we have constructed an in silico topograph based on the three-dimensional crystal structure of TMV as a reference. The prominent artifacts observed in the AFM-determined shape of TMV were attributed to tip convolutions. The width of TMV rod was systematically overestimated by ~10 nm at both probing resolutions of AFM. Nevertheless, the effects of tip convolution were less severe in vertical orientation so that the estimated height of TMV by AFM imaging was in close agreement with the in silico X-ray topograph. Using dedicated image processing algorithms, we found that at low resolution (i.e., 1.95 nm per pixel), the extracted surface features of TMV can be interpreted as a partial or full helical repeat (three complete turns with ~7.0 nm in length), while individual protein subunits (~2.5 nm) were perceivable only at high resolution. The present study shows that the scales of revealed structural features in AFM images are subject to both probing resolution and processing algorithms for image analysis. PMID:24056758

  8. Structured dark-field imaging for single nano-particles

    NASA Astrophysics Data System (ADS)

    Chen, Jian; Gao, Kun; Wang, Zhi-Li; Yun, Wen-Bing; Wu, Zi-Yu

    2015-08-01

    In this work, we extensively describe and demonstrate the structured dark-field imaging (SDFI). SDFI is a newly proposed x-ray microscopy designed for revealing the fine features below Rayleigh resolution, in which different orders of scattered x-ray photons are collected by changing the numerical aperture of the condenser. Here, the samples of single particles are discussed to extend the scope of the SDFI technique reported in a previous work (Chen J, Gao K, Ge X, et al. 2013 Opt. Lett. 38 2068). In addition, the details of the newly invented algorithm are explained, which is able to calculate the intensity of any pixel on the image plane rapidly and reliably. Project supported by the National Basic Research Program of China (Grant No. 2012CB825800), the Science Fund for Creative Research Groups, the National Natural Science Foundation of China (Grant No. 11321503), the Knowledge Innovation Program of the Chinese Academy of Sciences (Grant No. KJCX2-YW-N42), and the National Natural Science Foundation of China (Grant Nos. 11475170, 11205157, and 11305173).

  9. Synthesis of Single-Walled Carbon Nanotubes in a Glow Discharge Fine Particle Plasma

    SciTech Connect

    Imazato, N.; Imano, M.; Hayashi, Y.

    2008-09-07

    Carbon fine particles were synthesized being negatively charged and confined in a glow discharge plasma. The deposited fine particles were analyzed by Raman spectroscopy and transmission electron microscopy (TEM) and were confirmed to include single-walled carbon nanotubes.

  10. Broadly Neutralizing Activity of Zika Virus-Immune Sera Identifies a Single Viral Serotype.

    PubMed

    Dowd, Kimberly A; DeMaso, Christina R; Pelc, Rebecca S; Speer, Scott D; Smith, Alexander R Y; Goo, Leslie; Platt, Derek J; Mascola, John R; Graham, Barney S; Mulligan, Mark J; Diamond, Michael S; Ledgerwood, Julie E; Pierson, Theodore C

    2016-08-01

    Recent epidemics of Zika virus (ZIKV) have been associated with congenital malformation during pregnancy and Guillain-Barré syndrome. There are two ZIKV lineages (African and Asian) that share >95% amino acid identity. Little is known regarding the ability of neutralizing antibodies elicited against one lineage to protect against the other. We investigated the breadth of the neutralizing antibody response following ZIKV infection by measuring the sensitivity of six ZIKV strains to neutralization by ZIKV-confirmed convalescent human serum or plasma samples. Contemporary Asian and early African ZIKV strains were similarly sensitive to neutralization regardless of the cellular source of virus. Furthermore, mouse immune serum generated after infection with African or Asian ZIKV strains was capable of neutralizing homologous and heterologous ZIKV strains equivalently. Because our study only defines a single ZIKV serotype, vaccine candidates eliciting robust neutralizing antibody responses should inhibit infection of both ZIKV lineages, including strains circulating in the Americas. PMID:27481466

  11. Single-Particle Tracking Shows that a Point Mutation in the Carnivore Parvovirus Capsid Switches Binding between Host-Specific Transferrin Receptors.

    PubMed

    Lee, Donald W; Allison, Andrew B; Bacon, Kaitlyn B; Parrish, Colin R; Daniel, Susan

    2016-05-01

    Determining how viruses infect new hosts via receptor-binding mechanisms is important for understanding virus emergence. We studied the binding kinetics of canine parvovirus (CPV) variants isolated from raccoons-a newly recognized CPV host-to different carnivore transferrin receptors (TfRs) using single-particle tracking. Our data suggest that CPV may utilize adhesion-strengthening mechanisms during TfR binding and that a single mutation in the viral capsid at VP2 position 300 can profoundly alter receptor binding and infectivity. PMID:26889026

  12. Single Particle Scattering Used for Characterization of Suspended Sediments

    NASA Astrophysics Data System (ADS)

    Bjørnø, Leif; Bjørnø, Irina

    The aim of this paper is to develop a theoretical model for description of ultrasound scattering from irregularly shaped individual particles. Investigations of sediment transport by use of ultrasound scattering technique demand a fundamental understanding of scattering by individual, irregularly shaped particles. Regularly shaped particles are frequently spheres, while irregularly shaped particles can be symmetrically particles with surface roughness or with angular facets and edges. A cube and a rough sphere have been used in the studies behind this paper. Laboratory experiments have been used for verification of theoretical and numerical results.

  13. Characterization of aerodynamic drag force on single particles: Final report

    SciTech Connect

    Kale, S.R.

    1987-10-01

    An electrodynamic balance was used to measure the drag coefficient and also to record the size and shape of spheres, and coal and oil shale particles (100 ..mu..m to 200 ..mu..m in size). The electrodynamic balance consisted of a central, and two end electrodes. The resulting electric field stably suspended a charged particle. A suspended particle, back illuminated by a light emitting diode, was viewed by a video camera. The image was analyzed for particle position control and was calibrated to give the diameter of spheres, or the area equivalent diameter of nonspherical particles. The drag coefficient was calculated from the air velocity and the dc voltage required to keep the particle at the balance center. The particle Reynolds number varied from 0.2 to 13. Three particles each of coal and oil shale were captured and photographed by a scanning electron microscope and the motion of all the particles was recorded on video tape. Drag coefficient vs Reynolds number data for spheres agreed well with correlations. Data for thirteen particles each of coal and oil shale indicated a power law relationship between drag coefficient and Reynolds number. All these particles exhibited higher drag than spheres and were also observed to rotate. The rotation, however, did not affect the drag coefficient. The choice of characteristic dimension affects the drag characteristics of oil shale more strongly than for coal, owing to the flake-like shape of oil shale. 38 figs., 5 tabs.

  14. Proton Single-Particle States In The Heaviest Actinide Nuclei

    SciTech Connect

    Ahmad, I.; Kondev, F.G.; Moore, E.F.; Chasman, R.R.; Carpenter, M.P.; Greene, J.P.; Janssens, R.V.F.; Lauritsen, T.; Lister, C.J.; Seweryniak, D.; Hoff, R.W.; Evans, J.E.; Lougheed, R.W.; Porter, C.E.; Felker, L.K.

    2005-04-05

    The level structure of 249Bk has been investigated by measuring the {gamma}-ray spectra following the {alpha} decay of a chemically and isotopically pure 253Es sample. Alpha-gamma coincidence measurement was performed using a Si detector for {alpha} particles and a 25% Ge detector for {gamma} rays. A gamma-gamma coincidence measurement was performed with the Gammasphere spectrometer. The Es sample was obtained by extracting the 253Es which grew in a 253Cf source material produced in the High Flux Isotope Reactor (HFIR) at Oak Ridge National Laboratory. Additional information on the 249Bk levels was obtained from the study of {gamma} rays produced in the {beta}- decay of 249Cm. The 249Cm sample was produced by neutron irradiation of 248Cm. Using the results of the present study and the results of previous 248Cm({alpha},t) and 248Cm(3He,d) reaction spectra, the following single-particle states have been identified in 249Bk: 7/2+[633], 0.0 keV; 3/2-[521], 8.78 keV; 1/2+[400], 377.55 keV: 5/2+[642], 389.17 keV; 1/2-[530], 569.19 keV; 1/2-[521], 643.0 keV; 5/2-[523], 672.8 keV; 9/2+[624], 1075.1 keV. Four vibrational bands were identified at 767.9, 932.2, 1150.7 and 1223.0 keV with tentative assignments of {l_brace}7/2+[633]x1-{r_brace}9/2-, {l_brace}7/2+[633]x0-{r_brace}7/2-, {l_brace}7/2+[633]x1-{r_brace}5/2- and {l_brace}7/2+[633]x0+{r_brace}7/2+, respectively.

  15. Alignment algorithms and per-particle CTF correction for single particle cryo-electron tomography.

    PubMed

    Galaz-Montoya, Jesús G; Hecksel, Corey W; Baldwin, Philip R; Wang, Eryu; Weaver, Scott C; Schmid, Michael F; Ludtke, Steven J; Chiu, Wah

    2016-06-01

    Single particle cryo-electron tomography (cryoSPT) extracts features from cryo-electron tomograms, followed by 3D classification, alignment and averaging to generate improved 3D density maps of such features. Robust methods to correct for the contrast transfer function (CTF) of the electron microscope are necessary for cryoSPT to reach its resolution potential. Many factors can make CTF correction for cryoSPT challenging, such as lack of eucentricity of the specimen stage, inherent low dose per image, specimen charging, beam-induced specimen motions, and defocus gradients resulting both from specimen tilting and from unpredictable ice thickness variations. Current CTF correction methods for cryoET make at least one of the following assumptions: that the defocus at the center of the image is the same across the images of a tiltseries, that the particles all lie at the same Z-height in the embedding ice, and/or that the specimen, the cryo-electron microscopy (cryoEM) grid and/or the carbon support are flat. These experimental conditions are not always met. We have developed a CTF correction algorithm for cryoSPT without making any of the aforementioned assumptions. We also introduce speed and accuracy improvements and a higher degree of automation to the subtomogram averaging algorithms available in EMAN2. Using motion-corrected images of isolated virus particles as a benchmark specimen, recorded with a DE20 direct detection camera, we show that our CTF correction and subtomogram alignment routines can yield subtomogram averages close to 4/5 Nyquist frequency of the detector under our experimental conditions. PMID:27016284

  16. Viral Single-Strand DNA Induces p53-Dependent Apoptosis in Human Embryonic Stem Cells

    PubMed Central

    Hirsch, Matthew L.; Fagan, B. Matthew; Dumitru, Raluca; Bower, Jacquelyn J.; Yadav, Swati; Porteus, Matthew H.; Pevny, Larysa H.; Samulski, R. Jude

    2011-01-01

    Human embryonic stem cells (hESCs) are primed for rapid apoptosis following mild forms of genotoxic stress. A natural form of such cellular stress occurs in response to recombinant adeno-associated virus (rAAV) single-strand DNA genomes, which exploit the host DNA damage response for replication and genome persistence. Herein, we discovered a unique DNA damage response induced by rAAV transduction specific to pluripotent hESCs. Within hours following rAAV transduction, host DNA damage signaling was elicited as measured by increased gamma-H2AX, ser15-p53 phosphorylation, and subsequent p53-dependent transcriptional activation. Nucleotide incorporation assays demonstrated that rAAV transduced cells accumulated in early S-phase followed by the induction of apoptosis. This lethal signaling sequalae required p53 in a manner independent of transcriptional induction of Puma, Bax and Bcl-2 and was not evident in cells differentiated towards a neural lineage. Consistent with a lethal DNA damage response induced upon rAAV transduction of hESCs, empty AAV protein capsids demonstrated no toxicity. In contrast, DNA microinjections demonstrated that the minimal AAV origin of replication and, in particular, a 40 nucleotide G-rich tetrad repeat sequence, was sufficient for hESC apoptosis. Our data support a model in which rAAV transduction of hESCs induces a p53-dependent lethal response that is elicited by a telomeric sequence within the AAV origin of replication. PMID:22114676

  17. Chromatin dynamics during interphase explored by single-particle tracking.

    PubMed

    Levi, Valeria; Gratton, Enrico

    2008-01-01

    Our view of the structure and function of the interphase nucleus has changed drastically in recent years. It is now widely accepted that the nucleus is a well organized and highly compartmentalized organelle and that this organization is intimately related to nuclear function. In this context, chromatin-initially considered a randomly entangled polymer-has also been shown to be structurally organized in interphase and its organization was found to be very important to gene regulation. Relevant and not completely answered questions are how chromatin organization is achieved and what mechanisms are responsible for changes in the positions of chromatin loci in the nucleus. A significant advance in the field resulted from tagging chromosome sites with bacterial operator sequences, and visualizing these tags using green fluorescent protein fused with the appropriate repressor protein. Simultaneously, fluorescence imaging techniques evolved significantly during recent years, allowing observation of the time evolution of processes in living specimens. In this context, the motion of the tagged locus was observed and analyzed to extract quantitative information regarding its dynamics. This review focuses on recent advances in our understanding of chromatin dynamics in interphase with the emphasis placed on the information obtained from single-particle tracking (SPT) experiments. We introduce the basis of SPT methods and trajectory analysis, and summarize what has been learnt by using this new technology in the context of chromatin dynamics. Finally, we briefly describe a method of SPT in a two-photon excitation microscope that has several advantages over methods based on conventional microscopy and review the information obtained using this novel approach to study chromatin dynamics. PMID:18461483

  18. Chromatin dynamics during interphase explored by single particle tracking

    PubMed Central

    Levi, Valeria; Gratton, Enrico

    2009-01-01

    Our view of the structure and function of the interphase nucleus has drastically changed in the last years. It is now widely accepted that the nucleus is a well organized and highly compartmentalized organelle and that this organization is intimately related to nuclear function. In this context, chromatin -initially considered a randomly entangled polymer- has also been shown to be structurally organized in interphase and its organization was found to be very important to gene regulation. Relevant and not completely answered questions are how chromatin organization is achieved and what mechanisms are responsible for changes in the positions of chromatin loci in the nucleus. A significant advance in the field resulted from tagging chromosome sites with bacterial operator sequences, and visualizing these tags using green fluorescent protein fused with the appropriate repressor protein. Simultaneously, fluorescence imaging techniques significantly evolved during the last years allowing the observation of the time evolution of processes in living specimens. In this context, the motion of the tagged locus was observed and analyzed to extract quantitative information regarding its dynamics. This review focuses on recent advances in our understanding of chromatin dynamics in interphase with the emphasis placed on the information obtained from single particle tracking (SPT) experiments. We introduce the basis of SPT methods and trajectories analysis, and summarize what has been learnt by using this new technology in the context of chromatin dynamics. Finally, we briefly describe a method of SPT in a two-photon excitation microscope that has several advantages over methods based on conventional microscopy and review the information obtained by using this novel approach to study chromatin dynamics. PMID:18461483

  19. Dynamics of nuclear single-particle structure in covariant theory of particle-vibration coupling: From light to superheavy nuclei

    SciTech Connect

    Litvinova, E. V.; Afanasjev, A. V.

    2011-07-15

    The impact of particle-vibration coupling and polarization effects due to deformation and time-odd mean fields on single-particle spectra is studied systematically in doubly magic nuclei from low-mass {sup 56}Ni up to superheavy ones. Particle-vibration coupling is treated fully self-consistently within the framework of the relativistic particle-vibration coupling model. Polarization effects due to deformation and time-odd mean field induced by odd particle are computed within covariant density functional theory. It has been found that among these contributions the coupling to vibrations makes a major impact on the single-particle structure. The impact of particle-vibration coupling and polarization effects on calculated single-particle spectra, the size of the shell gaps, the spin-orbit splittings and the energy splittings in pseudospin doublets is discussed in detail; these physical observables are compared with experiment. Particle-vibration coupling has to be taken into account when model calculations are compared with experiment since this coupling is responsible for observed fragmentation of experimental levels; experimental spectroscopic factors are reasonably well described in model calculations.

  20. Raman Spectroscopy of Optically Trapped Single Biological Micro-Particles

    PubMed Central

    Redding, Brandon; Schwab, Mark J.; Pan, Yong-le

    2015-01-01

    The combination of optical trapping with Raman spectroscopy provides a powerful method for the study, characterization, and identification of biological micro-particles. In essence, optical trapping helps to overcome the limitation imposed by the relative inefficiency of the Raman scattering process. This allows Raman spectroscopy to be applied to individual biological particles in air and in liquid, providing the potential for particle identification with high specificity, longitudinal studies of changes in particle composition, and characterization of the heterogeneity of individual particles in a population. In this review, we introduce the techniques used to integrate Raman spectroscopy with optical trapping in order to study individual biological particles in liquid and air. We then provide an overview of some of the most promising applications of this technique, highlighting the unique types of measurements enabled by the combination of Raman spectroscopy with optical trapping. Finally, we present a brief discussion of future research directions in the field. PMID:26247952

  1. Mixing state of particles with secondary species by single particle aerosol mass spectrometer in an atmospheric pollution event

    NASA Astrophysics Data System (ADS)

    Xu, Lingling; Chen, Jinsheng

    2016-04-01

    Single particle aerosol mass spectrometer (SPAMS) was used to characterize size distribution, chemical composition, and mixing state of particles in an atmospheric pollution event during 20 Oct. - 5 Nov., 2015 in Xiamen, Southeast China. A total of 533,012 particle mass spectra were obtained and clustered into six groups, comprising of industry metal (4.5%), dust particles (2.6%), carbonaceous species (70.7%), K-Rich particles (20.7%), seasalt (0.6%) and other particles (0.9%). Carbonaceous species were further divided into EC (70.6%), OC (28.5%), and mixed ECOC (0.9%). There were 61.7%, 58.3%, 4.0%, and 14.6% of particles internally mixed with sulfate, nitrate, ammonium and C2H3O, respectively, indicating that these particles had undergone significant aging processing. Sulfate was preferentially mixed with carbonaceous particles, while nitrate tended to mix with metal-containing and dust particles. Compared to clear days, the fractions of EC-, metal- and dust particles remarkably increased, while the fraction of OC-containing particles decreased in pollution days. The mixing state of particles, excepted for OC-containing particles with secondary species was much stronger in pollution days than that in clear days, which revealed the significant influence of secondary particles in atmospheric pollution. The different activity of OC-containing particles might be related to their much smaller aerodynamic diameter. These results could improve our understanding of aerosol characteristics and could be helpful to further investigate the atmospheric process of particles.

  2. In-Situ Characterization of Cloud Condensation Nuclei, Interstitial, and background Particles using Single Particle Mass Spectrometer, SPLAT II

    SciTech Connect

    Zelenyuk, Alla; Imre, D.; Earle, Michael; Easter, Richard C.; Korolev, Alexei; Leaitch, W. R.; Liu, Peter; Macdonald, A. M.; Ovchinnikov, Mikhail; Strapp, Walter

    2010-10-01

    Aerosol indirect effect remains the most uncertain aspect of climate change modeling because proper test requires knowledge of individual particles sizes and compositions with high spatial and temporal resolution. We present the first deployment of a single particle mass spectrometer (SPLAT II) that is operated in a dual data acquisition mode to measure all the required individual particle properties with sufficient temporal resolution to definitively resolve the aerosol-cloud interaction in this exemplary case. We measured particle number concentrations, asphericity, and individual particle size, composition, and density with better than 60 seconds resolution. SPLAT II measured particle number concentrations between 70 particles cm-3and 300 particles cm-3, an average particle density of 1.4 g cm-3. Found that most particles are composed of oxygenated organics, many of which are mixed with sulfates. Biomass burn particles some with sulfates were prevalent, particularly at higher altitudes, and processed sea-salt was observed over the ocean. Analysis of cloud residuals shows that with time cloud droplets acquire sulfate by the reaction of peroxide with SO2. Based on the particle mass spectra and densities we find that the compositions of cloud condensation nuclei are similar to those of background aerosol but, contain on average ~7% more sulfate, and do not include dust and metallic particles. A comparison between the size distributions of background, activated, and interstitial particles shows that while nearly none of the activated particles is smaller than 115 nm, more than 80% of interstitial particles are smaller than 115 nm. We conclude that for this cloud the most important difference between CCN and background aerosol is particle size although having more sulfate also helps.

  3. Single-particle Analyses of Compositions, Morphology, and Viscosity of Aerosol Particles Collected During GoAmazon2014

    NASA Astrophysics Data System (ADS)

    Adachi, K.; Gong, Z.; Bateman, A. P.; Martin, S. T.; Cirino, G. G.; Artaxo, P.; Sedlacek, A. J., III; Buseck, P. R.

    2014-12-01

    Single-particle analysis using transmission electron microscopy (TEM) shows composition and morphology of individual aerosol particles collected during the GoAmazon2014 campaign. These TEM results indicate aerosol types and mixing states, both of which are important for evaluating particle optical properties and cloud condensation nuclei activity. The samples were collected at the T3 site, which is located in the Amazon forest with influences from the urban pollution plume from Manaus. Samples were also collected from the T0 site, which is in the middle of the jungle with minimal to no influences of anthropogenic sources. The aerosol particles mainly originated from 1) anthropogenic pollution (e.g., nanosphere soot, sulfate), 2) biogenic emissions (e.g., primary biogenic particles, organic aerosols), and 3) long-range transport (e.g., sea salts). We found that the biogenic organic aerosol particles contain homogeneously distributed potassium. Particle viscosity is important for evaluating gas-particle interactions and atmospheric chemistry for the particles. Viscosity can be estimated from the rebounding behavior at controlled relative humidities, i.e., highly viscous particles display less rebound on a plate than low-viscosity particles. We collected 1) aerosol particles from a plate (non-rebounded), 2) those that had rebounded from the plate and were then captured onto an adjacent sampling plate, and 3) particles from ambient air using a separate impactor sampler. Preliminary results show that more than 90% of non-rebounded particles consisted of nanosphere soot with or without coatings. The coatings mostly consisted of organic matter. Although rebounded particles also contain nanosphere soot (number fraction 64-69%), they were mostly internally mixed with sulfate, organic matter, or their mixtures. TEM tilted images suggested that the rebounded particles were less deformed on the substrate, whereas the non-rebounded particles were more deformed, which could

  4. Single dilution Avidity-Blocking ELISA as an alternative to the Bovine Viral Diarrhea Virus neutralization test.

    PubMed

    Franco Mahecha, O L; Ogas Castells, M L; Combessies, G; Lavoria, M A; Wilda, M; Mansilla, F C; Seki, C; Grigera, P R; Capozzo, A V

    2011-08-01

    This study describes the development and validation of a blocking ELISA that measures avidity of BVDV-specific immunoglobulins (Igs) as an alternative to the classic virus neutralization test. The assay comprises a recombinant soluble E2 glycoprotein as target antigen, a neutralizing serum as detector antibody and a washing-step with a chaotropic agent to determine BVDV-specific Igs avidity. Avidity-Blocking ELISA was validated with 100 negative and 87 positive BVDV-neutralization serum samples from either infected or vaccinated bovines (inactivated commercial vaccines). Specificity and sensitivity of the Avidity-Blocking ELISA were 100% and 98.8%, respectively. The assay was standardized to use a single dilution, so that 90 samples can be tested per plate. Results expressed as Avidity Index (AI) correlated with BVDV neutralizing titers (r=0.94). Unlike the virus neutralization test, the Avidity-Blocking ELISA could discriminate between infected and vaccinated animals (DIVA), suggesting that avidity measurement can be a valuable tool to achieve DIVA compliances. The data show that the avidity of anti BVDV antibodies is related to their capacity to block viral infection in vitro. PMID:21621555

  5. A novel coding-region RNA element modulates infectious dengue virus particle production in both mammalian and mosquito cells and regulates viral replication in Aedes aegypti mosquitoes

    PubMed Central

    Groat-Carmona, Anna Maria; Orozco, Susana; Friebe, Peter; Payne, Anne; Kramer, Laura; Harris, Eva

    2013-01-01

    Dengue virus (DENV) is an enveloped flavivirus with a positive-sense RNA genome transmitted by Aedes mosquitoes, causing the most important arthropod-borne viral disease affecting humans. Relatively few cis-acting RNA regulatory elements have been described in the DENV coding-region. Here, by introducing silent mutations into a DENV-2 infectious clone, we identify the conserved capsid-coding region 1 (CCR1), an RNA sequence element that regulates viral replication in mammalian cells and to a greater extent in Ae. albopictus mosquito cells. These defects were confirmed in vivo, resulting in decreased replication in Ae. aegypti mosquito bodies and dissemination to the salivary glands. Furthermore, CCR1 does not regulate translation, RNA synthesis or virion retention but likely modulates assembly, as mutations resulted in the release of non-infectious viral particles from both cell types. Understanding the role of CCR1 could help characterize the poorly-defined stage of assembly in the DENV life cycle and uncover novel anti-viral targets. PMID:22840606

  6. Viral Hepatitis

    MedlinePlus

    ... Public Home » For Veterans and the Public Viral Hepatitis Menu Menu Viral Hepatitis Viral Hepatitis Home For ... the Public Veterans and Public Home How is Hepatitis C Treated? Find the facts about the newest ...

  7. Single-Beam Optical Conveyor Belt for Chiral Particles

    NASA Astrophysics Data System (ADS)

    Fernandes, David E.; Silveirinha, Mário G.

    2016-07-01

    A different paradigm is proposed to selectively manipulate and transport small engineered chiral particles and discriminate different enantiomers using unstructured chiral light. It is theoretically shown that the response of a chiral metamaterial particle may be tailored to enable an optical conveyor-belt operation with no optical traps, such that for a fixed incident light helicity the nanoparticle is either steadily pushed towards the direction of the photon flow or steadily pulled against the photon flow, independent of its position. Our findings create distinct opportunities for unconventional optical manipulations of tailored nanoparticles and may have applications in sorting racemic mixtures of artificial chiral molecules and in particle delivery.

  8. Real time analysis of lead-containing atmospheric particles in Beijing during springtime by single particle aerosol mass spectrometry.

    PubMed

    Ma, Li; Li, Mei; Huang, Zhengxu; Li, Lei; Gao, Wei; Nian, Huiqing; Zou, Lilin; Fu, Zhong; Gao, Jian; Chai, Fahe; Zhou, Zhen

    2016-07-01

    Using a single particle aerosol mass spectrometer (SPAMS), the chemical composition and size distributions of lead (Pb)-containing particles with diameter from 0.1 μm to 2.0 μm in Beijing were analyzed in the spring of 2011 during clear, hazy, and dusty days. Based on mass spectral features of particles, cluster analysis was applied to Pb-containing particles, and six major classes were acquired consisting of K-rich, carboneous, Fe-rich, dust, Pb-rich, and Cl-rich particles. Pb-containing particles accounted for 4.2-5.3%, 21.8-22.7%, and 3.2% of total particle number during clear, hazy and dusty days, respectively. K-rich particles are a major contribution to Pb-containing particles, varying from 30.8% to 82.1% of total number of Pb-containing particles, lowest during dusty days and highest during hazy days. The results reflect that the chemical composition and amount of Pb-containing particles has been affected by meteorological conditions as well as the emissions of natural and anthropogenic sources. K-rich particles and carbonaceous particles could be mainly assigned to the emissions of coal combustion. Other classes of Pb-containing particles may be associated with metallurgical processes, coal combustion, dust, and waste incineration etc. In addition, Pb-containing particles during dusty days were first time studied by SPAMS. This method could provide a powerful tool for monitoring and controlling of Pb pollution in real time. PMID:27085059

  9. Single particle multichannel bio-aerosol fluorescence sensor.

    PubMed

    Kaye, P; Stanley, W R; Hirst, E; Foot, E V; Baxter, K L; Barrington, S J

    2005-05-16

    We describe a prototype low-cost multi-channel aerosol fluorescence sensor designed for unattended deployment in medium to large area bio-aerosol detection networks. Individual airborne particles down to ~1mum in size are detected and sized by measurement of light scattered from a continuous-wave diode laser (660nm). This scatter signal is then used to trigger the sequential firing of two xenon sources which irradiate the particle with UV pulses at ~280 nm and ~370 nm, optimal for excitation of bio-fluorophores tryptophan and NADH (nicotinamide adenine dinucleotide) respectively. For each excitation wavelength, fluorescence is detected across two bands embracing the peak emissions of the same bio-fluorophores. Current measurement rates are up to ~125 particles/s, corresponding to all particles for concentrations up to 1.3 x 104 particles/l. Developments to increase this to ~500 particles/s are in hand. Device sensitivity is illustrated in preliminary data recorded from aerosols of E.coli, BG spores, and a variety of non-biological materials. PMID:19495264

  10. Single particle multichannel bio-aerosol fluorescence sensor

    NASA Astrophysics Data System (ADS)

    Kaye, P. H.; Stanley, W. R.; Hirst, E.; Foot, E. V.; Baxter, K. L.; Barrington, S. J.

    2005-05-01

    We describe a prototype low-cost multi-channel aerosol fluorescence sensor designed for unattended deployment in medium to large area bio-aerosol detection networks. Individual airborne particles down to ~1μm in size are detected and sized by measurement of light scattered from a continuous-wave diode laser (660nm). This scatter signal is then used to trigger the sequential firing of two xenon sources which irradiate the particle with UV pulses at ~280 nm and ~370 nm, optimal for excitation of bio-fluorophores tryptophan and NADH (nicotinamide adenine dinucleotide) respectively. For each excitation wavelength, fluorescence is detected across two bands embracing the peak emissions of the same bio-fluorophores. Current measurement rates are up to ~125 particles/s, corresponding to all particles for concentrations up to 1.3 x 104 particles/l. Developments to increase this to ~500 particles/s are in hand. Device sensitivity is illustrated in preliminary data recorded from aerosols of E.coli, BG spores, and a variety of non-biological materials.