WorldWideScience

Sample records for single chromatin fibers

  1. Observing dynamics of chromatin fibers in Xenopus egg extracts by single DNA manipulation using a transverse magnetic tweezer setup

    Science.gov (United States)

    Yan, Jie; Skoko, Dunja; Marko, John; Maresca, Tom; Heald, Rebecca

    2005-03-01

    We have studied assembly of chromatin on single DNAs using Xenopus egg extracts and a specially designed magnetic tweezer setup which generates controlled force in the focal plane of the objective, allowing us to visualize and measure DNA extension under a wide range of constant tensions. We found, in the absence of ATP, interphase extracts assembled nucleosomes against DNA tensions of up to 3.5 piconewtons (pN). We observed force-induced disassembly and opening-closing fluctuations indicating our experiments were in mechano-chemical equilibrium. We found that the ATP-depleted reaction can do mechanical work of 27 kcal/mol per nucleosome, providing a measurement of the free energy difference between core histone octamers on and off DNA. Addition of ATP leads to highly dynamic behavior: time courses show processive runs of assembly and disassembly of not observed in the -ATP case, with forces of 2 pN leading to nearly complete fiber disassembly. Our study shows that ATP hydrolysis plays a major role in nucleosome rearrangement and removal, and suggests that chromatin in vivo may be subject to continual assembly and disassembly.

  2. Capturing Structural Heterogeneity in Chromatin Fibers.

    Science.gov (United States)

    Ekundayo, Babatunde; Richmond, Timothy J; Schalch, Thomas

    2017-10-13

    Chromatin fiber organization is implicated in processes such as transcription, DNA repair and chromosome segregation, but how nucleosomes interact to form higher-order structure remains poorly understood. We solved two crystal structures of tetranucleosomes with approximately 11-bp DNA linker length at 5.8 and 6.7 Å resolution. Minimal intramolecular nucleosome-nucleosome interactions result in a fiber model resembling a flat ribbon that is compatible with a two-start helical architecture, and that exposes histone and DNA surfaces to the environment. The differences in the two structures combined with electron microscopy reveal heterogeneous structural states, and we used site-specific chemical crosslinking to assess the diversity of nucleosome-nucleosome interactions through identification of structure-sensitive crosslink sites that provide a means to characterize fibers in solution. The chromatin fiber architectures observed here provide a basis for understanding heterogeneous chromatin higher-order structures as they occur in a genomic context. Copyright © 2017 Elsevier Ltd. All rights reserved.

  3. Single Chromatin Fibre Assembly Using Optical Tweezers

    NARCIS (Netherlands)

    Bennink, Martin L.; Pope, L.H.; Leuba, S.H.; de Grooth, B.G.; Greve, Jan

    2001-01-01

    Here we observe the formation of a single chromatin fibre using optical tweezers. A single -DNA molecule was suspended between two micron-sized beads, one held by a micropipette and the other in an optical trap. The constrained DNA molecule was incubated with Xenopus laevis egg extract in order to

  4. Single-molecule FRET reveals multiscale chromatin dynamics modulated by HP1α.

    Science.gov (United States)

    Kilic, Sinan; Felekyan, Suren; Doroshenko, Olga; Boichenko, Iuliia; Dimura, Mykola; Vardanyan, Hayk; Bryan, Louise C; Arya, Gaurav; Seidel, Claus A M; Fierz, Beat

    2018-01-16

    The dynamic architecture of chromatin fibers, a key determinant of genome regulation, is poorly understood. Here, we employ multimodal single-molecule Förster resonance energy transfer studies to reveal structural states and their interconversion kinetics in chromatin fibers. We show that nucleosomes engage in short-lived (micro- to milliseconds) stacking interactions with one of their neighbors. This results in discrete tetranucleosome units with distinct interaction registers that interconvert within hundreds of milliseconds. Additionally, we find that dynamic chromatin architecture is modulated by the multivalent architectural protein heterochromatin protein 1α (HP1α), which engages methylated histone tails and thereby transiently stabilizes stacked nucleosomes. This compacted state nevertheless remains dynamic, exhibiting fluctuations on the timescale of HP1α residence times. Overall, this study reveals that exposure of internal DNA sites and nucleosome surfaces in chromatin fibers is governed by an intrinsic dynamic hierarchy from micro- to milliseconds, allowing the gene regulation machinery to access compact chromatin.

  5. ATP-Dependent Chromatin Remodeling Factors and Their Roles in Affecting Nucleosome Fiber Composition

    Directory of Open Access Journals (Sweden)

    Alexandra Lusser

    2011-10-01

    Full Text Available ATP-dependent chromatin remodeling factors of the SNF2 family are key components of the cellular machineries that shape and regulate chromatin structure and function. Members of this group of proteins have broad and heterogeneous functions ranging from controlling gene activity, facilitating DNA damage repair, promoting homologous recombination to maintaining genomic stability. Several chromatin remodeling factors are critical components of nucleosome assembly processes, and recent reports have identified specific functions of distinct chromatin remodeling factors in the assembly of variant histones into chromatin. In this review we will discuss the specific roles of ATP-dependent chromatin remodeling factors in determining nucleosome composition and, thus, chromatin fiber properties.

  6. Computer simulation of the 30-nanometer chromatin fiber.

    Science.gov (United States)

    Wedemann, Gero; Langowski, Jörg

    2002-06-01

    A new Monte Carlo model for the structure of chromatin is presented here. Based on our previous work on superhelical DNA and polynucleosomes, it reintegrates aspects of the "solenoid" and the "zig-zag" models. The DNA is modeled as a flexible elastic polymer chain, consisting of segments connected by elastic bending, torsional, and stretching springs. The electrostatic interaction between the DNA segments is described by the Debye-Hückel approximation. Nucleosome core particles are represented by oblate ellipsoids; their interaction potential has been parameterized by a comparison with data from liquid crystals of nucleosome solutions. DNA and chromatosomes are linked either at the surface of the chromatosome or through a rigid nucleosome stem. Equilibrium ensembles of 100-nucleosome chains at physiological ionic strength were generated by a Metropolis-Monte Carlo algorithm. For a DNA linked at the nucleosome stem and a nucleosome repeat of 200 bp, the simulated fiber diameter of 32 nm and the mass density of 6.1 nucleosomes per 11 nm fiber length are in excellent agreement with experimental values from the literature. The experimental value of the inclination of DNA and nucleosomes to the fiber axis could also be reproduced. Whereas the linker DNA connects chromatosomes on opposite sides of the fiber, the overall packing of the nucleosomes leads to a helical aspect of the structure. The persistence length of the simulated fibers is 265 nm. For more random fibers where the tilt angles between two nucleosomes are chosen according to a Gaussian distribution along the fiber, the persistence length decreases to 30 nm with increasing width of the distribution, whereas the other observable parameters such as the mass density remain unchanged. Polynucleosomes with repeat lengths of 212 bp also form fibers with the expected experimental properties. Systems with larger repeat length form fibers, but the mass density is significantly lower than the measured value. The

  7. Single-molecule kinetic analysis of HP1-chromatin binding reveals a dynamic network of histone modification and DNA interactions.

    Science.gov (United States)

    Bryan, Louise C; Weilandt, Daniel R; Bachmann, Andreas L; Kilic, Sinan; Lechner, Carolin C; Odermatt, Pascal D; Fantner, Georg E; Georgeon, Sandrine; Hantschel, Oliver; Hatzimanikatis, Vassily; Fierz, Beat

    2017-10-13

    Chromatin recruitment of effector proteins involved in gene regulation depends on multivalent interaction with histone post-translational modifications (PTMs) and structural features of the chromatin fiber. Due to the complex interactions involved, it is currently not understood how effectors dynamically sample the chromatin landscape. Here, we dissect the dynamic chromatin interactions of a family of multivalent effectors, heterochromatin protein 1 (HP1) proteins, using single-molecule fluorescence imaging and computational modeling. We show that the three human HP1 isoforms are recruited and retained on chromatin by a dynamic exchange between histone PTM and DNA bound states. These interactions depend on local chromatin structure, the HP1 isoforms as well as on PTMs on HP1 itself. Of the HP1 isoforms, HP1α exhibits the longest residence times and fastest binding rates due to DNA interactions in addition to PTM binding. HP1α phosphorylation further increases chromatin retention through strengthening of multivalency while reducing DNA binding. As DNA binding in combination with specific PTM recognition is found in many chromatin effectors, we propose a general dynamic capture mechanism for effector recruitment. Multiple weak protein and DNA interactions result in a multivalent interaction network that targets effectors to a specific chromatin modification state, where their activity is required. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

  8. Chromatin conformation in living cells: support for a zig-zag model of the 30 nm chromatin fiber

    Science.gov (United States)

    Rydberg, B.; Holley, W. R.; Mian, I. S.; Chatterjee, A.

    1998-01-01

    A new method was used to probe the conformation of chromatin in living mammalian cells. The method employs ionizing radiation and is based on the concept that such radiation induces correlated breaks in DNA strands that are in spatial proximity. Human dermal fibroblasts in G0 phase of the cell cycle and Chinese hamster ovary cells in mitosis were irradiated by X-rays or accelerated ions. Following lysis of the cells, DNA fragments induced by correlated breaks were end-labeled and separated according to size on denaturing polyacrylamide gels. A characteristic peak was obtained for a fragment size of 78 bases, which is the size that corresponds to one turn of DNA around the nucleosome. Additional peaks between 175 and 450 bases reflect the relative position of nearest-neighbor nucleosomes. Theoretical calculations that simulate the indirect and direct effect of radiation on DNA demonstrate that the fragment size distributions are closely related to the chromatin structure model used. Comparison of the experimental data with theoretical results support a zig-zag model of the chromatin fiber rather than a simple helical model. Thus, radiation-induced damage analysis can provide information on chromatin structure in the living cell. Copyright 1998 Academic Press.

  9. Single-cell Hi-C bridges microscopy and genome-wide sequencing approaches to study 3D chromatin organization.

    Science.gov (United States)

    Ulianov, Sergey V; Tachibana-Konwalski, Kikue; Razin, Sergey V

    2017-10-01

    Recent years have witnessed an explosion of the single-cell biochemical toolbox including chromosome conformation capture (3C)-based methods that provide novel insights into chromatin spatial organization in individual cells. The observations made with these techniques revealed that topologically associating domains emerge from cell population averages and do not exist as static structures in individual cells. Stochastic nature of the genome folding is likely to be biologically relevant and may reflect the ability of chromatin fibers to adopt a number of alternative configurations, some of which could be transiently stabilized and serve regulatory purposes. Single-cell Hi-C approaches provide an opportunity to analyze chromatin folding in rare cell types such as stem cells, tumor progenitors, oocytes, and totipotent cells, contributing to a deeper understanding of basic mechanisms in development and disease. Here, we review key findings of single-cell Hi-C and discuss possible biological reasons and consequences of the inferred dynamic chromatin spatial organization. © 2017 WILEY Periodicals, Inc.

  10. The visualization of large organized chromatin domains enriched in the H3K9me2 mark within a single chromosome in a single cell

    NARCIS (Netherlands)

    Chen, X.; Yammine, S.; Shi, C.; Tark-Dame, M.; Göndör, A.; Ohlsson, R.

    2014-01-01

    Despite considerable efforts, our understanding of the organization of higher order chromatin conformations in single cells and how these relate to chromatin marks remains poor. We have earlier invented the Chromatin In Situ Proximity (ChrISP) technique to determine proximities between chromatin

  11. A chromatin insulator driving three-dimensional Polycomb response element (PRE) contacts and Polycomb association with the chromatin fiber

    DEFF Research Database (Denmark)

    Comet, Itys; Schuettengruber, Bernd; Sexton, Tom

    2011-01-01

    Regulation of gene expression involves long-distance communication between regulatory elements and target promoters, but how this is achieved remains unknown. Insulator elements have been proposed to modulate the communication between regulatory elements and promoters due to their ability to insu...... histone mark reflect this insulator-dependent chromatin conformation, suggesting that Polycomb action at a distance can be organized by local chromatin topology.......Regulation of gene expression involves long-distance communication between regulatory elements and target promoters, but how this is achieved remains unknown. Insulator elements have been proposed to modulate the communication between regulatory elements and promoters due to their ability...... to insulate genes from regulatory elements or to take part in long-distance interactions. Using a high-resolution chromatin conformation capture (H3C) method, we show that the Drosophila gypsy insulator behaves as a conformational chromatin border that is able to prohibit contacts between a Polycomb response...

  12. Single-Crystal Germanium Core Optoelectronic Fibers

    Energy Technology Data Exchange (ETDEWEB)

    Ji, Xiaoyu [Department of Materials Science and Engineering, Materials Research Institute, Pennsylvania State University, University Park PA 16802 USA; Page, Ryan L. [Department of Materials Science and Engineering, Materials Research Institute, Pennsylvania State University, University Park PA 16802 USA; Chaudhuri, Subhasis [Department of Chemistry, Pennsylvania State University, University Park PA 16802 USA; Liu, Wenjun [Advanced Photon Source, Argonne National Laboratory, Argonne IL 60439 USA; Yu, Shih-Ying [Department of Materials Science and Engineering, Materials Research Institute, Pennsylvania State University, University Park PA 16802 USA; Mohney, Suzanne E. [Department of Materials Science and Engineering, Materials Research Institute, Pennsylvania State University, University Park PA 16802 USA; Badding, John V. [Department of Materials Science and Engineering, Materials Research Institute, Pennsylvania State University, University Park PA 16802 USA; Department of Chemistry, Pennsylvania State University, University Park PA 16802 USA; Department of Physics, Pennsylvania State University, University Park PA 16802 USA; Gopalan, Venkatraman [Department of Materials Science and Engineering, Materials Research Institute, Pennsylvania State University, University Park PA 16802 USA

    2016-09-19

    Synthesis and fabrication of high-quality, small-core single-crystal germanium fibers that are photosensitive at the near-infrared and have low optical losses ≈1 dB cm-1 at 2 μm are reported. These fibers have potential applications in fiber-based spectroscopic imaging, nonlinear optical devices, and photodetection at the telecommunication wavelengths.

  13. Single curved fiber sedimentation under gravity

    Science.gov (United States)

    Xiaoying Rong; Dewei Qi; Junyong Zhu

    2005-01-01

    Dynamics of single curved fiber sedimentation under the gravity are simulated by using lattice Boltzmann method. The results of migration and rotation of the curved fiber at different Reynolds numbers are reported. The results show that the rotation and migration processes are sensitive to the curvature of the fiber.

  14. Deriving muscle fiber diameter from recorded single fiber potential.

    Science.gov (United States)

    Zalewska, Ewa

    2017-12-01

    The aim of the study was to estimate muscle fiber diameters through analysis of single muscle fiber potentials (SFPs) recorded in the frontalis muscle of a healthy subject. Our previously developed analytical and graphic method to derive fiber diameter from the analysis of the negative peak duration and the amplitude of SFP, was applied to a sample of ten SFPs recorded in vivo. Muscle fiber diameters derived from the simulation method for the sample of frontalis muscle SFPs are consistent with anatomical data for this muscle. The results confirm the utility of proposed simulation method. Outlying data could be considered as the result of a contribution of other fibers to the potential recorded using an SFEMG electrode. Our graphic tool provides a rapid estimation of muscle fiber diameter. Copyright © 2017 Elsevier Masson SAS. All rights reserved.

  15. Microscopic observations during longitudinal compression loading of single pulp fibers

    Science.gov (United States)

    Irving B. Sachs

    1986-01-01

    Paperboard components (linerboard adn corrugating medium) fail in edgewise compression because of failure of single fibers, as well as fiber-to-fiber bonds. While fiber-to-fiber-bond failure has been studied extensively, little is known about the longitudinal compression failure of a single fiber. In this study, surface alterations on single loblolly pine kraft pulp...

  16. Chromatin as an expansive canvas for chemical biology.

    Science.gov (United States)

    Fierz, Beat; Muir, Tom W

    2012-04-17

    Chromatin is extensively chemically modified and thereby acts as a dynamic signaling platform controlling gene function. Chromatin regulation is integral to cell differentiation, lineage commitment and organism development, whereas chromatin dysregulation can lead to age-related and neurodegenerative disorders as well as cancer. Investigating chromatin biology presents a unique challenge, as the issue spans many disciplines, including cell and systems biology, biochemistry and molecular biophysics. In recent years, the application of chemical biology methods for investigating chromatin processes has gained considerable traction. Indeed, chemical biologists now have at their disposal powerful chemical tools that allow chromatin biology to be scrutinized at the level of the cell all the way down to the single chromatin fiber. Here we present recent examples of how this rapidly expanding palette of chemical tools is being used to paint a detailed picture of chromatin function in organism development and disease.

  17. An all-atom model of the chromatin fiber containing linker histones reveals a versatile structure tuned by the nucleosomal repeat length.

    Directory of Open Access Journals (Sweden)

    Hua Wong

    Full Text Available In the nucleus of eukaryotic cells, histone proteins organize the linear genome into a functional and hierarchical architecture. In this paper, we use the crystal structures of the nucleosome core particle, B-DNA and the globular domain of H5 linker histone to build the first all-atom model of compact chromatin fibers. In this 3D jigsaw puzzle, DNA bending is achieved by solving an inverse kinematics problem. Our model is based on recent electron microscopy measurements of reconstituted fiber dimensions. Strikingly, we find that the chromatin fiber containing linker histones is a polymorphic structure. We show that different fiber conformations are obtained by tuning the linker histone orientation at the nucleosomes entry/exit according to the nucleosomal repeat length. We propose that the observed in vivo quantization of nucleosomal repeat length could reflect nature's ability to use the DNA molecule's helical geometry in order to give chromatin versatile topological and mechanical properties.

  18. scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells.

    Science.gov (United States)

    Clark, Stephen J; Argelaguet, Ricard; Kapourani, Chantriolnt-Andreas; Stubbs, Thomas M; Lee, Heather J; Alda-Catalinas, Celia; Krueger, Felix; Sanguinetti, Guido; Kelsey, Gavin; Marioni, John C; Stegle, Oliver; Reik, Wolf

    2018-02-22

    Parallel single-cell sequencing protocols represent powerful methods for investigating regulatory relationships, including epigenome-transcriptome interactions. Here, we report a single-cell method for parallel chromatin accessibility, DNA methylation and transcriptome profiling. scNMT-seq (single-cell nucleosome, methylation and transcription sequencing) uses a GpC methyltransferase to label open chromatin followed by bisulfite and RNA sequencing. We validate scNMT-seq by applying it to differentiating mouse embryonic stem cells, finding links between all three molecular layers and revealing dynamic coupling between epigenomic layers during differentiation.

  19. Single-fiber multi-color pyrometry

    Science.gov (United States)

    Small, IV, Ward; Celliers, Peter

    2000-01-01

    This invention is a fiber-based multi-color pyrometry set-up for real-time non-contact temperature and emissivity measurement. The system includes a single optical fiber to collect radiation emitted by a target, a reflective rotating chopper to split the collected radiation into two or more paths while modulating the radiation for lock-in amplification (i.e., phase-sensitive detection), at least two detectors possibly of different spectral bandwidths with or without filters to limit the wavelength regions detected and optics to direct and focus the radiation onto the sensitive areas of the detectors. A computer algorithm is used to calculate the true temperature and emissivity of a target based on blackbody calibrations. The system components are enclosed in a light-tight housing, with provision for the fiber to extend outside to collect the radiation. Radiation emitted by the target is transmitted through the fiber to the reflective chopper, which either allows the radiation to pass straight through or reflects the radiation into one or more separate paths. Each path includes a detector with or without filters and corresponding optics to direct and focus the radiation onto the active area of the detector. The signals are recovered using lock-in amplification. Calibration formulas for the signals obtained using a blackbody of known temperature are used to compute the true temperature and emissivity of the target. The temperature range of the pyrometer system is determined by the spectral characteristics of the optical components.

  20. Power budget analysis of dual/single feeder fiber WDMPON

    Science.gov (United States)

    Imtiaz, Waqas A.; Khan, Yousaf; Qamar, Affaq; Khan, Jehanzeb; Khan, Noaman Ahmed

    2014-03-01

    This paper investigates how to reduce the cost of wavelength division multiplexing passive optical network (WDMPON) by comparing the transmission performance of bidirectional single feeder fiber and dual feeder fiber. Comparison is performed on the basis of power budgeting and cost of both arrangements. Simulation results using Optisystem show that the performance of a single feeder fiber is almost equivalent to that of a dual feeder fiber. Therefore, the single feeder fiber WDM-PON can efficiently replace the dual feeder fiber WDM-PON with the minimum deterioration in system performance and reduction in cost.

  1. Chromatin is wonderful stuff.

    NARCIS (Netherlands)

    van Driel, R.

    2007-01-01

    Chromatin molecules have properties that set them aside from all other biomacromolecules in the cell. (i) Chromosomes, which are single chromatin molecules, are the largest macromolecules in eukaryotic cells. (ii) Chromatin molecules carry the cell's genetic and epigenetic information and all

  2. Research status of large mode area single polarization active fiber

    Science.gov (United States)

    Xiao, Chun; Zhang, Ge; Yang, Bin-hua; Cheng, Wei-feng; Gu, Shao-yi

    2018-03-01

    As high power fiber laser used more and more widely, to increase the output power of fiber laser and beam quality improvement have become an important goal for the development of high power fiber lasers. The use of large mode fiber is the most direct and effective way to solve the nonlinear effect and fiber damage in the fiber laser power lifting process. In order to reduce the effect of polarization of the fiber laser system, the study found that when introduces a birefringence in the single-mode fiber, the polarization state changes caused by the birefringence is far greater than the random polarization state changes, then the external disturbance is completely submerged, finally the polarization can be controlled and stabilized. Through the fine design of the fiber structure, if the birefringence is high enough to achieve the separation of the two polarization states, the fiber will have a different cut-off mechanism to eliminate polarization which is not need, which will realize single mode single polarization transmission in a band. In this paper, different types of single polarization fiber design are presented and the application of these fibers are also discussed.

  3. Single Muscle Fiber Proteomics Reveals Fiber-Type-Specific Features of Human Muscle Aging

    Directory of Open Access Journals (Sweden)

    Marta Murgia

    2017-06-01

    Full Text Available Skeletal muscle is a key tissue in human aging, which affects different muscle fiber types unequally. We developed a highly sensitive single muscle fiber proteomics workflow to study human aging and show that the senescence of slow and fast muscle fibers is characterized by diverging metabolic and protein quality control adaptations. Whereas mitochondrial content declines with aging in both fiber types, glycolysis and glycogen metabolism are upregulated in slow but downregulated in fast muscle fibers. Aging mitochondria decrease expression of the redox enzyme monoamine oxidase A. Slow fibers upregulate a subset of actin and myosin chaperones, whereas an opposite change happens in fast fibers. These changes in metabolism and sarcomere quality control may be related to the ability of slow, but not fast, muscle fibers to maintain their mass during aging. We conclude that single muscle fiber analysis by proteomics can elucidate pathophysiology in a sub-type-specific manner.

  4. Growth of single-crystal YAG fiber optics.

    Science.gov (United States)

    Nie, Craig D; Bera, Subhabrata; Harrington, James A

    2016-07-11

    Single-crystal YAG (Y3Al5O12) fibers have been grown by the laser heated pedestal growth technique with losses as low as 0.3 dB/m at 1.06 μm. These YAG fibers are as long as about 60 cm with diameters around 330 μm. The early fibers were grown from unoriented YAG seed fibers and these fibers exhibited facet steps or ridges on the surface of the fiber. However, recently we have grown fibers using an oriented seed to grow step-free fibers. Scattering losses made on the fibers indicate that the scattering losses are equal to about 30% of the total loss.

  5. Mechanical Properties of a Single Electrospun Fiber and its Structures

    NARCIS (Netherlands)

    Gu, S.; Gu, Shuying; Wu, Qi-Lin; Ren, Jie; Vancso, Gyula J.

    2005-01-01

    A method to measure the Young's modulus of a single electrospun polyacrylonitrile (PAN) fiber is reported. The Young's modulus can be calculated from the force-displacement curves obtained by the bending of a single fiber attached to an atomic force microscopy (AFM) cantilever. It is suggested that

  6. A method for determination of muscle fiber diameter using single fiber potential (SFP) analysis.

    Science.gov (United States)

    Zalewska, Ewa; Nandedkar, Sanjeev D; Hausmanowa-Petrusewicz, Irena

    2012-12-01

    We have used computer simulation to study the relationship between the muscle fiber diameter and parameters: peak-to-peak amplitude and duration of the negative peak of the muscle fiber action potential. We found that the negative peak duration is useful in the determination of fiber diameter via the diameter dependence of conduction velocity. We have shown a direct link between the underlying physiology and the measurements characterizing single fiber potential. Using data from simulations, a graphical tool and an analytical method to estimate the muscle fiber diameter from the recorded action potential has been developed. The ability to quantify the fiber diameter can add significantly to the single fiber electromyography examination. It may help study of muscle fiber diameter variability and thus compliment the muscle biopsy studies.

  7. 4-D single particle tracking of synthetic and proteinaceous microspheres reveals preferential movement of nuclear particles along chromatin - poor tracks.

    Science.gov (United States)

    Bacher, Christian P; Reichenzeller, Michaela; Athale, Chaitanya; Herrmann, Harald; Eils, Roland

    2004-11-23

    The dynamics of nuclear organization, nuclear bodies and RNPs in particular has been the focus of many studies. To understand their function, knowledge of their spatial nuclear position and temporal translocation is essential. Typically, such studies generate a wealth of data that require novel methods in image analysis and computational tools to quantitatively track particle movement on the background of moving cells and shape changing nuclei. We developed a novel 4-D image processing platform (TIKAL) for the work with laser scanning and wide field microscopes. TIKAL provides a registration software for correcting global movements and local deformations of cells as well as 2-D and 3-D tracking software. With this new tool, we studied the dynamics of two different types of nuclear particles, namely nuclear bodies made from GFP-NLS-vimentin and microinjected 0.1 mum - wide polystyrene beads, by live cell time-lapse microscopy combined with single particle tracking and mobility analysis. We now provide a tool for the automatic 3-D analysis of particle movement in parallel with the acquisition of chromatin density data. Kinetic analysis revealed 4 modes of movement: confined obstructed, normal diffusion and directed motion. Particle tracking on the background of stained chromatin revealed that particle movement is directly related to local reorganization of chromatin. Further a direct comparison of particle movement in the nucleoplasm and the cytoplasm exhibited an entirely different kinetic behaviour of vimentin particles in both compartments. The kinetics of nuclear particles were slightly affected by depletion of ATP and significantly disturbed by disruption of actin and microtubule networks. Moreover, the hydration state of the nucleus had a strong impact on the mobility of nuclear bodies since both normal diffusion and directed motion were entirely abolished when cells were challenged with 0.6 M sorbitol. This effect correlated with the compaction of chromatin

  8. In-Line Fiber Optic Interferometric Sensors in Single-Mode Fibers

    OpenAIRE

    De-Wen Duan; Min Liu; Di Wu; Tao Zhu

    2012-01-01

    In-line fiber optic interferometers have attracted intensive attention for their potential sensing applications in refractive index, temperature, pressure and strain measurement, etc. Typical in-line fiber-optic interferometers are of two types: Fabry-Perot interferometers and core-cladding-mode interferometers. It’s known that the in-line fiber optic interferometers based on single-mode fibers can exhibit compact structures, easy fabrication and low cost. In this paper, ...

  9. [Extending the capabilities of human chromosome analysis: from high-resolution banding to chromatin fiber-FISH].

    Science.gov (United States)

    Ikeuchi, T

    1997-06-01

    obtained by utilizing free chromatin DNA fibers released from interphase nuclei as a hybrization target. The FISH signals on the chromatin fiber preparations are shown to be "linear", unlike the standard FISH signals that have a "dot" appearance, and the resolution attainable should be comparable to analysis of a straight DNA double helix itself. The degree of resolution in the so-called fiber-FISH method ranges from a few to 300 kb, and thus the method can readily be applied to the high-resolution assessment of ordering and overlapping of isolated DNA clones from a specific chromosome region, as well as sizing of gaps between the clones. Fiber-FISH may prove most valuable for the precise determination of breakpoints at the kilobase level, and also for identifying minute deletions and duplications. By presenting some examples of our own recent works, this review attempts to summarize the current contribution of the above strategies in mediating the two separate ranges of resolution achieved by the classical chromosome and molecular DNA analyses.

  10. Testing Procedure for the Single Fiber Fragmentation Test

    DEFF Research Database (Denmark)

    Feih, Stefanie; Wonsyld, Karen; Minzari, Daniel

    , specimens with one E-glass fiber placed inside an epoxy or polyester matrix were used. Elongating the specimens with a mini tensile tester, which was placed under a microscope, leads to fiber fragmentations. Different bonding strengths between fiber and matrix result in differences in the critical fracture......This report describes the details of the single fiber fragmentation test as conducted at the materials research department (AFM) at Risø. The equipment and specimen manufacture is described in detail. Furthermore, examples of results interpretation are given. For the experiments in this report...... length for the fiber and fracture characteristics....

  11. Single muscle fiber proteomics reveals unexpected mitochondrial specialization

    DEFF Research Database (Denmark)

    Murgia, Marta; Nagaraj, Nagarjuna; Deshmukh, Atul S

    2015-01-01

    Mammalian skeletal muscles are composed of multinucleated cells termed slow or fast fibers according to their contractile and metabolic properties. Here, we developed a high-sensitivity workflow to characterize the proteome of single fibers. Analysis of segments of the same fiber by traditional...... and unbiased proteomics methods yielded the same subtype assignment. We discovered novel subtype-specific features, most prominently mitochondrial specialization of fiber types in substrate utilization. The fiber type-resolved proteomes can be applied to a variety of physiological and pathological conditions...

  12. Method for rapid multidiameter single-fiber reflectance and fluorescence spectroscopy through a fiber bundle

    NARCIS (Netherlands)

    Amelink, A.; Hoy, C.L.; Gamm, U.A.; Sterenborg, H.J.C.M.; Robinson, D.J.

    2014-01-01

    We have recently demonstrated a means for quantifying the absorption and scattering properties of biological tissue through multidiameter single-fiber reflectance (MDSFR) spectroscopy. These measurements can be used to correct single-fiber fluorescence (SFF) spectra for the influence of optical

  13. Single-mode annular chirally-coupled core fibers for fiber lasers

    Science.gov (United States)

    Zhang, Haitao; Hao, He; He, Linlu; Gong, Mali

    2018-03-01

    Chirally-coupled core (CCC) fiber can transmit single fundamental mode and effectively suppresses higher-order mode (HOM) propagation, thus improve the beam quality. However, the manufacture of CCC fiber is complicated due to its small side core. To decrease the manufacture difficulty in China, a novel fiber structure is presented, defined as annular chirally-coupled core (ACCC) fiber, replacing the small side core by a larger side annulus. In this paper, we designed the fiber parameters of this new structure, and demonstrated that the new structure has a similar property of single mode with traditional CCC fiber. Helical coordinate system was introduced into the finite element method (FEM) to analyze the mode field in the fiber, and the beam propagation method (BPM) was employed to analyze the influence of the fiber parameters on the mode loss. Based on the result above, the fiber structure was optimized for efficient single-mode transmission, in which the core diameter is 35 μm with beam quality M2 value of 1.04 and an optical to optical conversion efficiency of 84%. In this fiber, fundamental mode propagates in an acceptable loss, while the HOMs decay rapidly.

  14. 1.26 Single Frequency Fiber Laser, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — This proposal is for the development of an innovative compact, high power, and extremely reliable 1.26 micron Ho-doped single frequency fiber laser. The proposed...

  15. 1.26 Single Frequency Fiber Laser, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — This proposal is for the development of an innovative compact, high power, and extremely reliable 1.26 micron Ho-doped single frequency fiber laser. The proposed...

  16. Mitochondrial specialization revealed by single muscle fiber proteomics

    DEFF Research Database (Denmark)

    Schiaffino, S; Reggiani, C; Kostrominova, T Y

    2015-01-01

    that in skeletal muscle, IDH2 functions in the forward direction of the Krebs cycle and that substrate flux along the cycle occurs predominantly via IDH2 in type 1 fibers and via IDH3 in 2X and 2B fibers. IDH2-mediated conversion of isocitrate to α-ketoglutarate leads to the generation of NADPH, which is critical......We have developed a highly sensitive mass spectrometry-based proteomic workflow to examine the proteome of single muscle fibers. This study revealed significant differences in the mitochondrial proteome of the four major fiber types present in mouse skeletal muscle. Here, we focus on Krebs cycle...... enzymes and in particular on the differential distribution of the two mitochondrial isocitrate dehydrogenases, IDH2 and IDH3. Type 1/slow fibers contain high levels of IDH2 and relatively low levels of IDH3, whereas fast 2X and 2B fibers show an opposite expression pattern. The findings suggest...

  17. Optical characteristics of modified fiber tips in single fiber, laser Doppler flowmetry

    Science.gov (United States)

    Oberg, P. Ake; Cai, Hongming; Rohman, Hakan; Larsson, Sven-Erik

    1994-02-01

    Percutaneous laser Doppler flowmetry (LDF) and bipolar surface electromyography (EMG) were used simultaneously for measurement of skeletal muscle (trapezius) perfusion in relation to static load and fatigue. On-line computer (386 SX) processing of the LDF- and EMG- signals made possible interpretation of the relationship between the perfusion and the activity of the muscle. The single fiber laser Doppler technique was used in order to minimize the trauma. A ray-tracing program was developed in the C language by which the optical properties of the fiber and fiber ends could be simulated. Isoirradiance graphs were calculated for three fiber end types and the radiance characteristics were measured for each fiber end. The three types of fiber-tips were evaluated and compared in flow model measurements.

  18. Reprogramming chromatin

    DEFF Research Database (Denmark)

    Ehrensberger, Andreas Hasso; Svejstrup, Jesper Qualmann

    2012-01-01

    attributed to high kinetic barriers that affect all cells equally and can only be overcome by rare stochastic events. The barriers to reprogramming are likely to involve transformations of chromatin state because (i) inhibitors of chromatin-modifying enzymes can enhance the efficiency of reprogramming...... and (ii) knockdown or knock-out of chromatin-modifying enzymes can lower the efficiency of reprogramming. Here, we review the relationship between chromatin state transformations (chromatin reprogramming) and cellular reprogramming, with an emphasis on transcription factors, chromatin remodeling factors...

  19. Mid-infrared performance of single mode chalcogenide fibers

    Science.gov (United States)

    Cook, Justin; Sincore, Alex; Tan, Felix; El Halawany, Ahmed; Riggins, Anthony; Shah, Lawrence; Abouraddy, Ayman F.; Richardson, Martin C.; Schepler, Kenneth L.

    2018-02-01

    Due to the intrinsic absorption edge in silica near 2.4 μm, more exotic materials are required to transmit laser power in the IR such as fluoride or chalcogenide glasses (ChGs). In particular, ChG fibers offer broad IR transmission with low losses fibers at four different infrared wavelengths: 2053 nm, 2520 nm and 4550 nm. Polymer clad ChG fibers were drawn with 12.3 μm and 25 μm core diameters. Testing at 2053 nm was accomplished using a > 15 W, CW Tm:fiber laser. Power handling up to 10.2 W with single mode beam quality has been demonstrated, limited only by the available Tm:fiber output power. Anti-reflective coatings were successfully deposited on the ChG fiber facets, allowing up to 90.6% transmission with 12.2 MW/cm2 intensity on the facet. Single mode guidance at 4550 nm was also demonstrated using a quantum cascade laser (QCL). A custom optical system was constructed to efficiently couple the 0.8 NA QCL radiation into the 0.2 NA ChG fiber, allowing for a maximum of 78% overlap between the QCL radiation and fundamental mode of the fiber. With an AR-coated, 25 μm core diameter fiber, >50 mW transmission was demonstrated with > 87% transmission. Finally, we present results on fiber coupling from a free space Cr:ZnSe resonator at 2520 nm.

  20. Tunable single-longitudinal-mode fiber optical parametric oscillator.

    Science.gov (United States)

    Yang, Sigang; Cheung, Kim K Y; Zhou, Yue; Wong, Kenneth K Y

    2010-02-15

    A tunable single-longitudinal-mode (SLM) fiber optical parametric oscillator (FOPO) is proposed and demonstrated experimentally. A sub-ring cavity with a short cavity length is used to suppress the longitudinal modes and broaden the longitudinal mode spacing. A fiber loop mirror, consisted of an unpumped erbium-doped fiber, acts as an autotracking filter for providing fine mode restriction and ensuring the single-frequency operation. The measurement based on a homodyne method shows that the FOPO provides the SLM output. Furthermore the SLM FOPO can be tunable over 14 nm for each of the signal and the idler, which is limited only by the gain bandwidth of the fiber optical parametric amplifier.

  1. Single-shot polarimetry imaging of multicore fiber.

    Science.gov (United States)

    Sivankutty, Siddharth; Andresen, Esben Ravn; Bouwmans, Géraud; Brown, Thomas G; Alonso, Miguel A; Rigneault, Hervé

    2016-05-01

    We report an experimental test of single-shot polarimetry applied to the problem of real-time monitoring of the output polarization states in each core within a multicore fiber bundle. The technique uses a stress-engineered optical element, together with an analyzer, and provides a point spread function whose shape unambiguously reveals the polarization state of a point source. We implement this technique to monitor, simultaneously and in real time, the output polarization states of up to 180 single-mode fiber cores in both conventional and polarization-maintaining fiber bundles. We demonstrate also that the technique can be used to fully characterize the polarization properties of each individual fiber core, including eigen-polarization states, phase delay, and diattenuation.

  2. Single-mode optical-waveguide fiber coupler.

    Science.gov (United States)

    Noda, J; Mikami, O; Minakata, M; Fukuma, M

    1978-07-01

    A single-mode fiber coupler to the Ti diffused LiNbO(3) strip waveguide has been devised. The influences of three axial displacements and two angular misalignments on the coupling efficiency have been investigated at 6328-A wavelength. The coupler has a special feature wherein coupling degradation caused by fiber displacement after connection can be recovered to the initial state. The total optical insertion loss is 3 dB after fixing the fiber to the LiNbO(3) strip waveguide, which is 4 microm wide and 8 mm long.

  3. Electrically tunable Brillouin fiber laser based on a metal-coated single-mode optical fiber

    Directory of Open Access Journals (Sweden)

    S.M. Popov

    Full Text Available We explore tunability of the Brillouin fiber laser employing Joule heating. For this purpose, 10-m-length of a metal-coated single-mode optical cavity fiber has been directly included into an electrical circuit, like a conductor wire. With the current up to ∼3.5 A the laser tuning is demonstrated over a spectrum range of ∼400 MHz. The observed laser line broadening up to ∼2 MHz is explained by frequency drift and mode-hoping in the laser caused by thermal noise. Keywords: Brillouin fiber laser, Metal-coated optical fiber, Laser tuning, Fiber sensors

  4. Single-mode multicore fiber for dense space division multiplexing

    DEFF Research Database (Denmark)

    Sasaki, Yusuke; Amma, Yoshimichi; Takenaga, Katsuhiro

    2016-01-01

    Single-mode multicore fiber (SM-MCF) is attractive for high-capacity transmission. Our fabricated SM-MCFs achieve high core count and low crosstalk with a cladding diameter of 230 µm. Characteristics of fan-in/fan-out for the SM-MCFs are also investigated....

  5. Frequency-Locked Single-Frequency Fiber Laser at 2 Micron, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — Based on our proprietary fiber technology and extensive experience in fiber laser development, a new single-frequency 2μm fiber laser source will be developed. The...

  6. Mode Selection for a Single-Frequency Fiber Laser

    Science.gov (United States)

    Liu, Jian

    2010-01-01

    A superstructured fiber-grating-based mode selection filter for a single-frequency fiber laser eliminates all free-space components, and makes the laser truly all-fiber. A ring cavity provides for stable operations in both frequency and power. There is no alignment or realignment required. After the fibers and components are spliced together and packaged, there is no need for specially trained technicians for operation or maintenance. It can be integrated with other modules, such as telescope systems, without extra optical alignment due to the flexibility of the optical fiber. The filter features a narrow line width of 1 kHz and side mode suppression ratio of 65 dB. It provides a high-quality laser for lidar in terms of coherence length and signal-to-noise ratio, which is 20 dB higher than solid-state or microchip lasers. This concept is useful in material processing, medical equipment, biomedical instrumentation, and optical communications. The pulse-shaping fiber laser can be directly used in space, airborne, and satellite applications including lidar, remote sensing, illuminators, and phase-array antenna systems.

  7. Self-healing in single and multiple fiber(s reinforced polymer composites

    Directory of Open Access Journals (Sweden)

    Woldesenbet E.

    2010-06-01

    Full Text Available You Polymer composites have been attractive medium to introduce the autonomic healing concept into modern day engineering materials. To date, there has been significant research in self-healing polymeric materials including several studies specifically in fiber reinforced polymers. Even though several methods have been suggested in autonomic healing materials, the concept of repair by bleeding of enclosed functional agents has garnered wide attention by the scientific community. A self-healing fiber reinforced polymer composite has been developed. Tensile tests are carried out on specimens that are fabricated by using the following components: hollow and solid glass fibers, healing agent, catalysts, multi-walled carbon nanotubes, and a polymer resin matrix. The test results have demonstrated that single fiber polymer composites and multiple fiber reinforced polymer matrix composites with healing agents and catalysts have provided 90.7% and 76.55% restoration of the original tensile strength, respectively. Incorporation of functionalized multi-walled carbon nanotubes in the healing medium of the single fiber polymer composite has provided additional efficiency. Healing is found to be localized, allowing multiple healing in the presence of several cracks.

  8. Single-cell Hi-C for genome-wide detection of chromatin interactions that occur simultaneously in a single cell.

    Science.gov (United States)

    Nagano, Takashi; Lubling, Yaniv; Yaffe, Eitan; Wingett, Steven W; Dean, Wendy; Tanay, Amos; Fraser, Peter

    2015-12-01

    Hi-C is a powerful method that provides pairwise information on genomic regions in spatial proximity in the nucleus. Hi-C requires millions of cells as input and, as genome organization varies from cell to cell, a limitation of Hi-C is that it only provides a population average of genome conformations. We developed single-cell Hi-C to create snapshots of thousands of chromatin interactions that occur simultaneously in a single cell. To adapt Hi-C to single-cell analysis, we modified the protocol to include in-nucleus ligation. This enables the isolation of single nuclei carrying Hi-C-ligated DNA into separate tubes, followed by reversal of cross-links, capture of biotinylated ligation junctions on streptavidin-coated magnetic beads and PCR amplification of single-cell Hi-C libraries. The entire laboratory protocol can be carried out in 1 week, and although we have demonstrated its use in mouse T helper (TH1) cells, it should be applicable to any cell type or species for which standard Hi-C has been successful. We also developed an analysis pipeline to filter noise and assess the quality of data sets in a few hours. Although the interactome maps produced by single-cell Hi-C are sparse, the data provide useful information to understand cellular variability in nuclear genome organization and chromosome structure. Standard wet and dry laboratory skills in molecular biology and computational analysis are required.

  9. Chromatin dynamics resolved with force spectroscopy

    NARCIS (Netherlands)

    Chien, Fan-Tso

    2011-01-01

    In eukaryotic cells, genomic DNA is organized in chromatin fibers composed of nucleosomes as structural units. A nucleosome contains 1.7 turns of DNA wrapped around a histone octamer and is connected to the adjacent nucleosomes with linker DNA. The folding of chromatin fibers effectively increases

  10. Single muscle fiber gene expression with run taper.

    Directory of Open Access Journals (Sweden)

    Kevin Murach

    Full Text Available This study evaluated gene expression changes in gastrocnemius slow-twitch myosin heavy chain I (MHC I and fast-twitch (MHC IIa muscle fibers of collegiate cross-country runners (n = 6, 20±1 y, VO₂max = 70±1 ml•kg-1•min-1 during two distinct training phases. In a controlled environment, runners performed identical 8 kilometer runs (30:18±0:30 min:s, 89±1% HRmax while in heavy training (∼72 km/wk and following a 3 wk taper. Training volume during the taper leading into peak competition was reduced ∼50% which resulted in improved race times and greater cross-section and improved function of MHC IIa fibers. Single muscle fibers were isolated from pre and 4 hour post run biopsies in heavily trained and tapered states to examine the dynamic acute exercise response of the growth-related genes Fibroblast growth factor-inducible 14 (FN14, Myostatin (MSTN, Heat shock protein 72 (HSP72, Muscle ring-finger protein-1 (MURF1, Myogenic factor 6 (MRF4, and Insulin-like growth factor 1 (IGF1 via qPCR. FN14 increased 4.3-fold in MHC IIa fibers with exercise in the tapered state (P<0.05. MSTN was suppressed with exercise in both fiber types and training states (P<0.05 while MURF1 and HSP72 responded to running in MHC IIa and I fibers, respectively, regardless of training state (P<0.05. Robust induction of FN14 (previously shown to strongly correlate with hypertrophy and greater overall transcriptional flexibility with exercise in the tapered state provides an initial molecular basis for fast-twitch muscle fiber performance gains previously observed after taper in competitive endurance athletes.

  11. Measuring mitochondrial respiration in intact single muscle fibers.

    Science.gov (United States)

    Schuh, Rosemary A; Jackson, Kathryn C; Khairallah, Ramzi J; Ward, Christopher W; Spangenburg, Espen E

    2012-03-15

    Measurement of mitochondrial function in skeletal muscle is a vital tool for understanding regulation of cellular bioenergetics. Currently, a number of different experimental approaches are employed to quantify mitochondrial function, with each involving either mechanically or chemically induced disruption of cellular membranes. Here, we describe a novel approach that allows for the quantification of substrate-induced mitochondria-driven oxygen consumption in intact single skeletal muscle fibers isolated from adult mice. Specifically, we isolated intact muscle fibers from the flexor digitorum brevis muscle and placed the fibers in culture conditions overnight. We then quantified oxygen consumption rates using a highly sensitive microplate format. Peak oxygen consumption rates were significantly increased by 3.4-fold and 2.9-fold by simultaneous stimulation with the uncoupling agent, carbonyl cyanide p-(trifluoromethoxy)phenylhydrazone (FCCP), and/or pyruvate or palmitate exposure, respectively. However, when calculating the total oxygen consumed over the entire treatment, palmitate exposure resulted in significantly more oxygen consumption compared with pyruvate. Further, as proof of principle for the procedure, we isolated fibers from the mdx mouse model, which has known mitochondrial deficits. We found significant reductions in initial and peak oxygen consumption of 51% and 61% compared with fibers isolated from the wild-type (WT) animals, respectively. In addition, we determined that fibers isolated from mdx mice exhibited less total oxygen consumption in response to the FCCP + pyruvate stimulation compared with the WT mice. This novel approach allows the user to make mitochondria-specific measures in a nondisrupted muscle fiber that has been isolated from a whole muscle.

  12. Structural changes in single chromatin fibers induced by tension and torsion

    NARCIS (Netherlands)

    Meng, He

    2014-01-01

    Since the discovery of the right-handed helical structure of DNA, 61 years have passed. The DNA molecule, which encodes genetic information, is also found twisted into coils. This extra twist of the helical structure, called supercoiling, plays important roles in both DNA compaction and gene

  13. Fiber-optic anemometer based on single-walled carbon nanotube coated tilted fiber Bragg grating.

    Science.gov (United States)

    Zhang, Yang; Wang, Fang; Liu, Zigeng; Duan, Zhihui; Cui, Wenli; Han, Jie; Gu, Yiying; Wu, Zhenlin; Jing, Zhenguo; Sun, Changsen; Peng, Wei

    2017-10-02

    In this work, a novel and simple optical fiber hot-wire anemometer based on single-walled carbon nanotubes (SWCNTs) coated tilted fiber Bragg grating (TFBG) is proposed and demonstrated. For the hot-wire wind speed sensor design, TFBG is an ideal in-fiber sensing structure due to its unique features. It is utilized as both light coupling and temperature sensing element without using any geometry-modified or uncommon fiber, which simplifies the sensor structure. To further enhance the thermal conversion capability, SWCNTs are coated on the surface of the TFBG instead of traditional metallic materials, which have excellent thermal characteristics. When a laser light is pumped into the sensor, the pump light propagating in the core will be easily coupled into cladding of the fiber via the TFBG and strongly absorbed by the SWCNTs thin film. This absorption acts like a hot-wire raising the local temperature of the fiber, which is accurately detected by the TFBG resonance shift. In the experiments, the sensor's performances were investigated and controlled by adjusting the inherent angle of the TFBG, the thickness of SWCNTs film, and the input power of the pump laser. It was demonstrated that the developed anemometer exhibited significant light absorption efficiency up to 93%, and the maximum temperature of the local area on the fiber was heated up to 146.1°C under the relatively low pump power of 97.76 mW. The sensitivity of -0.3667 nm/(m/s) at wind speed of 1.0 m/s was measured with the selected 12° TFBG and 1.6 μm film.

  14. 1540-nm single frequency single-mode pulsed all fiber laser for coherent Doppler lidar

    Science.gov (United States)

    Zhang, Xin; Diao, Weifeng; Liu, Yuan; Liu, Jiqiao; Hou, Xia; Chen, Weibiao

    2015-02-01

    A single-mode single frequency eye-safe pulsed all fiber laser based on master oscillator power amplification structure is presented. This laser is composed of a narrow linewidth distributed laser diode seed laser and two-stage cascade amplifiers. 0.8 m longitudinally gradient strained erbium/ytterbium co-doped polarization-maintaining fiber with a core diameter of 10 μm is used as the gain fiber and two acoustic-optics modulators are adopted to enhance pulse extinction ratio. A peak power of 160 W and a pulse width of 200 ns at 10 kHz repetition rate are achieved with transform-limited linewidth and diffraction-limited beam quality. This laser will be employed in a compact short range coherent Doppler wind lidar.

  15. 4-D single particle tracking of synthetic and proteinaceous microspheres reveals preferential movement of nuclear particles along chromatin – poor tracks

    Directory of Open Access Journals (Sweden)

    Athale Chaitanya

    2004-11-01

    Full Text Available Abstract Background The dynamics of nuclear organization, nuclear bodies and RNPs in particular has been the focus of many studies. To understand their function, knowledge of their spatial nuclear position and temporal translocation is essential. Typically, such studies generate a wealth of data that require novel methods in image analysis and computational tools to quantitatively track particle movement on the background of moving cells and shape changing nuclei. Results We developed a novel 4-D image processing platform (TIKAL for the work with laser scanning and wide field microscopes. TIKAL provides a registration software for correcting global movements and local deformations of cells as well as 2-D and 3-D tracking software. With this new tool, we studied the dynamics of two different types of nuclear particles, namely nuclear bodies made from GFP-NLS-vimentin and microinjected 0.1 μm – wide polystyrene beads, by live cell time-lapse microscopy combined with single particle tracking and mobility analysis. We now provide a tool for the automatic 3-D analysis of particle movement in parallel with the acquisition of chromatin density data. Conclusions Kinetic analysis revealed 4 modes of movement: confined obstructed, normal diffusion and directed motion. Particle tracking on the background of stained chromatin revealed that particle movement is directly related to local reorganization of chromatin. Further a direct comparison of particle movement in the nucleoplasm and the cytoplasm exhibited an entirely different kinetic behaviour of vimentin particles in both compartments. The kinetics of nuclear particles were slightly affected by depletion of ATP and significantly disturbed by disruption of actin and microtubule networks. Moreover, the hydration state of the nucleus had a strong impact on the mobility of nuclear bodies since both normal diffusion and directed motion were entirely abolished when cells were challenged with 0.6 M

  16. 4-D single particle tracking of synthetic and proteinaceous microspheres reveals preferential movement of nuclear particles along chromatin – poor tracks

    Science.gov (United States)

    Bacher, Christian P; Reichenzeller, Michaela; Athale, Chaitanya; Herrmann, Harald; Eils, Roland

    2004-01-01

    Background The dynamics of nuclear organization, nuclear bodies and RNPs in particular has been the focus of many studies. To understand their function, knowledge of their spatial nuclear position and temporal translocation is essential. Typically, such studies generate a wealth of data that require novel methods in image analysis and computational tools to quantitatively track particle movement on the background of moving cells and shape changing nuclei. Results We developed a novel 4-D image processing platform (TIKAL) for the work with laser scanning and wide field microscopes. TIKAL provides a registration software for correcting global movements and local deformations of cells as well as 2-D and 3-D tracking software. With this new tool, we studied the dynamics of two different types of nuclear particles, namely nuclear bodies made from GFP-NLS-vimentin and microinjected 0.1 μm – wide polystyrene beads, by live cell time-lapse microscopy combined with single particle tracking and mobility analysis. We now provide a tool for the automatic 3-D analysis of particle movement in parallel with the acquisition of chromatin density data. Conclusions Kinetic analysis revealed 4 modes of movement: confined obstructed, normal diffusion and directed motion. Particle tracking on the background of stained chromatin revealed that particle movement is directly related to local reorganization of chromatin. Further a direct comparison of particle movement in the nucleoplasm and the cytoplasm exhibited an entirely different kinetic behaviour of vimentin particles in both compartments. The kinetics of nuclear particles were slightly affected by depletion of ATP and significantly disturbed by disruption of actin and microtubule networks. Moreover, the hydration state of the nucleus had a strong impact on the mobility of nuclear bodies since both normal diffusion and directed motion were entirely abolished when cells were challenged with 0.6 M sorbitol. This effect correlated

  17. Investigation of the state of polarization of light in a single-mode fiber waveguide

    Science.gov (United States)

    Kozel, S. M.; Kreopalov, V. I.; Listvin, V. N.; Glavatskikh, N. A.

    1983-01-01

    An analysis is made of the polarization anisotropy of a single-mode fiber with a twisted elliptic core. The Jones matrix is obtained and the complex function of the state of polarization of light in a fiber is investigated. The results are reported of measurements of the linear and circular birefringence of a borosilicate single-mode glass fiber.

  18. SINGLE-CRYSTAL SAPPHIRE OPTICAL FIBER SENSOR INSTRUMENTATION

    Energy Technology Data Exchange (ETDEWEB)

    A. Wang; G. Pickrell; R. May

    2002-09-10

    In this research program, several optical instruments for high temperature measurement based on single crystal sapphire material are introduced and tested for real-time, reliable, long-term monitoring of temperatures for coal gasifier. These are sapphire fiber extrinsic Fabry-Perot interferometric (EFPI) sensor; intensity-measurement based polarimetric sapphire sensor and broadband polarimetric differential interferometric (BPDI) sapphire sensor. Based on current evaluation and analysis of the experimental results, the broadband polarimetric differential interferometric (BPDI) sensor system was chosen for further prototype instrumentation development. This approach is based on the self-calibrating measurement of optical path differences (OPD) in a single-crystal sapphire disk, which is a function of both the temperature dependent birefringence and the temperature dependent dimensional changes. The BPDI sensor system extracts absolute temperature information by absolute measurement of phase delays. By encoding temperature information in optical spectrum instead of optical intensity, this sensor guarantees its relative immunity to optical source power fluctuations and fiber losses, thus providing a high degree of long-term measurement stability which is highly desired in industrial applications. The entire prototype for BPDI system including the single crystal sapphire probe, zirconia prism, alumina extension tube, optical components and signal processing hardware and software have shown excellent performance in the laboratory experiments shown in this report.

  19. Optical tweezers stretching of chromatin

    NARCIS (Netherlands)

    Pope, L.H.; Bennink, Martin L.; Greve, Jan

    2003-01-01

    Recently significant success has emerged from exciting research involving chromatin stretching using optical tweezers. These experiments, in which a single chromatin fibre is attached by one end to a micron-sized bead held in an optical trap and to a solid surface or second bead via the other end,

  20. Optical access network using centralized light source, single-mode fiber + broad wavelength window multimode fiber

    Science.gov (United States)

    Yam, Scott S.-H.; Kim, Jaedon; Gutierrez, David; Achten, Frank

    2006-08-01

    Access networks based on a single-mode fiber (SMF) using a centralized light source (CLS) have attracted much attention recently due to their wavelength management flexibility and potential for cost reduction at customers' premises. Future networks, in addition, are likely to contain segments of multimode fiber (MMF), whose core dimension is relatively large in comparison with its single-mode counterpart, substantially reducing fiber alignment constraints and the subsequent network construction and installation cost. In this study, a CLS-based passive optical network (PON) is proposed, which will use a new generation of high-performance MMF optimized for a broad wavelength transmission window spanning from 1300to1550 nm, with a bandwidth distance product (BDP) of 40 Gbit/s-km. The proposed architecture is implemented in a test bed, and its performance is verified by bit error ratio (BER) measurement. Results show that we can implement high-performance CLS-based PONs containing both an SMF and an MMF infrastructure, simultaneously.

  1. Physical determinants of fibrinolysis in single fibrin fibers.

    Directory of Open Access Journals (Sweden)

    Igal Bucay

    Full Text Available Fibrin fibers form the structural backbone of blood clots; fibrinolysis is the process in which plasmin digests fibrin fibers, effectively regulating the size and duration of a clot. To understand blood clot dissolution, the influence of clot structure and fiber properties must be separated from the effects of enzyme kinetics and perfusion rates into clots. Using an inverted optical microscope and fluorescently-labeled fibers suspended between micropatterned ridges, we have directly measured the lysis of individual fibrin fibers. We found that during lysis 64 ± 6% of fibers were transected at one point, but 29 ± 3% of fibers increase in length rather than dissolving or being transected. Thrombin and plasmin dose-response experiments showed that the elongation behavior was independent of plasmin concentration, but was instead dependent on the concentration of thrombin used during fiber polymerization, which correlated inversely with fiber diameter. Thinner fibers were more likely to lyse, while fibers greater than 200 ± 30 nm in diameter were more likely to elongate. Because lysis rates were greatly reduced in elongated fibers, we hypothesize that plasmin activity depends on fiber strain. Using polymer physics- and continuum mechanics-based mathematical models, we show that fibers polymerize in a strained state and that thicker fibers lose their prestrain more rapidly than thinner fibers during lysis, which may explain why thick fibers elongate and thin fibers lyse. These results highlight how subtle differences in the diameter and prestrain of fibers could lead to dramatically different lytic susceptibilities.

  2. On the Adhesion performance of a single electrospun fiber

    Science.gov (United States)

    Baji, Avinash; Zhou, Limin; Mai, Yiu-Wing; Yang, Zhifang; Yao, Haimin

    2015-01-01

    The micro- and nano-scale fibrillar structures found on the feet of spiders and geckos function as adhesion devices which allow them to adhere to both molecularly smooth and rough surfaces. This adhesion has been argued to arise from intermolecular forces, such as van der Waals (vdW) force, acting at the interface between any two materials in contact. Thus, it is possible to mimic their adhesion using synthetic nanostructured analogs. Herein, we report the first successful pull-off force measurements on a single electrospun fiber and show the potential of using electrospinning to fabricate adhesive analogs. A single fiber is glued to the atomic force microscope cantilever, and its adhesion to a metal substrate is studied by recording the pull-off force/displacement curves. The measured adhesive force of ~18 nN matches closely that of their biological counterparts. Similar to natural structures, the adhesive mechanism of these electrospun structures is controlled by vdW interactions.

  3. Single and combinatorial chromatin coupling events underlies the function of transcript factor krüppel-like factor 11 in the regulation of gene networks

    Science.gov (United States)

    2014-01-01

    Background Krüppel-like factors (KLFs) are a group of master regulators of gene expression conserved from flies to human. However, scant information is available on either the mechanisms or functional impact of the coupling of KLF proteins to chromatin remodeling machines, a deterministic step in transcriptional regulation. Results and discussion In the current study, we use genome-wide analyses of chromatin immunoprecipitation (ChIP-on-Chip) and Affymetrix-based expression profiling to gain insight into how KLF11, a human transcription factor involved in tumor suppression and metabolic diseases, works by coupling to three co-factor groups: the Sin3-histone deacetylase system, WD40-domain containing proteins, and the HP1-histone methyltransferase system. Our results reveal that KLF11 regulates distinct gene networks involved in metabolism and growth by using single or combinatorial coupling events. Conclusion This study, the first of its type for any KLF protein, reveals that interactions with multiple chromatin systems are required for the full gene regulatory function of these proteins. PMID:24885560

  4. Tunable Single Frequency 2.054 Micron Fiber Laser Using New Ho-Doped Fiber, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — In this proposal, we propose to demonstrate and build a near 2 micron widely tunable, narrow linewidth, single frequency fiber laser by developing an innovative...

  5. Tunable Single Frequency 2.05 Micron Fiber Laser Using New Ho-Doped Fiber, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — In this proposal, we propose to demonstrate and build a widely tunable, narrow linewidth, single frequency fiber laser near 2.05 micron by developing an innovative...

  6. Picosecond chirped pulse compression in single-mode fibers

    International Nuclear Information System (INIS)

    Wenhua Cao; Youwei Zhang

    1995-01-01

    In this paper, the nonlinear propagation of picosecond chirped pulses in single mode fibers has been investigated both analytically and numerically. Results show that downchirped pulses can be compressed owing to normal group-velocity dispersion. The compression ratio depends both on the initial peak power and on the initial frequency chirp of the input pulse. While the compression ratio depends both on the initial peak power and on the initial frequency chirp of the input pulse. While the compression ratio increases with the negative frequency chirp, it decreases with the initial peak power of the input pulse. This means that the self-phase modulation induced nonlinear frequency chirp which is linear and positive (up-chirp) over a large central region of the pulse and tends to cancel the initial negative chirp of the pulse. It is also shown that, as the negative chirped pulse compresses temporally, it synchronously experiences a spectral narrowing

  7. Single mode step-index polymer optical fiber for humidity insensitive high temperature fiber Bragg grating sensors

    OpenAIRE

    Woyessa, Getinet; Fasano, Andrea; Stefani, Alessio; Markos, Christos; Nielsen, Kristian; Rasmussen, Henrik K.; Bang, Ole

    2016-01-01

    We have fabricated the first single-mode step-index and humidity insensitive polymer optical fiber operating in the 850 nm wavelength ranges. The step-index preform is fabricated using injection molding, which is an efficient method for cost effective, flexible and fast preparation of the fiber preform. The fabricated single-mode step-index (SI) polymer optical fiber (POF) has a 4.8µm core made from TOPAS grade 5013S-04 with a glass transition temperature of 134°C and a 150 µm cladding made f...

  8. Nanoparticle coated optical fibers for single microbubble generation

    Science.gov (United States)

    Pimentel-Domínguez, Reinher; Hernández-Cordero, Juan

    2011-09-01

    The study of bubbles and bubbly flows is important in various fields such as physics, chemistry, medicine, geophysics, and even the food industry. A wide variety of mechanical and acoustic techniques have been reported for bubble generation. Although a single bubble may be generated with these techniques, controlling the size and the mean lifetime of the bubble remains a difficult task. Most of the optical methods for generation of microbubbles involve high-power pulsed laser sources focused in absorbing media such as liquids or particle solutions. With these techniques, single micron-sized bubbles can be generated with typical mean lifetimes ranging from nano to microseconds. The main problem with these bubbles is their abrupt implosion: this produces a shock wave that can potentially produce damages on the surroundings. These effects have to be carefully controlled in biological applications and in laser surgery, but thus far, not many options are available to effectively control micron-size bubble growth. In this paper, we present a new technique to generate microbubbles in non-absorbing liquids. In contrast to previous reports, the proposed technique uses low-power and a CW radiation from a laser diode. The laser light is guided through an optical fiber whose output end has been coated with nanostructures. Upon immersing the tip of the fiber in ethanol or water, micron-size bubbles can be readily generated. With this technique, bubble growth can be controlled through adjustments on the laser power. We have obtained micron-sized bubbles with mean lifetimes in the range of seconds. Furthermore, the generated bubbles do not implode, as verified with a high-speed camera and flow visualization techniques.

  9. Single-mode hole-assisted fiber as a bending-loss insensitive fiber

    Science.gov (United States)

    Nakajima, Kazuhide; Shimizu, Tomoya; Matsui, Takashi; Fukai, Chisato; Kurashima, Toshio

    2010-12-01

    We investigate the design and characteristics of a single-mode and low bending loss HAF both numerically and experimentally. An air filling fraction S is introduced to enable us to design a HAF with desired characteristics more easily. We show that we can expect to realize a single-mode and low bending loss HAF by considering the S dependence of the bending loss α b and cutoff wavelength λ c as well as their relative index difference Δ dependence. We also show that the mode-field diameter (MFD) and chromatic dispersion characteristics of the single-mode and low bending loss HAF can be tailored by optimizing the distance between the core and the air holes. We also investigate the usefulness of the fabricated HAFs taking the directly modulated transmission and multipath interference (MPI) characteristics into consideration. We show that the designed HAF has sufficient applicability to both analog and digital transmission systems. Our results reveal that the single-mode and low bending loss HAF is beneficial in terms of developing a future fiber to the home (FTTH) network as well as for realizing flexible optical wiring.

  10. Evidence that single-stranded DNA breaks are a normal feature of koala sperm chromatin, while double-stranded DNA breaks are indicative of DNA damage.

    Science.gov (United States)

    Zee, Yeng Peng; López-Fernández, Carmen; Arroyo, F; Johnston, Stephen D; Holt, William V; Gosalvez, Jaime

    2009-08-01

    In this study, we have used single and double comet assays to differentiate between single- and double-stranded DNA damage in an effort to refine the interpretation of DNA damage in mature koala spermatozoa. We have also investigated the likelihood that single-stranded DNA breakage is part of the natural spermiogenic process in koalas, where its function would be the generation of structural bends in the DNA molecule so that appropriate packaging and compaction can occur. Koala spermatozoa were examined using the sperm chromatin dispersion test (SCDt) and comet assays to investigate non-orthodox double-stranded DNA. Comet assays were conducted under 1) neutral conditions; and 2) neutral followed by alkaline conditions (double comet assay); the latter technique enabled simultaneous visualisation of both single-stranded and double-stranded DNA breaks. Following the SCDt, there was a continuum of nuclear morphotypes, ranging from no apparent DNA fragmentation to those with highly dispersed and degraded chromatin. Dispersion morphotypes were mirrored by a similar diversity of comet morphologies that could be further differentiated using the double comet assay. The majority of koala spermatozoa had nuclei with DNA abasic-like residues that produced single-tailed comets following the double comet assay. The ubiquity of these residues suggests that constitutive alkali-labile sites are part of the structural configuration of the koala sperm nucleus. Spermatozoa with 'true' DNA fragmentation exhibited a continuum of comet morphologies, ranging from a more severe form of alkaline-susceptible DNA with a diffuse single tail to nuclei that exhibited both single- and double-stranded breaks with two comet tails.

  11. Spatially confined folding of chromatin in the interphase nucleus

    NARCIS (Netherlands)

    Mateos-Langerak, J.; Bohn, M.; de Leeuw, W.; Giromus, O.; Manders, E.M.M.; Verschure, P.J.; Indemans, M.H.G.; Gierman, H.J.; Heermann, D.W.; van Driel, R.; Goetze, S.

    2009-01-01

    Genome function in higher eukaryotes involves major changes in the spatial organization of the chromatin fiber. Nevertheless, our understanding of chromatin folding is remarkably limited. Polymer models have been used to describe chromatin folding. However, none of the proposed models gives a

  12. Influence of Fiber Orientation on Single-Point Cutting Fracture Behavior of Carbon-Fiber/Epoxy Prepreg Sheets

    Directory of Open Access Journals (Sweden)

    Yingying Wei

    2015-10-01

    Full Text Available The purpose of this article is to investigate the influences of carbon fibers on the fracture mechanism of carbon fibers both in macroscopic view and microscopic view by using single-point flying cutting method. Cutting tools with three different materials were used in this research, namely, PCD (polycrystalline diamond tool, CVD (chemical vapor deposition diamond thin film coated carbide tool and uncoated carbide tool. The influence of fiber orientation on the cutting force and fracture topography were analyzed and conclusions were drawn that cutting forces are not affected by cutting speeds but significantly influenced by the fiber orientation. Cutting forces presented smaller values in the fiber orientation of 0/180° and 15/165° but the highest one in 30/150°. The fracture mechanism of carbon fibers was studied in different cutting conditions such as 0° orientation angle, 90° orientation angle, orientation angles along fiber direction, and orientation angles inverse to the fiber direction. In addition, a prediction model on the cutting defects of carbon fiber reinforced plastic was established based on acoustic emission (AE signals.

  13. When less is more: a simple Western blotting amendment allowing data acquisition on human single fibers

    DEFF Research Database (Denmark)

    Jensen, Thomas Elbenhardt; Richter, Erik

    2011-01-01

    This editorial discusses a simple western blotting-amendment allowing rapid data-acquisition on single fibers obtained from freeze-dried human skeletal muscle biopsies.......This editorial discusses a simple western blotting-amendment allowing rapid data-acquisition on single fibers obtained from freeze-dried human skeletal muscle biopsies....

  14. Coilable single crystal fibers of doped-YAG for high power laser applications

    Science.gov (United States)

    Maxwell, Gisele; Soleimani, Nazila; Ponting, Bennett; Gebremichael, Eminet

    2013-05-01

    Single crystal fibers are an intermediate between laser crystals and doped glass fibers. They can combine the advantages of both by guiding laser light and matching the efficiencies found in bulk crystals, making them ideal candidates for high-power laser and fiber laser applications. In particular, a very interesting feature of single crystal fiber is that they can generate high power in the eye-safe range (Er:YAG) with a high efficiency, opening new possibilities for portable directed energy weapons. This work focuses on the growth of a flexible fiber with a core of dopant (Er, Nd, Yb, etc…) that will exhibit good waveguiding properties. Direct growth or a combination of growth and cladding experiments are described. We have, to date, demonstrated the growth of a flexible foot long 45 microns doped YAG fiber. Scattering loss measurements at visible wavelengths along with dopant profile characterization are also presented. Laser characterization for these fibers is in progress.

  15. Single mode step-index polymer optical fiber for humidity insensitive high temperature fiber Bragg grating sensors

    DEFF Research Database (Denmark)

    Woyessa, Getinet; Fasano, Andrea; Stefani, Alessio

    2016-01-01

    We have fabricated the first single-mode step-index and humidity insensitive polymer optical fiber operating in the 850 nm wavelength ranges. The step-index preform is fabricated using injection molding, which is an efficient method for cost effective, flexible and fast preparation of the fiber...... preform. The fabricated single-mode step-index (SI) polymer optical fiber (POF) has a 4.8µm core made from TOPAS grade 5013S-04 with a glass transition temperature of 134°C and a 150 µm cladding made from ZEONEX grade 480R with a glass transition temperature of 138°C. The key advantages of the proposed...... SIPOF are low water absorption, high operating temperature and chemical inertness to acids and bases and many polar solvents as compared to the conventional poly-methyl-methacrylate (PMMA) and polystyrene based POFs. In addition, the fiber Bragg grating writing time is short compared to microstructured...

  16. Single mode step-index polymer optical fiber for humidity insensitive high temperature fiber Bragg grating sensors.

    Science.gov (United States)

    Woyessa, Getinet; Fasano, Andrea; Stefani, Alessio; Markos, Christos; Nielsen, Kristian; Rasmussen, Henrik K; Bang, Ole

    2016-01-25

    We have fabricated the first single-mode step-index and humidity insensitive polymer optical fiber operating in the 850 nm wavelength ranges. The step-index preform is fabricated using injection molding, which is an efficient method for cost effective, flexible and fast preparation of the fiber preform. The fabricated single-mode step-index (SI) polymer optical fiber (POF) has a 4.8µm core made from TOPAS grade 5013S-04 with a glass transition temperature of 134°C and a 150 µm cladding made from ZEONEX grade 480R with a glass transition temperature of 138°C. The key advantages of the proposed SIPOF are low water absorption, high operating temperature and chemical inertness to acids and bases and many polar solvents as compared to the conventional poly-methyl-methacrylate (PMMA) and polystyrene based POFs. In addition, the fiber Bragg grating writing time is short compared to microstructured POFs.

  17. Effect of hindlimb unweighting on single soleus fiber maximal shortening velocity and ATPase activity

    Science.gov (United States)

    Mcdonald, K. S.; Fitts, R. H.

    1993-01-01

    The effect of hindlimb unweighting (HU) for 1 to 3 wks on the shortening velocity of a soleus fiber, its ATPase content, and the relative contents of the slow and fast myosin was investigated by measuring fiber force, V(0), ATPase activity, and myosin content in SDS protein profiles of a single rat soleus fiber suspended between a motor arm and a transducer. It was found that HU induces a progressive increase in fiber V(0) that is likely caused, at least in part, by an increase in the fiber's myofibrillar ATPase activity. The HU-induced increases in V(0) and ATPase were associated with the presence of a greater percentage of fast type IIa fibers. However, a large population of fibers after 1, 2, and 3 wks of HU showed increases in V(0) and ATPase but displayed the same myosin protein profile on SDS gels as control fibers.

  18. Optimizing single mode robustness of the distributed modal filtering rod fiber amplifier

    DEFF Research Database (Denmark)

    Jørgensen, Mette Marie; Petersen, Sidsel Rübner; Laurila, Marko

    2012-01-01

    High-power fiber amplifiers for pulsed applications require large mode area (LMA) fibers having high pump absorption and near diffraction limited output. Photonic crystal fibers allow realization of short LMA fiber amplifiers having high pump absorption through a pump cladding that is decoupled...... from the outer fiber diameter. However, achieving ultra low NA for single mode (SM) guidance is challenging, thus different design strategies must be applied. The distributed modal filtering (DMF) design enables SM guidance in ultra low NA fibers with very large cores, where large preform tolerances...... can be compensated during the fiber draw. Design optimization of the SM bandwidth of the DMF rod fiber is presented. Analysis of band gap properties results in a fourfold increase of the SM bandwidth compared to previous results, achieved by utilizing the first band of cladding modes, which can cover...

  19. Highly efficient high power single-mode fiber amplifier utilizing the distributed mode filtering bandgap rod fiber

    DEFF Research Database (Denmark)

    Laurila, Marko; Alkeskjold, Thomas T.; Jørgensen, Mette Marie

    2012-01-01

    We report on an ytterbium doped single mode distributed mode filtering rod fiber in an amplifier configuration delivering high average output power, up to 292 watts, using a mode-locked 30ps source at 1032nm with good power conversion efficiency. We study the modal stability of the output beam...... at high average output power levels and demonstrate a 44% power improvement before the threshold-like onset of mode instabilities by operating the rod fiber in a leaky waveguide regime. We investigate the guiding dynamics of the rod fiber and explain the improved performance by thermally induced...

  20. Fiber pull-out test and single fiber fragmentation test - analysis and modelling

    DEFF Research Database (Denmark)

    Sørensen, Bent F.; Lilholt, Hans

    2016-01-01

    A mathematical model is developed for the analysis of the fiber debonding phase of a pull-out experiment where the matrix is supported at the same end as the fiber is loaded in tension. The mechanical properties of the fiber/matrix are described in terms of two parameters, a fracture energy for f...

  1. Quantitative analysis of chromatin accessibility in mouse embryonic fibroblasts.

    Science.gov (United States)

    Zhuo, Baowen; Yu, Juan; Chang, Luyuan; Lei, Jiafan; Wen, Zengqi; Liu, Cuifang; Mao, Guankun; Wang, Kehui; Shen, Jie; Xu, Xueqing

    2017-11-04

    Genomic DNA of eukaryotic cells is hierarchically packaged into chromatin by histones. The dynamic organization of chromatin fibers plays a critical role in the regulation of gene transcription and other DNA-associated biological processes. Recently, numerous approaches have been developed to map the chromatin organization by characterizing chromatin accessibilities in genome-wide. However, reliable methods to quantitatively map chromatin accessibility are not well-established, especially not on a genome-wide scale. Here, we developed a modified MNase-seq for mouse embryonic fibroblasts, wherein chromatin was partially digested at multiple digestion times using micrococcal nuclease (MNase), allowing quantitative analysis of local yet genome-wide chromatin compaction. Our results provide strong evidence that the chromatin accessibility at promoter regions are positively correlated with gene activity. In conclusion, our assay is an ideal tool for the quantitative study of gene regulation in the perspective of chromatin accessibility. Copyright © 2017 Elsevier Inc. All rights reserved.

  2. Cross-correlated imaging of single-mode photonic crystal rod fiber with distributed mode filtering

    DEFF Research Database (Denmark)

    Laurila, Marko; Barankov, Roman; Jørgensen, Mette Marie

    2013-01-01

    Photonic crystal bandgap fibers employing distributed mode filtering design provide near diffraction-limited light outputs, a critical property of fiber-based high-power lasers. Microstructure of the fibers is tailored to achieve single-mode operation at specific wavelength by resonant mode...... identify regimes of resonant coupling between higher-order core modes and cladding band. We demonstrate a passive fiber design in which the higher-order modal content inside the single-mode guiding regime is suppressed by at least 20 dB even for significantly misaligned input-coupling configurations....

  3. Single-mode 37-core fiber with a cladding diameter of 248 μm

    DEFF Research Database (Denmark)

    Sasaki, Y.; Takenaga, K.; Aikawa, K.

    2017-01-01

    A heterogeneous single-mode 37-core fiber with a cladding diameter of 248 μm is designed and fabricated. The fiber provides the highest core count and low total-crosstalk less than −20 dB/1000 km in C+L band.......A heterogeneous single-mode 37-core fiber with a cladding diameter of 248 μm is designed and fabricated. The fiber provides the highest core count and low total-crosstalk less than −20 dB/1000 km in C+L band....

  4. Refractive index sensor based on an abrupt taper Michelson interferometer in a single-mode fiber.

    Science.gov (United States)

    Tian, Zhaobing; Yam, Scott S-H; Loock, Hans-Peter

    2008-05-15

    A simple refractive index sensor based on a Michelson interferometer in a single-mode fiber is constructed and demonstrated. The sensor consists of a single symmetrically abrupt taper region in a short piece of single-mode fiber that is terminated by approximately 500 nm thick gold coating. The sensitivity of the new sensor is similar to that of a long-period-grating-type sensor, and its ease of fabrication offers a low-cost alternative to current sensing applications.

  5. Mode division multiplexing technology for single-fiber optical trapping axial-position adjustment.

    Science.gov (United States)

    Liu, Zhihai; Wang, Lei; Liang, Peibo; Zhang, Yu; Yang, Jun; Yuan, Libo

    2013-07-15

    We demonstrate trapped yeast cell axial-position adjustment without moving the optical fiber in a single-fiber optical trapping system. The dynamic axial-position adjustment is realized by controlling the power ratio of the fundamental mode beam (LP01) and the low-order mode beam (LP11) generated in a normal single-core fiber. In order to separate the trapping positions produced by the two mode beams, we fabricate a special fiber tapered tip with a selective two-step method. A yeast cell of 6 μm diameter is moved along the optical axis direction for a distance of ~3 μm. To the best of our knowledge, this is the first demonstration of the trapping position adjustment without moving the fiber for single-fiber optical tweezers. The excitation and utilization of multimode beams in a single fiber constitutes a new development for single-fiber optical trapping and makes possible more practical applications in biomedical research fields.

  6. Contact stresses modeling at the Panda-type fiber single-layer winding and evaluation of their impact on the fiber optic properties

    Science.gov (United States)

    Lesnikova, Yu I.; Smetannikov, O. Yu; Trufanov, A. N.; Trufanov, N. A.

    2017-02-01

    The impact of contact transverse forces on the birefringence of the single-mode polarization-maintaining Panda-type fiber is numerically modeled. It has been established that with a single-row power winding on a cylindrical mandrel, the fiber tension at winding is the principal factor that influences birefringence. When coiling the fiber based on the local defect microbending, the birefringence at the microbending point differs from that of the free fiber by 1.3%.

  7. Monolithic Ytterbium All-single-mode Fiber Laser with Direct Fiber-end Delivery of nJ-level Femtosecond Pulses

    DEFF Research Database (Denmark)

    Turchinovich, Dmitry

    2008-01-01

    We demonstrate a monolithic, i.e. without any free-space coupling, all-single-mode passively modelocked Yb-fiber laser, with direct fiber-end delivery of 364−405 fs pulses of 4 nJ pulse energy using a low-loss hollow-core photonic crystal fiber compression.......We demonstrate a monolithic, i.e. without any free-space coupling, all-single-mode passively modelocked Yb-fiber laser, with direct fiber-end delivery of 364−405 fs pulses of 4 nJ pulse energy using a low-loss hollow-core photonic crystal fiber compression....

  8. Single-Crystal Sapphire Optical Fiber Sensor Instrumentation

    Energy Technology Data Exchange (ETDEWEB)

    Pickrell, Gary [Virginia Polytechnic Inst. & State Univ., Blacksburg, VA (United States); Scott, Brian [Virginia Polytechnic Inst. & State Univ., Blacksburg, VA (United States); Wang, Anbo [Virginia Polytechnic Inst. & State Univ., Blacksburg, VA (United States); Yu, Zhihao [Virginia Polytechnic Inst. & State Univ., Blacksburg, VA (United States)

    2013-12-31

    This report summarizes technical progress on the program “Single-Crystal Sapphire Optical Fiber Sensor Instrumentation,” funded by the National Energy Technology Laboratory of the U.S. Department of Energy, and performed by the Center for Photonics Technology of the Bradley Department of Electrical and Computer Engineering at Virginia Tech. This project was completed in three phases, each with a separate focus. Phase I of the program, from October 1999 to April 2002, was devoted to development of sensing schema for use in high temperature, harsh environments. Different sensing designs were proposed and tested in the laboratory. Phase II of the program, from April 2002 to April 2009, focused on bringing the sensor technologies, which had already been successfully demonstrated in the laboratory, to a level where the sensors could be deployed in harsh industrial environments and eventually become commercially viable through a series of field tests. Also, a new sensing scheme was developed and tested with numerous advantages over all previous ones in Phase II. Phase III of the program, September 2009 to December 2013, focused on development of the new sensing scheme for field testing in conjunction with materials engineering of the improved sensor packaging lifetimes. In Phase I, three different sensing principles were studied: sapphire air-gap extrinsic Fabry-Perot sensors; intensity-based polarimetric sensors; and broadband polarimetric sensors. Black body radiation tests and corrosion tests were also performed in this phase. The outcome of the first phase of this program was the selection of broadband polarimetric differential interferometry (BPDI) for further prototype instrumentation development. This approach is based on the measurement of the optical path difference (OPD) between two orthogonally polarized light beams in a single-crystal sapphire disk. At the beginning of Phase II, in June 2004, the BPDI sensor was tested at the Wabash River coal gasifier

  9. Experimental Performance of a Single-Mode Ytterbium-doped Fiber Ring Laser with Intracavity Modulator

    Science.gov (United States)

    Numata, Kenji; Camp, Jordan

    2012-01-01

    We have developed a linearly polarized Ytterbium-doped fiber ring laser with a single longitudinal mode output at 1064 run. A fiber-coupled intracavity phase modulator ensured mode-hop free operation and allowed fast frequency tuning. The fiber laser was locked with high stability to an iodine-stabilized laser, showing a frequency noise suppression of a factor approx 10 (exp 5) at 1 mHz

  10. SINGLE-CRYSTAL SAPPHIRE OPTICAL FIBER SENSOR INSTRUMENTATION

    Energy Technology Data Exchange (ETDEWEB)

    A. Wang; G. Pickrell; R. May

    2002-09-10

    material were thoroughly investigated to determine an optimal approach for on-line, real-time, reliable, long-term monitoring of temperatures inside the coal gasification environment. Among these were a sapphire fiber extrinsic Fabry-Perot interferometric (EFPI) sensor; an intensity-measurement based polarimetric sapphire sensor and a broadband polarimetric differential interferometric (BPDI) sapphire sensor. Based on the current evaluation and analysis of the experimental results, the broadband polarimetric differential interferometric (BPDI) sensor system was chosen for further prototype instrumentation development because of it's superior performance compared to the other systems. This approach is based on the self-calibrating measurement of the optical path length differences in a single-crystal sapphire disk, which is a function of both the temperature dependent birefringence and the temperature dependent dimensional changes.

  11. SINGLE-CRYSTAL SAPPHIRE OPTICAL FIBER SENSOR INSTRUMENTATION

    Energy Technology Data Exchange (ETDEWEB)

    A. Wang; G. Pickrell; R. May

    2002-10-18

    material were thoroughly investigated to determine an optimal approach for on-line, real-time, reliable, long-term monitoring of temperatures inside the coal gasification environment. Among these were a sapphire fiber extrinsic Fabry-Perot interferometric (EFPI) sensor; an intensity-measurement based polarimetric sapphire sensor and a broadband polarimetric differential interferometric (BPDI) sapphire sensor. Based on the current evaluation and analysis of the experimental results, the BPDI sensor system was chosen for further prototype instrumentation development because of it's superior performance compared to the other systems. This approach is based on the self-calibrating measurement of the optical path length differences in a single-crystal sapphire disk, which is a function of both the temperature dependent birefringence and the temperature dependent dimensional changes.

  12. Assessment of the Tensile Properties for Single Fibers

    Science.gov (United States)

    2018-02-01

    the live load-displacement curve in the Psylotech software. Starting with the ...Fiber sample installed in the Psylotech nTS prior to the frame being cut Just prior to testing, the edges of the cardstock frame are cut. It is important ...is important to ensure that the fiber remains attached to the cardboard mount. If a pair of tweezers is used to lightly hold the ends of the

  13. Single mode chalcogenide glass fiber as wavefront filter for the DARWIN planet finding misson

    NARCIS (Netherlands)

    Faber, A.J.; Cheng, L.K.; Gielesen, W.L.M.; Boussard-Plédel, C.; Houizot, P.; Danto, S.; Lucas, J.; Pereira Do Carmo, J.

    2017-01-01

    The development of single mode chalcogenide glass fibers as wavefront filter for the DARWIN mission is reported. Melting procedures and different preform techniques for manufacturing core-cladding chalcogenide fibers are described. Bulk glass samples on the basis of Te-As-Se- and high

  14. Real-time single airborne nanoparticle detection with nanomechanical resonant filter-fiber

    DEFF Research Database (Denmark)

    Schmid, Silvan; Kurek, Maksymilian; Adolphsen, Jens Q

    2013-01-01

    technique and gravimetric detection of airborne nanoparticles with a nanomechanical resonant filter-fiber. By increasing the nanoparticle momentum the dominant collection mechanism changes from diffusion to more efficient inertial impaction. In doing so we reach a single filter-fiber collection efficiency...

  15. Four days of muscle disuse impairs single fiber contractile function in young and old healthy men

    DEFF Research Database (Denmark)

    Hvid, Lars G; Suetta, Charlotte; Aagaard, Per

    2013-01-01

    The purpose of the study was to investigate the effects of 4days of disuse (knee brace) on contractile function of isolated vastus lateralis fibers (n=486) from 11 young (24.3±0.9yrs) and 11 old (67.2±1.0yrs) healthy men having comparable levels of physical activity. Prior to disuse single fiber...

  16. Low-NA single-mode LMA photonic crystal fiber amplifier

    DEFF Research Database (Denmark)

    Alkeskjold, Thomas Tanggaard; Laurila, Marko; Scolari, Lara

    2011-01-01

    Enabling Single-Mode (SM) operation in Large-Mode-Area (LMA) fiber amplifiers and lasers is critical, since a SM output ensures high beam quality and excellent pointing stability. In this paper, we demonstrate and test a new design approach for achieving ultra-low NA SM rod fibers by using...... a spatially Distributed Mode Filter (DMF). This approach achieves SM performance in a short and straight rod fiber and allows preform tolerances to be compensated during draw. A low-NA SM rod fiber amplifier having a mode field diameter of ~60μm at 1064nm and a pump absorption of 27dB/m at 976nm...

  17. Interface debond crack growth in tension–tension cyclic loading of single fiber polymer composites

    DEFF Research Database (Denmark)

    Pupurs, Andrejs; Goutianos, Stergios; Brøndsted, Povl

    2013-01-01

    Fiber/matrix interface debond crack growth from a fiber break is defined as one of the key mechanisms of fatigue damage in unidirectional composites. Considering debond as an interface crack its growth in cyclic loading is analyzed utilizing a power law, where the debond growth rate is a power...... for glass fiber/epoxy single fiber composites. Analytical method in the steady-state growth region and FEM for short debonds are combined for calculating the strain energy release rate of the growing debond crack. Interface failure parameters in fatigue are determined by fitting the modeling...

  18. A High Energy and High Efficiency Spectral Shaping Single Frequency Fiber Laser Project

    Data.gov (United States)

    National Aeronautics and Space Administration — This SBIR phase I project proposes a tunable single frequency high energy fiber laser system for coherent Lidar systems for remote sensing. Current state-of-art...

  19. High Energy Single Frequency Fiber Laser at Low Repetition Rate, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — This SBIR phase I project proposes a tunable single frequency high energy fiber laser system for coherent Lidar systems for remote sensing. Current state-of-art...

  20. Tunable Single Frequency 1.55 Micron Fiber Laser, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — In this proposal, we propose to demonstrate and build a widely tunable, narrow linewidth, single frequency fiber laser by developing an innovative Er/Yb-co-doped...

  1. High Energy Single Frequency Fiber Laser at Low Repetition Rate, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — This SBIR phase II project proposes a single frequency high energy fiber laser system operating at low repetition rate of 10 Hz to 1 kHz for coherent Lidar systems...

  2. A High Energy and High Efficiency Spectral Shaping Single Frequency Fiber Laser, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — This SBIR phase II project proposes a single frequency high energy fiber laser system for coherent Lidar systems for remote sensing. Current state-of-art...

  3. A High Energy and High Efficiency Spectral Shaping Single Frequency Fiber Laser Project

    Data.gov (United States)

    National Aeronautics and Space Administration — This SBIR phase II project proposes a single frequency high energy fiber laser system for coherent Lidar systems for remote sensing. Current state-of-art...

  4. Frequency-Locked Single-Frequency Fiber Laser at 2 Micron, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — Frequency-locked single-frequency 2 micron fiber laser is proposed to be used for airborne/spaceborne coherent lidar measurements, i.e., Active Sensing of CO2...

  5. A High Energy and High Efficiency Spectral Shaping Single Frequency Fiber Laser, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — This SBIR phase I project proposes a tunable single frequency high energy fiber laser system for coherent Lidar systems for remote sensing. Current state-of-art...

  6. High energy single frequency Yb:YAG crystalline fiber waveguide master oscillator power amplifier, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — The overall objective is to demonstrate the concept of Yb:YAG crystalline fiber MOPA laser and investigation the technical feasibility toward 50 mJ single frequency...

  7. Comparison of high power large mode area and single mode 1908nm Tm-doped fiber lasers

    Science.gov (United States)

    Johnson, Benjamin R.; Creeden, Daniel; Limongelli, Julia; Pretorius, Herman; Blanchard, Jon; Setzler, Scott D.

    2016-03-01

    We compare large mode area (LMA) and single-mode (SM) double-clad fiber geometries for use in high power 1908nm fiber lasers. With a simple end-pumped architecture, we have generated 100W of 1908nm power with LMA fiber at 40% optical efficiency and 117W at 52.2% optical efficiency with single-mode fiber. We show the LMA fiber is capable of generating >200W and the SM fiber is capable of >300W at 1908nm. In all cases, the fiber lasers are monolithic power-oscillators with no free-space coupling.

  8. Low Po2 conditions induce reactive oxygen species formation during contractions in single skeletal muscle fibers

    OpenAIRE

    Zuo, Li; Shiah, Amy; Roberts, William J.; Chien, Michael T.; Wagner, Peter D.; Hogan, Michael C.

    2013-01-01

    Contractions in whole skeletal muscle during hypoxia are known to generate reactive oxygen species (ROS); however, identification of real-time ROS formation within isolated single skeletal muscle fibers has been challenging. Consequently, there is no convincing evidence showing increased ROS production in intact contracting fibers under low Po2 conditions. Therefore, we hypothesized that intracellular ROS generation in single contracting skeletal myofibers increases during low Po2 compared wi...

  9. Single mode fiber array for planet detection using a visible nulling interferometer

    Science.gov (United States)

    Liu, Duncan; Levine, B. Martin; Shao, Michael; Aguayo, Franciso

    2005-01-01

    We report the design, fabrication, and testing of a coherent large mode field diameter fiber array to be used as a spatial filter in a planet finding visible nulling interferometer. The array is a key component of a space instrument for visible-light detection and spectroscopy of Earth like extrasolar planets. In this concept, a nulling interferometer is synthesized from a pupil image of a single aperture which is then spatially filtered by a coherent array of single mode fibers to suppress the residual scattered star light. The use of the fiber array preserves spatial information between the star and planet. The fiber array uses a custom commercial large mode field or low NA step-index single mode fiber to relax alignment tolerances. A matching custom micro lens array is used to couple light into the fibers, and to recollimate the light out of the fiber array. The use of large mode field diameter fiber makes the fabrication of a large spatial filter array with 300 to 1000 elements feasible.

  10. Pump combiner for air-clad fiber with PM single-mode signal feed-through

    DEFF Research Database (Denmark)

    Noordegraaf, Danny; Nielsen, Martin D.; Skovgaard, Peter M.W.

    2009-01-01

    A pump combiner with single-mode PM signal feed-through designed for an air-clad photonic crystal fiber is demonstrated. Signal coupling is realized by a novel taper element allowing single-mode guidance at a taper ratio of 3.7.......A pump combiner with single-mode PM signal feed-through designed for an air-clad photonic crystal fiber is demonstrated. Signal coupling is realized by a novel taper element allowing single-mode guidance at a taper ratio of 3.7....

  11. Single mode optical fiber vibration sensor: design and development

    Science.gov (United States)

    Alanis-Carranza, L. E.; Alvarez-Chavez, J. A.; Perez-Sanchez, G. G.; Sierra-Calderon, A.; Rodriguez-Novelo, J. C.

    2016-09-01

    This work deals with the design and development of an SMF28-based vibration detector including the fiber segment, the data acquisition via an NI-USB-6212 card, the data processing code in Visual Basic and the signal spectrum obtained via Fourier analysis. The set-up consists of a regulated voltage source at 2.6V, 300mA, which serves as the power source for a 980nm semiconductor laser operating at 150mW which is fiber coupled into a 20m-piece of SMF-28 fiber. Perpendicular to such fiber the perturbations ranged from 1 to 100 kHz, coming from a DC motor at 12 Volts. At the detection stage, a simple analog filter and a commercial photo diode were employed for data acquisition, before a transimpedance amplification stage reconstructed the signal into the National Instruments data acquisition card. At the output, the signals Fourier transformation allows the signal to be displayed in a personal computer. The presentation will include a full electrical and optical characterization of the device and preliminary sensing results, which could be suitable for structural health monitoring applications.

  12. BRIEF COMMUNICATIONS: Investigation of the state of polarization of light in a single-mode fiber waveguide

    Science.gov (United States)

    Kozel, S. M.; Kreopalov, V. I.; Listvin, V. N.; Glavatskikh, N. A.

    1983-01-01

    An analysis is made of the polarization anisotropy of a single-mode fiber with a twisted elliptic core. The Jones matrix is obtained and the complex function of the state of polarization of light in a fiber is investigated. The results are reported of measurements of the linear and circular birefringence of a borosilicate single-mode glass fiber.

  13. Detecting mode hopping in single-longitudinal-mode fiber ring lasers based on an unbalanced fiber Michelson interferometer.

    Science.gov (United States)

    Ma, Mingxiang; Hu, Zhengliang; Xu, Pan; Wang, Wei; Hu, Yongming

    2012-10-20

    A method of detecting mode hopping for single-longitudinal-mode (SLM) fiber ring lasers has been proposed and experimentally demonstrated. The method that is based on an unbalanced Michelson interferometer (MI) utilizing phase generated carrier modulation instantly transforms mode-hopping dynamics into steep phase changes of the interferometer. Multiform mode hops in an SLM erbium-doped fiber ring laser with an 18.6 MHz mode spacing have been detected exactly in real-time domain and discussed in detail. Numerical results show that the MI-based method has a high testing sensitivity for identifying mode hopping, which will play a significant role in evaluating the output stability of SLM fiber lasers.

  14. Proteomics of a fuzzy organelle: interphase chromatin

    Science.gov (United States)

    Kustatscher, Georg; Hégarat, Nadia; Wills, Karen L H; Furlan, Cristina; Bukowski-Wills, Jimi-Carlo; Hochegger, Helfrid; Rappsilber, Juri

    2014-01-01

    Chromatin proteins mediate replication, regulate expression, and ensure integrity of the genome. So far, a comprehensive inventory of interphase chromatin has not been determined. This is largely due to its heterogeneous and dynamic composition, which makes conclusive biochemical purification difficult, if not impossible. As a fuzzy organelle, it defies classical organellar proteomics and cannot be described by a single and ultimate list of protein components. Instead, we propose a new approach that provides a quantitative assessment of a protein's probability to function in chromatin. We integrate chromatin composition over a range of different biochemical and biological conditions. This resulted in interphase chromatin probabilities for 7635 human proteins, including 1840 previously uncharacterized proteins. We demonstrate the power of our large-scale data-driven annotation during the analysis of cyclin-dependent kinase (CDK) regulation in chromatin. Quantitative protein ontologies may provide a general alternative to list-based investigations of organelles and complement Gene Ontology. PMID:24534090

  15. Excitation-calcium release uncoupling in aged single human skeletal muscle fibers.

    Science.gov (United States)

    Delbono, O; O'Rourke, K S; Ettinger, W H

    1995-12-01

    The biological mechanisms underlying decline in muscle power and fatigue with age are not completely understood. The contribution of alterations in the excitation-calcium release coupling in single muscle fibers was explored in this work. Single muscle fibers were voltage-clamped using the double Vaseline gap technique. The samples were obtained by needle biopsy of the vastus lateralis (quadriceps) from 9 young (25-35 years; 25.9 +/- 9.1; 5 female and 4 male) and 11 old subjects (65-75 years; 70.5 +/- 2.3; 6 f, 5 m). Data were obtained from 36 and 39 fibers from young and old subjects, respectively. Subjects included in this study had similar physical activity. Denervated and slow-twitch muscle fibers were excluded from this study. A significant reduction of maximum charge movement (Qmax) and DHP-sensitive Ca current were recorded in muscle fibers from the 65-75 group. Qmax values were 7.6 +/- 0.9 and 3.2 +/- 0.3 nC/muF for young and old muscle fibers, respectively (P charge inactivation or interconversion (charge 1 to charge 2) were found. The peak Ca current was (-)4.7 +/- 0.08 and (-)2.15 +/- 0.11 muA/muF for young and old fibers, respectively (P muscle fibers, respectively. Caffeine (0.5 mM) induced potentiation of the peak calcium transient in both groups. The decrease in the voltage-/Ca-dependent Ca release ratio in old fibers (0.18 +/- 0.02) compared to young fibers (0.47 +/- 0.03) (P skeletal muscle and, the reduction of Ca release is due to DHPR-ryanodine receptor uncoupling in fast-twitch fibers. These alterations can account, at least partially for the skeletal muscle function impairment associated with aging.

  16. Cotton fiber: a powerful single-cell model for cell wall and celluloseresearch

    Directory of Open Access Journals (Sweden)

    Candace Hope Haigler

    2012-05-01

    Full Text Available Cotton fibers are single-celled extensions of the seed epidermis. They can be isolated in pureform as they undergo staged differentiation including primary cell wall synthesis duringelongation and nearly pure cellulose synthesis during secondary wall thickening. Thiscombination of features supports clear interpretation of data about cell walls and cellulosesynthesis in the context of high throughput modern experimental technologies. Priorcontributions of cotton fiber to building fundamental knowledge about cell walls will besummarized and the dynamic changes in cell wall polymers throughout cotton fiberdifferentiation will be described. Recent successes in using stable cotton transformation to altercotton fiber cell wall properties as well as cotton fiber quality will be discussed. Future prospectsto perform experiments more rapidly through altering cotton fiber wall properties via virusinduced gene silencing will be evaluated.

  17. Thermal Effects on the Single-Mode Regime of Distributed Modal Filtering Rod Fiber

    DEFF Research Database (Denmark)

    Coscelli, Enrico; Poli, Federica; Alkeskjold, Thomas Tanggaard

    2012-01-01

    Power scaling of fiber laser systems requires the development of innovative active fibers, capable of providing high pump absorption, ultralarge effective area, high-order mode suppression, and resilience to thermal effects. Thermally induced refractive index change has been recently appointed...... rod-type photonic crystal fiber, which exploits resonant coupling with high-index elements to suppress high-order modes, are thoroughly investigated. A computationally efficient model has been developed to calculate the refractive index change due to the thermo-optical effect, and it has been...... integrated into a full-vector modal solver based on the finite-element method to obtain the guided modes, considering different heating conditions. Results have shown that the single-mode regime of the distributed modal filtering fiber is less sensitive to thermal effects with respect to index-guiding fibers...

  18. A long-baseline interferometer employing single-mode fiber optics

    Science.gov (United States)

    Shaklan, Stuart

    The idea of the Fiber-Linked Optical Array Telescope proposed by Connes (1987) is to mount several small optical telescopes around the perimeter of a radio dish or other large steerable structure, couple the light into single-mode (SM) fibers, and use the fibers to coherently combine the beams at the output. This paper examines the important properties of SM fibers and then discusses the whole system in general terms, starting with the telescopes and following the light through to the detectors, along with the results of laboratory experiments evaluating the performance of SM fibers. The imaging capabilities of the array were simulated, and it was found that, using 10 telescopes on a 440-m dish, the array obtains images with resolution of the order of 2 milliarc seconds in the visible range.

  19. Modes of an endlessly single-mode photonic crystal fiber: a finite element investigation

    NARCIS (Netherlands)

    Uranus, H.P.; Hoekstra, Hugo; van Groesen, Embrecht W.C.

    2004-01-01

    Using a finite-element mode solver, the modes of a commercial endlessly single-mode photonic crystal fiber (ESM-PCF) were investigated. Based on the loss discrimination between the dominant and the nearest higher order mode, we set-up a criterion for the single-modeness. Using that measure, we

  20. A finite element characterization of a commercial endlessly single-mode photonic crystal fiber: is it really single mode?

    NARCIS (Netherlands)

    Uranus, H.P.; Hoekstra, Hugo; van Groesen, Embrecht W.C.

    2007-01-01

    One of interesting properties of photonic crystal fibers (PCFs) is their possibility to be single-moded over a wide wavelength range, down to UV, while still having a reasonably large modal profile. Such properties are attractive for applications like optical sensing, interferometry, and transport

  1. Single-mode ytterbium-doped large-mode-area photonic bandgap rod fiber amplifier

    DEFF Research Database (Denmark)

    Alkeskjold, Thomas Tanggaard; Scolari, Lara; Broeng, Jes

    2011-01-01

    Enabling Single-Mode (SM) operation in Large-Mode-Area (LMA) fiber amplifiers and lasers is critical, since a SM output ensures high beam quality and excellent pointing stability. In this paper, we demonstrate and test a new design approach for achieving SM LMA rod fibers by using a photonic...... bandgap structure. The structure allows resonant coupling of higher-order modes from the core and acts as a spatially Distributed Mode Filter (DMF). With this approach, we demonstrate passive SM performance in an only ~50cm long and straight ytterbium-doped rod fiber. The amplifier has a mode field...

  2. High energy nanosecond laser pulses delivered single-mode through hollow-core PBG fibers.

    Science.gov (United States)

    Shephard, Jonathan; Jones, J; Hand, D; Bouwmans, G; Knight, J; Russell, P; Mangan, B

    2004-02-23

    We report on the development of hollow-core photonic bandgap fibers for the delivery of high energy pulses for precision micromachining applications. Short pulses of (65ns pulse width) and energies of the order of 0.37mJ have been delivered in a single spatial mode through hollow-core photonic bandgap fibers at 1064nm using a high repetition rate (15kHz) Nd:YAG laser. The ultimate laser-induced damage threshold and practical limitations of current hollow-core fibers for the delivery of short optical pulses are discussed.

  3. Mitochondrial specialization revealed by single muscle fiber proteomics: focus on the Krebs cycle.

    Science.gov (United States)

    Schiaffino, S; Reggiani, C; Kostrominova, T Y; Mann, M; Murgia, M

    2015-12-01

    We have developed a highly sensitive mass spectrometry-based proteomic workflow to examine the proteome of single muscle fibers. This study revealed significant differences in the mitochondrial proteome of the four major fiber types present in mouse skeletal muscle. Here, we focus on Krebs cycle enzymes and in particular on the differential distribution of the two mitochondrial isocitrate dehydrogenases, IDH2 and IDH3. Type 1/slow fibers contain high levels of IDH2 and relatively low levels of IDH3, whereas fast 2X and 2B fibers show an opposite expression pattern. The findings suggest that in skeletal muscle, IDH2 functions in the forward direction of the Krebs cycle and that substrate flux along the cycle occurs predominantly via IDH2 in type 1 fibers and via IDH3 in 2X and 2B fibers. IDH2-mediated conversion of isocitrate to α-ketoglutarate leads to the generation of NADPH, which is critical to buffering the H2O2 produced by the respiratory chain. Nicotinamide nucleotide transhydrogenase (NNT), the other major mitochondrial enzyme involved in NADPH generation, is also more abundant in type 1 fibers. We suggest that the continuously active type 1 fibers are endowed with a more efficient H2O2 scavenging capacity to cope with the higher levels of reactive oxygen species production. © 2015 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.

  4. Single Carbon Fibers with a Macroscopic-Thickness, 3D Highly Porous Carbon Nanotube Coating.

    Science.gov (United States)

    Zou, Mingchu; Zhao, Wenqi; Wu, Huaisheng; Zhang, Hui; Xu, Wenjing; Yang, Liusi; Wu, Shiting; Wang, Yunsong; Chen, Yijun; Xu, Lu; Cao, Anyuan

    2018-02-19

    Carbon fiber (CF) grafted with a layer of carbon nanotubes (CNTs) plays an important role in composite materials and other fields; to date, the applications of CNTs@CF multiscale fibers are severely hindered by the limited amount of CNTs grafted on individual CFs and the weak interfacial binding force. Here, monolithic CNTs@CF fibers consisting of a 3D highly porous CNT sponge layer with macroscopic-thickness (up to several millimeters), which is directly grown on a single CF, are fabricated. Mechanical tests reveal high sponge-CF interfacial strength owing to the presence of a thin transitional layer, which completely inhibits the CF slippage from the matrix upon fracture in CNTs@CF fiber-epoxy composites. The porous conductive CNTs@CF hybrid fibers also act as a template for introducing active materials (pseudopolymers and oxides), and a solid-state fiber-shaped supercapacitor and a fiber-type lithium-ion battery with high performances are demonstrated. These CNTs@CF fibers with macroscopic CNT layer thickness have many potential applications in areas such as hierarchically reinforced composites and flexible energy-storage textiles. © 2018 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  5. The chromatin regulatory code: Beyond a histone code

    Science.gov (United States)

    Lesne, A.

    2006-03-01

    In this commentary on the contribution by Arndt Benecke in this issue, I discuss why the notion of “chromatin code” introduced and elaborated in this paper is to be preferred to that of “histone code”. Speaking of a code as regards nucleosome conformation and histone tail post-translational modifications only makes sense within the chromatin fiber, where their physico-chemical features can be translated into regulatory programs at the genome level, by means of a complex, multi-level interplay with the fiber architecture and dynamics settled in the course of Evolution. In particular, this chromatin code presumably exploits allosteric transitions of the chromatin fiber. The chromatin structure dependence of its translation suggests two alternative modes of transcription initiation regulation, also proposed in the paper by A. Benecke in this issue for interpreting strikingly bimodal micro-array data.

  6. Map of open and closed chromatin domains in Drosophila genome.

    Science.gov (United States)

    Milon, Beatrice; Sun, Yezhou; Chang, Weizhong; Creasy, Todd; Mahurkar, Anup; Shetty, Amol; Nurminsky, Dmitry; Nurminskaya, Maria

    2014-11-18

    Chromatin compactness has been considered a major determinant of gene activity and has been associated with specific chromatin modifications in studies on a few individual genetic loci. At the same time, genome-wide patterns of open and closed chromatin have been understudied, and are at present largely predicted from chromatin modification and gene expression data. However the universal applicability of such predictions is not self-evident, and requires experimental verification. We developed and implemented a high-throughput analysis for general chromatin sensitivity to DNase I which provides a comprehensive epigenomic assessment in a single assay. Contiguous domains of open and closed chromatin were identified by computational analysis of the data, and correlated to other genome annotations including predicted chromatin "states", individual chromatin modifications, nuclear lamina interactions, and gene expression. While showing that the widely trusted predictions of chromatin structure are correct in the majority of cases, we detected diverse "exceptions" from the conventional rules. We found a profound paucity of chromatin modifications in a major fraction of closed chromatin, and identified a number of loci where chromatin configuration is opposite to that expected from modification and gene expression patterns. Further, we observed that chromatin of large introns tends to be closed even when the genes are expressed, and that a significant proportion of active genes including their promoters are located in closed chromatin. These findings reveal limitations of the existing predictive models, indicate novel mechanisms of epigenetic regulation, and provide important insights into genome organization and function.

  7. Adaptable Optical Fiber Displacement-Curvature Sensor Based on a Modal Michelson Interferometer with a Tapered Single Mode Fiber.

    Science.gov (United States)

    Salceda-Delgado, G; Martinez-Rios, A; Selvas-Aguilar, R; Álvarez-Tamayo, R I; Castillo-Guzman, A; Ibarra-Escamilla, B; Durán-Ramírez, V M; Enriquez-Gomez, L F

    2017-06-02

    A compact, highly sensitive optical fiber displacement and curvature radius sensor is presented. The device consists of an adiabatic bi-conical fused fiber taper spliced to a single-mode fiber (SMF) segment with a flat face end. The bi-conical taper structure acts as a modal coupling device between core and cladding modes for the SMF segment. When the bi-conical taper is bent by an axial displacement, the symmetrical bi-conical shape of the tapered structure is stressed, causing a change in the refractive index profile which becomes asymmetric. As a result, the taper adiabaticity is lost, and interference between modes appears. As the bending increases, a small change in the fringe visibility and a wavelength shift on the periodical reflection spectrum of the in-fiber interferometer is produced. The displacement sensitivity and the spectral periodicity of the device can be adjusted by the proper selection of the SMF length. Sensitivities from around 1.93 to 3.4 nm/mm were obtained for SMF length between 7.5 and 12.5 cm. Both sensor interrogations, wavelength shift and visibility contrast, can be used to measure displacement and curvature radius magnitudes.

  8. Optical transmission through a polarization preserving single mode optical fiber at two Ar(+) laser wavelengths

    Science.gov (United States)

    Tedjojuwono, Ken K.; Hunter, William W., Jr.

    1989-01-01

    The transmission characteristics of two Ar(+) laser wavelengths through a twenty meter Panda type Polarization Preserving Single Mode Optical Fiber (PPSMOF) were measured. The measurements were done with both single and multi-longitudinal mode radiation. In the single longitudinal mode case, a degrading Stimulated Brillouin Scattering (SBS) is observed as a backward scattering loss. By choosing an optimum coupling system and manipulating the input polarization, the threshold of the SBS onset can be raised and the transmission efficiency can be increased.

  9. Large Mode Area Single Trench Fiber for 2 mu m Operation

    DEFF Research Database (Denmark)

    Jain, Deepak; Sahu, Jayanta K.

    2016-01-01

    to 25 cm bend radius, respectively, by exploiting high delocalization of the higher order modes. Achievement of a large effective-area can be very useful to address nonlinear effects. Moreover, single trench fiber offers certain advantages such as low-cost fabrication and easy postprocessing (such......Performance of single trench fibers has been investigated using finite-element method at 2 mu m wavelength. Numerical investigations show that an effective single mode operation for large effective area between 3000-4000 mu m(2) and 2000-3000 mu m(2) can be achieved at similar to 40 and similar...... as cleaving and splicing) thanks to the all-solid fiber design....

  10. From single muscle fiber to whole muscle mechanics: a finite element model of a muscle bundle with fast and slow fibers.

    Science.gov (United States)

    Marcucci, Lorenzo; Reggiani, Carlo; Natali, Arturo N; Pavan, Piero G

    2017-12-01

    Muscles exhibit highly complex, multi-scale architecture with thousands of muscle fibers, each with different properties, interacting with each other and surrounding connective structures. Consequently, the results of single-fiber experiments are scarcely linked to the macroscopic or whole muscle behavior. This is especially true for human muscles where it would be important to understand of how skeletal muscles disorders affect patients' life. In this work, we developed a mathematical model to study how fast and slow muscle fibers, well characterized in single-fiber experiments, work and generate together force and displacement in muscle bundles. We characterized the parameters of a Hill-type model, using experimental data on fast and slow single human muscle fibers, and comparing experimental data with numerical simulations obtained from finite element (FE) models of single fibers. Then, we developed a FE model of a bundle of 19 fibers, based on an immunohistochemically stained cross section of human diaphragm and including the corresponding properties of each slow or fast fiber. Simulations of isotonic contractions of the bundle model allowed the generation of its apparent force-velocity relationship. Although close to the average of the force-velocity curves of fast and slow fibers, the bundle curve deviates substantially toward the fast fibers at low loads. We believe that the present model and the characterization of the force-velocity curve of a fiber bundle represents the starting point to link the single-fiber properties to those of whole muscle with FE application in phenomenological models of human muscles.

  11. Fibers comprised of epitaxially grown single-wall carbon nanotubes, and a method for added catalyst and continuous growth at the tip

    Science.gov (United States)

    Kittrell, W. Carter; Wang, Yuhuang; Kim, Myung Jong; Hauge, Robert H.; Smalley, Richard E.; Marek leg, Irene Morin

    2010-06-01

    The present invention is directed to fibers of epitaxially grown single-wall carbon nanotubes (SWNTs) and methods of making same. Such methods generally comprise the steps of: (a) providing a spun SWNT fiber; (b) cutting the fiber substantially perpendicular to the fiber axis to yield a cut fiber; (c) etching the cut fiber at its end with a plasma to yield an etched cut fiber; (d) depositing metal catalyst on the etched cut fiber end to form a continuous SWNT fiber precursor; and (e) introducing feedstock gases under SWNT growth conditions to grow the continuous SWNT fiber precursor into a continuous SWNT fiber.

  12. Chromatin Structure and Function

    CERN Document Server

    Wolffe, Alan P

    1999-01-01

    The Third Edition of Chromatin: Structure and Function brings the reader up-to-date with the remarkable progress in chromatin research over the past three years. It has been extensively rewritten to cover new material on chromatin remodeling, histone modification, nuclear compartmentalization, DNA methylation, and transcriptional co-activators and co-repressors. The book is written in a clear and concise fashion, with 60 new illustrations. Chromatin: Structure and Function provides the reader with a concise and coherent account of the nature, structure, and assembly of chromatin and its active

  13. The Latest Twists in Chromatin Remodeling.

    Science.gov (United States)

    Blossey, Ralf; Schiessel, Helmut

    2018-01-05

    In its most restrictive interpretation, the notion of chromatin remodeling refers to the action of chromatin-remodeling enzymes on nucleosomes with the aim of displacing and removing them from the chromatin fiber (the effective polymer formed by a DNA molecule and proteins). This local modification of the fiber structure can have consequences for the initiation and repression of the transcription process, and when the remodeling process spreads along the fiber, it also results in long-range effects essential for fiber condensation. There are three regulatory levels of relevance that can be distinguished for this process: the intrinsic sequence preference of the histone octamer, which rules the positioning of the nucleosome along the DNA, notably in relation to the genetic information coded in DNA; the recognition or selection of nucleosomal substrates by remodeling complexes; and, finally, the motor action on the nucleosome exerted by the chromatin remodeler. Recent work has been able to provide crucial insights at each of these three levels that add new twists to this exciting and unfinished story, which we highlight in this perspective. Copyright © 2017 Biophysical Society. Published by Elsevier Inc. All rights reserved.

  14. Bion 11 Spaceflight Project: Effect of Weightlessness on Single Muscle Fiber Function in Rhesus Monkeys

    Science.gov (United States)

    Fitts, Robert H.; Romatowski, Janell G.; Widrick, Jeffrey J.; DeLaCruz, Lourdes

    1999-01-01

    Although it is well known that microgravity induces considerable limb muscle atrophy, little is known about how weightlessness alters cell function. In this study, we investigated how weightlessness altered the functional properties of single fast and slow striated muscle fibers. Physiological studies were carried out to test the hypothesis that microgravity causes fiber atrophy, a decreased peak force (Newtons), tension (Newtons/cross-sectional area) and power, an elevated peak rate of tension development (dp/dt), and an increased maximal shortening velocity (V(sub o)) in the slow type I fiber, while changes in the fast-twitch fiber are restricted to atrophy and a reduced peak force. For each fiber, we determined the peak force (P(sub o)), V(sub o), dp/dt, the force-velocity relationship, peak power, the power-force relationship, the force-pCa relationship, and fiber stiffness. Biochemical studies were carried out to assess the effects of weightlessness on the enzyme and substrate profile of the fast- and slow-twitch fibers. We predicted that microgravity would increase resting muscle glycogen and glycolytic metabolism in the slow fiber type, while the fast-twitch fiber enzyme profile would be unaltered. The increased muscle glycogen would in part result from an elevated hexokinase and glycogen synthase. The enzymes selected for study represent markers for mitochondrial function (citrate synthase and 0-hydroxyacyl-CoA dehydrogenase), glycolysis (Phosphofructokinase and lactate dehydrogenase), and fatty acid transport (Carnitine acetyl transferase). The substrates analyzed will include glycogen, lactate, adenosine triphosphate, and phosphocreatine.

  15. Effects of Calorie Restriction and Fiber Type on Glucose Uptake and Abundance of Electron Transport Chain and Oxidative Phosphorylation Proteins in Single Fibers from Old Rats.

    Science.gov (United States)

    Wang, Haiyan; Arias, Edward B; Yu, Carmen S; Verkerke, Anthony R P; Cartee, Gregory D

    2017-11-09

    Calorie restriction (CR; reducing calorie intake by ~40% below ad libitum) can increase glucose uptake by insulin-stimulated muscle. Because skeletal muscle is comprised of multiple, heterogeneous fiber types, our primary aim was to determine the effects of CR (initiated at 14 weeks old) and fiber type on insulin-stimulated glucose uptake by single fibers of diverse fiber types in 23-26-month-old rats. Isolated epitrochlearis muscles from AL and CR rats were incubated with [3H]-2-deoxyglucose ± insulin. Glucose uptake and fiber type were determined for single fibers dissected from the muscles. We also determined CR-effects on abundance of several key metabolic proteins in single fibers. CR resulted in: (a) significantly (p glucose uptake by insulin-stimulated type I, IIA, IIB, IIBX, and IIX fibers; (b) significantly (p glucose uptake in each fiber type of rat skeletal muscle in the absence of upregulation of the abundance of hexokinase II or key mitochondrial ETC and OxPhos proteins. © The Author 2017. Published by Oxford University Press on behalf of The Gerontological Society of America. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  16. Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation.

    Science.gov (United States)

    Kieffer-Kwon, Kyong-Rim; Nimura, Keisuke; Rao, Suhas S P; Xu, Jianliang; Jung, Seolkyoung; Pekowska, Aleksandra; Dose, Marei; Stevens, Evan; Mathe, Ewy; Dong, Peng; Huang, Su-Chen; Ricci, Maria Aurelia; Baranello, Laura; Zheng, Ying; Tomassoni Ardori, Francesco; Resch, Wolfgang; Stavreva, Diana; Nelson, Steevenson; McAndrew, Michael; Casellas, Adriel; Finn, Elizabeth; Gregory, Charles; St Hilaire, Brian Glenn; Johnson, Steven M; Dubois, Wendy; Cosma, Maria Pia; Batchelor, Eric; Levens, David; Phair, Robert D; Misteli, Tom; Tessarollo, Lino; Hager, Gordon; Lakadamyali, Melike; Liu, Zhe; Floer, Monique; Shroff, Hari; Aiden, Erez Lieberman; Casellas, Rafael

    2017-08-17

    50 years ago, Vincent Allfrey and colleagues discovered that lymphocyte activation triggers massive acetylation of chromatin. However, the molecular mechanisms driving epigenetic accessibility are still unknown. We here show that stimulated lymphocytes decondense chromatin by three differentially regulated steps. First, chromatin is repositioned away from the nuclear periphery in response to global acetylation. Second, histone nanodomain clusters decompact into mononucleosome fibers through a mechanism that requires Myc and continual energy input. Single-molecule imaging shows that this step lowers transcription factor residence time and non-specific collisions during sampling for DNA targets. Third, chromatin interactions shift from long range to predominantly short range, and CTCF-mediated loops and contact domains double in numbers. This architectural change facilitates cognate promoter-enhancer contacts and also requires Myc and continual ATP production. Our results thus define the nature and transcriptional impact of chromatin decondensation and reveal an unexpected role for Myc in the establishment of nuclear topology in mammalian cells. Published by Elsevier Inc.

  17. Highly optimized tunable Er3+-doped single longitudinal mode fiber ring laser, experiment and model

    DEFF Research Database (Denmark)

    Poulsen, Christian; Sejka, Milan

    1993-01-01

    A continuous wave (CW) tunable diode-pumped Er3+-doped fiber ring laser, pumped by diode laser at wavelengths around 1480 nm, is discussed. Wavelength tuning range of 42 nm, maximum slope efficiency of 48% and output power of 14.4 mW have been achieved. Single longitudinal mode lasing with a line...... with a linewidth of 6 kHz has been measured. A fast model of erbium-doped fiber laser was developed and used to optimize output parameters of the laser......A continuous wave (CW) tunable diode-pumped Er3+-doped fiber ring laser, pumped by diode laser at wavelengths around 1480 nm, is discussed. Wavelength tuning range of 42 nm, maximum slope efficiency of 48% and output power of 14.4 mW have been achieved. Single longitudinal mode lasing...

  18. Formaldehyde Crosslinking: A Tool for the Study of Chromatin Complexes*

    Science.gov (United States)

    Hoffman, Elizabeth A.; Frey, Brian L.; Smith, Lloyd M.; Auble, David T.

    2015-01-01

    Formaldehyde has been used for decades to probe macromolecular structure and function and to trap complexes, cells, and tissues for further analysis. Formaldehyde crosslinking is routinely employed for detection and quantification of protein-DNA interactions, interactions between chromatin proteins, and interactions between distal segments of the chromatin fiber. Despite widespread use and a rich biochemical literature, important aspects of formaldehyde behavior in cells have not been well described. Here, we highlight features of formaldehyde chemistry relevant to its use in analyses of chromatin complexes, focusing on how its properties may influence studies of chromatin structure and function. PMID:26354429

  19. Formaldehyde crosslinking: a tool for the study of chromatin complexes.

    Science.gov (United States)

    Hoffman, Elizabeth A; Frey, Brian L; Smith, Lloyd M; Auble, David T

    2015-10-30

    Formaldehyde has been used for decades to probe macromolecular structure and function and to trap complexes, cells, and tissues for further analysis. Formaldehyde crosslinking is routinely employed for detection and quantification of protein-DNA interactions, interactions between chromatin proteins, and interactions between distal segments of the chromatin fiber. Despite widespread use and a rich biochemical literature, important aspects of formaldehyde behavior in cells have not been well described. Here, we highlight features of formaldehyde chemistry relevant to its use in analyses of chromatin complexes, focusing on how its properties may influence studies of chromatin structure and function. © 2015 by The American Society for Biochemistry and Molecular Biology, Inc.

  20. Fiber-laser-pumped continuous-wave singly resonant optical parametric oscillator

    NARCIS (Netherlands)

    Gross, P.; Klein, M.E.; Walde, T.; Boller, Klaus J.; Auerbach, M.; Wessels, P.; Fallnich, C.

    2002-01-01

    We report on what is to our knowledge the first continuous-wave (cw) optical parametric oscillator (OPO) that is pumped by a tunable fiber laser. The OPO is singly resonant for the signal wave and consists of a 40-mm-long periodically poled LiNbO3 crystal in a four-mirror ring cavity. At a pump

  1. Fiber Laser Pumped Continuous-wave Singly-resonant Optical Parametric Oscillator

    NARCIS (Netherlands)

    Klein, M.E.; Gross, P.; Walde, T.; Boller, Klaus J.; Auerbach, M.; Wessels, P.; Fallnich, C.; Fejer, Martin M.

    2002-01-01

    We report on the first fiber-pumped CW LiNbO/sub 3/ optical parametric oscillator (OPO). The OPO is singly resonant (SRO) and generates idler wavelengths in the range of 3.0 /spl mu/m to 3.7 /spl mu/m with a maximum output power of 1.9 watt.

  2. Tunable single-polarization single-longitudinal-mode erbium-doped fiber ring laser employing a CMFBG filter and saturable absorber

    Science.gov (United States)

    Feng, Suchun; Lu, Shaohua; Peng, Wanjing; Li, Qi; Feng, Ting; Jian, Shuisheng

    2013-04-01

    A tunable single-polarization single-longitudinal-mode (SLM) erbium-doped fiber ring laser is proposed and demonstrated. For the first time as we know, a chirped moiré fiber Bragg grating (CMFBG) filter with ultra-narrow transmission band and a uniform fiber Bragg grating (UFBG) are used to select the laser longitudinal mode. The stable SLM operation of the fiber laser is guaranteed by the combination of the CMFBG filter and 3 m unpumped erbium-doped fiber acting as a saturable absorber. The single polarization operation of the fiber laser is obtained by using an inline broadband polarizer. A tuning range of about 0.7 nm with about 0.1 nm step is achieved by stretching the uniform FBG.

  3. Reconfigurable digital receiver for 8PSK subcarrier multiplexed and 16QAM single carrier phase‐modulated radio over fiber links

    DEFF Research Database (Denmark)

    Guerrero Gonzalez, Neil; Zibar, Darko; Yu, Xianbin

    2011-01-01

    A reconfigurable digital receiver based on the k‐means algorithm is proposed for phase‐modulated subcarrier multiplexed (SCM) and quadrature amplitude‐modulated single carrier, phase‐modulated radio‐over‐fiber links. We report successful demodulation after 40 km single mode fiber transmission...

  4. Tuning the dispersion and single/multimodeness in a hole-assisted fiber: a finite-element study

    NARCIS (Netherlands)

    Uranus, H.P.; Hoekstra, Hugo; van Groesen, Embrecht W.C.

    Using a vectorial finite element mode solver developed earlier, we studied a hole-assisted multi-ring fiber. We report the role of the holes in tuning the waveguide dispersion and the single/multi-modeness of the particular fiber. By correctly selecting the hole’s size and position, a single-mode

  5. A novel single fiber optical tweezers based on light-induced thermal effect

    Science.gov (United States)

    Zhang, Yu; Liu, Zhihai; Liang, Peibo; Zhang, Yaxun; Zhao, Enming; Yang, Jun; Yuan, Libo

    2015-07-01

    We present and demonstrate a novel single fiber optical tweezers which can trap and launch (clean) a target polystyrene (PS) microsphere (diameter~10μm) with independent control by using two wavelengths beams: 980nm and 1480nm. We employ 980nm laser beam to trap the target PS microsphere by molding the fiber tip into a special tapered-shape; and we employ 1480nm laser beam to launch the trapped PS microsphere with a certain velocity by using the thermophoresis force generated from the thermal effect due to the high absorption of the 1480nm laser beams in water. When the launching force is smaller than the trapping force, the PS microsphere will be trapped near the fiber tip, and the launching force will blow away other PS microspheres in the workspace realizing the cleaning function; When the launching force is larger than the trapping force, the trapped PS microsphere will be launched away from the fiber tip with a certain velocity and towards a certain direction, realizing the launching function. This PS microsphere launching and cleaning functions expanded new features of single fiber optical tweezers, providing for the possibility of more practical applications in the micro manipulation research fields.

  6. Bend-insensitive single-mode photonic crystal fiber with ultralarge effective area for dual applications

    Science.gov (United States)

    Islam, Md. Asiful; Alam, M. Shah

    2013-05-01

    A novel photonic crystal fiber (PCF) having circular arrangement of cladding air holes has been designed and numerically optimized to obtain a bend insensitive single mode fiber with large mode area for both wavelength division multiplexing (WDM) communication and fiber-to-the-home (FTTH) application. The bending loss of the proposed bent PCF lies in the range of 10-3 to 10-4 dB/turn or lower over 1300 to 1700 nm, and 2 × 10-4 dB/turn at the wavelength of 1550 nm for a 30-mm bend radius with a higher order mode (HOM) cut-off frequency below 1200 nm for WDM application. When the whole structure of the PCF is scaled down, a bending loss of 6.78×10-4 dB/turn at 1550 nm for a 4-mm bend radius is obtained, and the loss remains in the order of 10-4 dB/turn over the same range of wavelength with an HOM cut-off frequency below 700 nm, and makes the fiber useful for FTTH applications. Furthermore, this structure is also optimized to show a splice loss near zero for fusion-splicing to a conventional single-mode fiber (SMF).

  7. Fiber

    Science.gov (United States)

    ... for the treatment of diverticulosis , diabetes , and heart disease . ... fiber is found in oat bran, barley, nuts, seeds, beans, lentils, peas, ... heart disease. Insoluble fiber is found in foods such as ...

  8. A single source microwave photonic filter using a novel single-mode fiber to multimode fiber coupling technique.

    Science.gov (United States)

    Chang, John; Fok, Mable P; Meister, James; Prucnal, Paul R

    2013-03-11

    In this paper we present a fully tunable and reconfigurable single-laser multi-tap microwave photonic FIR filter that utilizes a special SM-to-MM combiner to sum the taps. The filter requires only a single laser source for all the taps and a passive component, a SM-to-MM combiner, for incoherent summing of signal. The SM-to-MM combiner does not produce optical interference during signal merging and is phase-insensitive. We experimentally demonstrate an eight-tap filter with both positive and negative programmable coefficients with excellent correspondence between predicted and measured values. The magnitude response shows a clean and accurate function across the entire bandwidth, and proves successful operation of the FIR filter using a SM-to-MM combiner.

  9. Covalent cross-linking of single fibers from rabbit psoas increases oscillatory power

    OpenAIRE

    Tawada, K.; Kawai, M.

    1990-01-01

    Single fibers from chemically skinned rabbit psoas muscle were treated with 1-ethyl-3-[3-dimethyl-amino)proyl]-carbodiimide (EDC) at 20 degrees C after rigor was induced. A 22-min treatment resulted in 18% covalent cross-linking between myosin heads and the thin filament as determined by stiffness measurements. This treatment also results in covalent cross-linking among rod portions of myosin molecules in the backbone of the thick filament. The fibers thus prepared are stable and do not disso...

  10. Linearly frequency-modulated pulsed single-frequency fiber laser at 1083 nm.

    Science.gov (United States)

    Zhang, Yuanfei; Yang, Changsheng; Li, Can; Feng, Zhouming; Xu, Shanhui; Deng, Huaqiu; Yang, Zhongmin

    2016-02-22

    A linearly frequency-modulated, actively Q-switched, single-frequency ring fiber laser based on injection seeding from an ultra-short cavity is demonstrated at 1083 nm. A piezoelectric transducer is employed to obtain linearly frequency-modulating performance and over 1.05 GHz frequency-tuning range is achieved with a modulating frequency reaching tens of kilohertz. A maximum peak power of the stable output pulse is over 3.83 W during frequency-modulating process. This type of pulsed fiber laser provides a promising candidate for coherent LIDAR in the measurement of thermosphere.

  11. Fiber

    Science.gov (United States)

    ... not getting enough fiber. According to the 2010 Dietary Guidelines, teen girls (14 to 18 years) should get 25 grams of fiber per day and teen boys (14 to 18 years) should get 31 grams of fiber per day. The best sources are fresh fruits and vegetables, nuts and legumes, ...

  12. Reliable Dual Tensor Model Estimation in Single and Crossing Fibers Based on Jeffreys Prior

    Science.gov (United States)

    Yang, Jianfei; Poot, Dirk H. J.; Caan, Matthan W. A.; Su, Tanja; Majoie, Charles B. L. M.; van Vliet, Lucas J.; Vos, Frans M.

    2016-01-01

    Purpose This paper presents and studies a framework for reliable modeling of diffusion MRI using a data-acquisition adaptive prior. Methods Automated relevance determination estimates the mean of the posterior distribution of a rank-2 dual tensor model exploiting Jeffreys prior (JARD). This data-acquisition prior is based on the Fisher information matrix and enables the assessment whether two tensors are mandatory to describe the data. The method is compared to Maximum Likelihood Estimation (MLE) of the dual tensor model and to FSL’s ball-and-stick approach. Results Monte Carlo experiments demonstrated that JARD’s volume fractions correlated well with the ground truth for single and crossing fiber configurations. In single fiber configurations JARD automatically reduced the volume fraction of one compartment to (almost) zero. The variance in fractional anisotropy (FA) of the main tensor component was thereby reduced compared to MLE. JARD and MLE gave a comparable outcome in data simulating crossing fibers. On brain data, JARD yielded a smaller spread in FA along the corpus callosum compared to MLE. Tract-based spatial statistics demonstrated a higher sensitivity in detecting age-related white matter atrophy using JARD compared to both MLE and the ball-and-stick approach. Conclusions The proposed framework offers accurate and precise estimation of diffusion properties in single and dual fiber regions. PMID:27760166

  13. The physics of chromatin

    OpenAIRE

    Schiessel, Helmut

    2003-01-01

    Recent progress has been made in the understanding of the physical properties of chromatin -- the dense complex of DNA and histone proteins that occupies the nuclei of plant and animal cells. Here I will focus on the two lowest levels of the hierarchy of DNA folding into the chromatin complex: (i) the nucleosome, the chromatin repeating unit consisting of a globular aggregate of eight histone proteins with the DNA wrapped around: its overcharging, the DNA unwrapping transition, the ''sliding'...

  14. SUMO and Chromatin Remodeling.

    Science.gov (United States)

    Wotton, David; Pemberton, Lucy F; Merrill-Schools, Jacqueline

    2017-01-01

    Many of the known SUMO substrates are nuclear proteins, which regulate gene expression and chromatin dynamics. Sumoylation, in general, appears to correlate with decreased transcriptional activity, and in many cases modulation of the chromatin template is implicated. Sumoylation of the core histones is associated with transcriptional silencing, and transcription factor sumoylation can decrease gene expression by promoting recruitment of chromatin modifying enzymes. Additionally, sumoylation of transcriptional corepressors and chromatin remodeling enzymes can influence interactions with other transcriptional regulators, and alter their enzymatic activity. In some cases, proteins that are components of transcriptional corepressor complexes have been shown to be SUMO E3 ligases, further emphasizing the integration of sumoylation with the regulation of chromatin remodeling. Despite the evidence suggesting that sumoylation is primarily repressive for access to chromatin, recent analyses suggest that protein sumoylation on the chromatin template may play important roles at highly expressed genes. Elucidating the dynamic interplay of sumoylation with other post-translational modifications of histones and chromatin associated proteins will be key to fully understanding the regulation of access to the chromatin template.

  15. Coupling Characteristics of Fused Optical Fiber Coupler Formed with Single-Mode Fiber and Photonic Crystal Fiber Having Air Hole Collapsed Taper

    Directory of Open Access Journals (Sweden)

    Hirohisa Yokota

    2016-01-01

    Full Text Available Fused coupler forming with a single-mode fiber (SMF and a photonic crystal fiber (PCF is one of the solutions for optical coupling from a light source to a PCF. In this paper, we presented coupling characteristics of a fused fiber coupler formed with an ordinary SMF and a PCF having air hole collapsed taper. A prototype of SMF-PCF coupler with air hole collapsed taper was fabricated using CO2 laser irradiation. The coupling efficiency from SMF to PCF was −6.2 dB at 1554 nm wavelength in the fabricated coupler. The structure of the SMF-PCF coupler to obtain high coupling efficiency was theoretically clarified by beam propagation analysis using an equivalent model of the coupler with simplification. It was clarified that appropriately choosing the prestretched or etched SMF diameter and the length of air hole collapsed region was effective to obtain high coupling efficiency that was a result of high extinction ratio at cross port and low excess loss. We also demonstrated that the diameter of prestretched SMF to obtain high coupling efficiency was insensitive to the air hole diameter ratio to pitch of the PCF in the air hole collapsed SMF-PCF coupler.

  16. Specific-heat measurement of single metallic, carbon, and ceramic fibers at very high temperature

    International Nuclear Information System (INIS)

    Pradere, C.; Goyheneche, J.M.; Batsale, J.C.; Dilhaire, S.; Pailler, R.

    2005-01-01

    The main objective of this work is to present a method for measuring the specific heat of single metallic, carbon, and ceramic fibers at very high temperature. The difficulty of the measurement is due to the microscale of the fiber (≅10 μm) and the important range of temperature (700-2700 K). An experimental device, a modelization of the thermal behavior, and an analytic model have been developed. A discussion on the measurement accuracy yields a global uncertainty lower than 10%. The characterization of a tungsten filament with thermal properties identical to those of the bulk allows the validation of the device and the thermal estimation method. Finally, measurements on carbon and ceramic fibers have been done at very high temperature

  17. 2-kW single-mode fiber laser employing bidirectional-pump scheme

    Science.gov (United States)

    Zhang, Fan; Zheng, Wenyou; Shi, Pengyang; Zhang, Xinhai

    2018-01-01

    2kW single-mode fiber laser with two cascade home-made cladding light strippers (CLSs) by employing bidirectionalpump scheme has been demonstrated. 2.009 kW signal power is obtained when pump power is 2.63 kW and the slope efficiency is 76.6%. Raman Stokes light is less than -47 dB at 2.009 kW even with a 10-m delivery fiber with core/inner cladding diameter of 20/400um. The beam quality M2stability of +/-0.14% is achieved by special thermal management for a more uniform temperature distribution on the Yb-doped gain fiber.

  18. Acoustically segmented photonic crystal fiber for single-frequency high-power laser applications.

    Science.gov (United States)

    Robin, Craig; Dajani, Iyad

    2011-07-15

    The Brillouin gain characteristics of a Yb-doped polarization-maintaining photonic crystal fiber possessing a segmented acoustic profile are investigated using a pump-probe technique. The concentrations of fluorine, aluminum, and germanium in two regions of the core were selected, such that the corresponding Brillouin shifts were sufficiently separated to allow for the introduction of a temperature profile along the fiber for further stimulated Brillouin scattering suppression. By using a cutback technique to measure loss, we estimated the Brillouin gain coefficient to be 1.2×10(-11) m/W. Despite differences in the concentration levels of dopants between the two segments, there was no evidence of a development of an optical interface. When this fiber was utilized in a counterpumped amplifier configuration, close to 500 W of near-diffraction-limited single-frequency output was obtained. © 2011 Optical Society of America

  19. Single- and two-phase flow characterization using optical fiber bragg gratings.

    Science.gov (United States)

    Baroncini, Virgínia H V; Martelli, Cicero; da Silva, Marco José; Morales, Rigoberto E M

    2015-03-17

    Single- and two-phase flow characterization using optical fiber Bragg gratings (FBGs) is presented. The sensor unit consists of the optical fiber Bragg grating positioned transversely to the flow and fixed in the pipe walls. The hydrodynamic pressure applied by the liquid or air/liquid flow to the optical fiber induces deformation that can be detected by the FBG. Given that the applied pressure is directly related to the mass flow, it is possible to establish a relationship using the grating resonance wavelength shift to determine the mass flow when the flow velocity is well known. For two phase flows of air and liquid, there is a significant change in the force applied to the fiber that accounts for the very distinct densities of these substances. As a consequence, the optical fiber deformation and the correspondent grating wavelength shift as a function of the flow will be very different for an air bubble or a liquid slug, allowing their detection as they flow through the pipe. A quasi-distributed sensing tool with 18 sensors evenly spread along the pipe is developed and characterized, making possible the characterization of the flow, as well as the tracking of the bubbles over a large section of the test bed. Results show good agreement with standard measurement methods and open up plenty of opportunities to both laboratory measurement tools and field applications.

  20. Simple immunoglobulin G sensor based on thin core single-mode fiber

    Science.gov (United States)

    Zheng, Yingfang; Lang, Tingting; Shen, Tingting; Shen, Changyu

    2018-03-01

    In this paper, a simple fiber biosensor (FOB) for immunoglobulin G (IgG) detection is designed and experimentally verified. The FOB is constructed by a 20 mm long thin core single-mode fiber (TCSMF) sandwiched between two single-mode optical fibers (SMFs). First, the refractive index (RI) sensitivity of the fiber structures is calculated by the beam propagation method. The refractive index sensing experiment is performed using different concentrations of glycerol solutions, and the experimental results are mostly consistent with the simulation predictions. The experimental RI sensitivity increases with the surrounding RI and reaches 82.7 nm/RIU. Then the surface of the FOB is functionalized by APTES for covalent bonding. The human IgG and goat anti-human IgG are chosen as a bioconjugated pair to examine the bio-sensing effectiveness of this FOB. The sensitivity of IgG detection is determined to be 10.4 nm/(mg/ml). And the serum IgG concentration in normal adults lies within the range of 6-16 mg/ml (Worsfold et al., 1985), so the sensor is applicable to human IgG monitoring. The specificity of the FOB is also verified by a contrast experiment conducted using rabbit immunoglobulin G. The proposed FOB is simple, low loss, cost-effective, and can be used for various biological and chemical applications.

  1. Single myelin fiber imaging in living rodents without labeling by deep optical coherence microscopy.

    Science.gov (United States)

    Ben Arous, Juliette; Binding, Jonas; Léger, Jean-François; Casado, Mariano; Topilko, Piotr; Gigan, Sylvain; Boccara, A Claude; Bourdieu, Laurent

    2011-11-01

    Myelin sheath disruption is responsible for multiple neuropathies in the central and peripheral nervous system. Myelin imaging has thus become an important diagnosis tool. However, in vivo imaging has been limited to either low-resolution techniques unable to resolve individual fibers or to low-penetration imaging of single fibers, which cannot provide quantitative information about large volumes of tissue, as required for diagnostic purposes. Here, we perform myelin imaging without labeling and at micron-scale resolution with >300-μm penetration depth on living rodents. This was achieved with a prototype [termed deep optical coherence microscopy (deep-OCM)] of a high-numerical aperture infrared full-field optical coherence microscope, which includes aberration correction for the compensation of refractive index mismatch and high-frame-rate interferometric measurements. We were able to measure the density of individual myelinated fibers in the rat cortex over a large volume of gray matter. In the peripheral nervous system, deep-OCM allows, after minor surgery, in situ imaging of single myelinated fibers over a large fraction of the sciatic nerve. This allows quantitative comparison of normal and Krox20 mutant mice, in which myelination in the peripheral nervous system is impaired. This opens promising perspectives for myelin chronic imaging in demyelinating diseases and for minimally invasive medical diagnosis.

  2. The development of a single-crystal fiber-array scintillator area detector

    International Nuclear Information System (INIS)

    Loong, Chun; Vitt, Richard; Sayir, Ali; Sayir, Haluk

    2001-01-01

    The scientific output of a neutron instrument is directly proportional to the effectiveness of its detector system-coverage of scattering area, pixel resolution, counting efficiency, signal-to-noise ratio, life time and cost. The current neutron scintillator detectors employ mainly 6 Li-doped glass and ZnS, both of which present well-know limitations such as low light output, high gamma sensitivity in the case of 6 Li-glass and optical opacity in the case of ZnS. We aim to develop a position-sensitive, flight-time differentiable, efficient and cost-effective neutron detector system based on single-crystal scintillator fiber-arrays. The laser-heated melt modulation fiber growth technology developed at NASA provides the means to grow high-purity single-crystal fibers or rods of variable diameters (200 μm to 5 mm) and essentially unlimited length. Arrays of such fibers can be tailored to meet the requirements of pixel size, geometric configuration, and coverage area for a detector system. We report a plan in the growth and characterization of scintillators based on lithium silicates and boron aluminates using Ce as activator. (author)

  3. BEND-INDUCED LOSSES IN A SINGLE-MODE MICROSTRUCTURED FIBER WITH A LARGE CORE

    Directory of Open Access Journals (Sweden)

    Y. A. Gatchin

    2015-03-01

    Full Text Available A study of bend-induced losses in a silica-based single-mode microstructured fiber with a core diameter ranging from 20 to 35 microns and increased relative air content in the holey cladding has been conducted. With the use of the equivalent step-index profile method in approximation of waveguide parameters of microstructured fiber (normalized frequency and normalized transverse attenuation constant the effect of bending on the spectral position of the fundamentalmode short-wavelength leakage boundary has been analyzed. Upon measurement of spectral characteristics of attenuation in the considered fibers good accordance of numerical and experimental data has been found out. It is shown that increase of the air content in the holey cladding leads to expansion of the mentioned boundary to lower wavelengths for the value from 150 to 800 nm depending on the core size and bending conditions. A single-transverse-mode propagation is achieved on fiber length of 5-10 meters due to a substantial difference in losses of fundamental and higher-order guided modes attained by bending. Optical losses in all studied samples are less than 10 dB/km at the wavelength λ = 1550 nm. The results of the study can be applied in the design of high-power laser systems having such basic requirements as a relatively large mode spot and high beam quality.

  4. Optical single sideband modulation radio over fiber system by using a fiber-Bragg-grating-based acousto-optic filter

    Science.gov (United States)

    Gao, Song; Pei, Li; Li, Zhuoxuan; Liu, Chao; Wang, Yiqun; Weng, Sijun

    2013-03-01

    An optical single sideband (OSSB) modulation radio over a fiber system, by using an acousto-optic filter (AOF), is proposed and demonstrated. In the AOF, a uniform fiber Bragg grating is etched and modulated by an axially propagating acoustic wave. Due to the acousto-optic superlattice modulation, two secondary reflection peaks, centered on the primary reflection peak, are generated. In the scheme, an optical double-sideband signal passes though the AOF to realize OSSB modulation. Because the reflect depth of the primary peak is much deeper than those of the secondary peaks, the carrier experiences higher attenuation than the upper sideband, which means the carrier-to-sideband ratio (CSR) can be optimized at the same time. We demonstrate this scheme via simulations, and successfully reduce the CSR from 9.73 to 2.9 dB. As a result, the receiving sensitivity improved from -23.43 to -31.18 dBm at BER of 10-9 with 30 km long SMF.

  5. Fiber refractive index sensor based on dual polarized Mach-Zehnder interference caused by a single-mode fiber loop.

    Science.gov (United States)

    Chen, Lei; Zhang, Wei-Gang; Wang, Li; Zhou, Quan; Sieg, Jonathan; Zhao, De-Long; Wang, Biao; Yan, Tie-Yi; Wang, Song

    2016-01-01

    A novel refractive index (RI) sensor head is proposed and experimentally demonstrated in this paper. The proposed sensor head is composed of a segment of bared single-mode fiber and a fiber holder that is fabricated by a 3D printer. The mechanism of the sensor head is based on dual polarized Mach-Zehnder interference. According to the aforementioned mechanism, we derived that the RI responses of the resonance dips possess an exponential functional manner when the E field is along the fast or slow axes. In addition, based on the finite element method, we found that the resonance dips wavelength responses are more sensitive when the input E field is along the fast axis. A confirmation experiment was performed, and the results confirmed our hypothesis. The maximum arithmetic mean value of RI response is about 657.895  nm/RIU for the proposed sensor head when the ambient RI changes from 1.3350 to 1.4110. Moreover, in the case of the proposed liquid RI sensor head, aligning the E field along the fast axis is the potentially needed condition for polarization.

  6. Deciphering Noncoding RNA and Chromatin Interactions: Multiplex Chromatin Interaction Analysis by Paired-End Tag Sequencing (mChIA-PET).

    Science.gov (United States)

    Choy, Jocelyn; Fullwood, Melissa J

    2017-01-01

    Genomic DNA is dynamically associated with protein factors and folded to form chromatin fibers. The 3-dimensional (3D) configuration of the chromatin will enable the distal genetic elements to come into close proximity, allowing transcriptional regulation. Noncoding RNA can mediate the 3D structure of chromatin. Chromatin Interaction Analysis by Paired-End Tag Sequencing (ChIA-PET) is a valuable and powerful technique in molecular biology which allows the study of unbiased, genome-wide de novo chromatin interactions with paired-end tags. Here, we describe the standard version of ChIA-PET and a Multiplex ChIA-PET version.

  7. Wavelength-selectable and steady single-mode erbium-doped fiber multiple ring laser

    Science.gov (United States)

    Yeh, Chien-Hung; Yang, Zi-Qing; Huang, Tzu-Jung; Chow, Chi-Wai; Chen, Jing-Heng; Chen, Kun-Huang

    2017-11-01

    To achieve a stable and selectable C-band erbium-doped fiber (EDF) laser with single-longitudinal-mode output, a multiple ring architecture is proposed and demonstrated experimentally. In this work, we design a passively quadruple-ring structure in the cavity of an EDF laser to produce a Vernier effect with a mode filter for suppressing the multimode spikes significantly. In addition, the output performance and stability of the proposed EDF ring laser are discussed.

  8. Single-longitudinal mode distributed-feedback fiber laser with low-threshold and high-efficiency

    Science.gov (United States)

    Jiang, Man; Zhou, Pu; Gu, Xijia

    2018-01-01

    Single-frequency fiber laser has attracted a lot of interest in recent years due to its numerous application potentials in telecommunications, LIDAR, high resolution sensing, atom frequency standard, etc. Phosphate glass fiber is one of the candidates for building compact high gain fiber lasers because of its capability of high-concentration of rare-earth ions doping in fiber core. Nevertheless, it is challenging for the integration of UV-written intra-core fiber Bragg gratings into the fiber laser cavity due to the low photosensitivity of phosphate glass fiber. The research presented in this paper will focus on demonstration of UV-written Bragg gratings in phosphate glass fiber and its application in direct-written short monolithic single-frequency fiber lasers. Strong π-phase shift Bragg grating structure is direct-inscribed into the Er/Yb co-doped gain fiber using an excimer laser, and a 5-cm-long phase mask is used to inscribe a laser cavity into the Er/Yb co-doped phosphate glass fibers. The phase mask is a uniform mask with a 50 μm gap in the middle. The fiber laser device emits output power of 10.44 mW with a slope efficiency of 21.5% and the threshold power is about 42.8 mW. Single-longitudinal mode operation is validated by radio frequency spectrum measurement. Moreover, the output spectrum at the highest power shows an excellent optical signal to noise ratio of about 70 dB. These results, to the best of our knowledge, show the lowest power threshold and highest efficiency among the reports that using the same structure to achieve single-longitudinal mode laser output.

  9. Measurement of fluorophore concentration in scattering media by a single optical fiber

    Science.gov (United States)

    Stepp, Herbert; Beck, Tobias; Beyer, Wolfgang; Pfaller, Christian; Sroka, Ronald; Baumgartner, Reinhold

    2006-02-01

    Motivation: Photodynamic Therapy (PDT) with interstitial light delivery by multiple fibers for the treatment of large tissue volumes requires measurement of sensitizer distribution for dosimetric considerations. For stereotactic interstitial PDT of malignant glioma, for instance, a pre-irradiation comparison of the contrast enhancing tissue volume in MR-imaging with the photosensitized volume as assessed by fluorescence detection is desirable. For PDT of prostate cancer, the quantitative measurement of the selectivity of sensitizer uptake in cancer versus normal prostate parenchyma is important. Methods: It has previously been shown by others that the fluorescence intensity measured by a thin single optical fiber for excitation and detection is largely independent on optical parameters of the tissue that contains the fluorochrome. However, the investigators assumed similar values for excitation and emission wavelengths. This study concerned liquid phantom measurements (absorber: ink or hemoglobin, fluorochrome: Na-fluorescein) and Monte Carlo calculations, with extended conditions, where the absorption differs by a factor of 10 between excitation (426 nm) and emission (530 nm) wavelengths. The absorption coefficient (μ a') was varied between 0.01 - 0.3 mm-1 (@ 426 nm), the effective scattering coefficient (μ s') between 0.6 - 2.5 mm-1. A 200 μm and a 1000 μm core fiber were used. Results: Fluorescence intensity measured at 530 nm via a thin optical fiber (core diameter small compared to light penetration depth) depends minimally on optical tissue parameters. This result is valid for ink as absorber (μa identical at excitation and emission) as well as for hemoglobin (μa different). Fluorochrome concentration measurements seem possible with a 200 μm core fiber, but not with the 1000 μm core fiber.

  10. Single-fiber electromyography analysis of botulinum toxin diffusion in patients with fatigue and pseudobotulism.

    Science.gov (United States)

    Ruet, Alexis; Durand, Marie Christine; Denys, Pierre; Lofaso, Frederic; Genet, François; Schnitzler, Alexis

    2015-06-01

    To characterize electromyographic abnormalities according to symptoms (asymptomatic, fatigue, pseudobotulism) reported 1 month after botulinum toxin injection. Retrospective, single-center study comparing single-fiber electromyography (SFEMG) in the extensor digitorum communis (EDC) or orbicularis oculi (OO) muscles. Hospital. Four groups of adults treated for spasticity or neurologic bladder hyperactivity (N=55): control group (asymptomatic patients: n=17), fatigue group (unusual fatigue with no weakness: n=15), pseudobotulism group (muscle weakness and/or visual disturbance: n=20), and botulism group (from intensive care unit of the same hospital: n=3). Not applicable. Mean jitter, percentage of pathologic fibers, and percentage of blocked fibers were compared between groups. SFEMG was abnormal for 17.6% of control patients and 75% of patients in the pseudobotulism group. There were no differences between the control and fatigue groups. Mean jitter, percentage of pathologic fibers, and percentage of blocked fibers of the EDC muscle were significantly higher in the pseudobotulism group than in the fatigue and control groups. There were no differences between groups for the OO muscle. The SFEMG results in the botulism group were qualitatively similar to those of the pseudobotulism group. SFEMG of the EDC muscle confirmed diffusion of the toxin into muscles distant from the injection site in the pseudobotulism group. SFEMG in the OO muscle is not useful for the diagnosis of diffusion. No major signs of diffusion of botulinum toxin type A were found away from the injection site in patients with fatigue but no motor weakness. Such fatigue may be related to other mechanisms. Copyright © 2015 American Congress of Rehabilitation Medicine. Published by Elsevier Inc. All rights reserved.

  11. Role of Inelastic Transverse Compressive Behavior and Multiaxial Loading on the Transverse Impact of Kevlar KM2 Single Fiber

    Directory of Open Access Journals (Sweden)

    Subramani Sockalingam

    2017-02-01

    Full Text Available High-velocity transverse impact of ballistic fabrics and yarns by projectiles subject individual fibers to multi-axial dynamic loading. Single-fiber transverse impact experiments with the current state-of-the-art experimental capabilities are challenging due to the associated micron length-scale. Kevlar® KM2 fibers exhibit a nonlinear inelastic behavior in transverse compression with an elastic limit less than 1.5% strain. The effect of this transverse behavior on a single KM2 fiber subjected to a cylindrical and a fragment-simulating projectile (FSP transverse impact is studied with a 3D finite element model. The inelastic behavior results in a significant reduction of fiber bounce velocity and projectile-fiber contact forces up to 38% compared to an elastic impact response. The multiaxial stress states during impact including transverse compression, axial tension, axial compression and interlaminar shear are presented at the location of failure. In addition, the models show a strain concentration over a small length in the fiber under the projectile-fiber contact. A failure criterion, based on maximum axial tensile strain accounting for the gage length, strain rate and multiaxial loading degradation effects are applied to predict the single-fiber breaking speed. Results are compared to the elastic response to assess the importance of inelastic material behavior on failure during a transverse impact.

  12. Tuning the dispersion and single/multi-modeness of a hole-assisted fiber by the hole's geometrical parameters

    NARCIS (Netherlands)

    Uranus, H.P.; Hoekstra, Hugo; van Groesen, Embrecht W.C.

    2008-01-01

    Using a vectorial finite element mode solver developed earlier, we studied a hole-assisted multi-ring fiber. We report the role of the hole’s geometrical parameters in tuning the waveguide dispersion and the single/multi-modeness of the particular fiber. By correctly selecting the hole’s size and

  13. Q-switching and efficient harmonic generation from a single-mode LMA photonic bandgap rod fiber laser

    DEFF Research Database (Denmark)

    Laurila, Marko; Saby, Julien; Alkeskjold, Thomas T.

    2011-01-01

    We demonstrate a Single-Mode (SM) Large-Mode-Area (LMA) ytterbium-doped PCF rod fiber laser with stable and close to diffraction limited beam quality with 110W output power. Distributed-Mode-Filtering (DMF) elements integrated in the cladding of the rod fiber provide a robust spatial mode with a ...

  14. A passive micromachined device for alignment of arrays of single-mode fibers for hermetic photonic packaging - the CLASP concept

    Energy Technology Data Exchange (ETDEWEB)

    Seigal, P.K.; Kravitz, S.H.; Word, J.C.; Bauer, T.M. [and others

    1997-02-01

    A micro-machined fiber alignment device, called CLASP (Capture and Locking Alignment Spring Positioner) has been fabricated. It uses a nickel leaf spring to passively capture vertical arrays of single-mode fibers with {approximately} 2 {mu}m accuracy.

  15. Pulsed single-photon spectrometer by frequency-to-time mapping using chirped fiber Bragg gratings.

    Science.gov (United States)

    Davis, Alex O C; Saulnier, Paul M; Karpiński, Michał; Smith, Brian J

    2017-05-29

    A fiber-integrated spectrometer for single-photon pulses outside the telecommunications wavelength range based upon frequency-to-time mapping, implemented by chromatic group delay dispersion (GDD), and precise temporally-resolved single-photon counting, is presented. A chirped fiber Bragg grating provides low-loss GDD, mapping the frequency distribution of an input pulse onto the temporal envelope of the output pulse. Time-resolved detection with fast single-photon-counting modules enables monitoring of a wavelength range from 825 nm to 835 nm with nearly uniform efficiency at 55 pm resolution (24 GHz at 830 nm). To demonstrate the versatility of this technique, spectral interference of heralded single photons and the joint spectral intensity distribution of a photon-pair source are measured. This approach to single-photon-level spectral measurements provides a route to realize applications of time-frequency quantum optics at visible and near-infrared wavelengths, where multiple spectral channels must be simultaneously monitored.

  16. Influence of photo- and thermal bleaching on pre-irradiation low water peak single mode fibers

    Science.gov (United States)

    Yin, Jianchong; Wen, Jianxiang; Luo, Wenyun; Xiao, Zhongyin; Chen, Zhenyi; Wang, Tingyun

    2011-12-01

    Reducing the radiation-induced transmission loss in low water peak single mode fiber (LWP SMF) has been investigated by using photo-bleaching method with 980nm pump light source and using thermal-bleaching method with temperature control system. The results show that the radiation-induced loss of pre-irradiation optical fiber can be reduced effectively with the help of photo-bleaching or thermal-bleaching. Although the effort of photo-bleaching is not as significant as thermal-bleaching, by using photo-bleaching method, the loss of fiber caused by radiation-induced defects can be reduced best up to 49% at 1310nm and 28% at 1550nm in low pre-irradiation condition, the coating of the fiber are not destroyed, and the rehabilitating time is just several hours, while self-annealing usually costs months' time. What's more, the typical high power LASER for photo-bleaching can be 980nm pump Laser Diode, which is very accessible.

  17. Fiber-optic control and thermometry of single-cell thermosensation logic.

    Science.gov (United States)

    Fedotov, I V; Safronov, N A; Ermakova, Yu G; Matlashov, M E; Sidorov-Biryukov, D A; Fedotov, A B; Belousov, V V; Zheltikov, A M

    2015-11-13

    Thermal activation of transient receptor potential (TRP) cation channels is one of the most striking examples of temperature-controlled processes in cell biology. As the evidence indicating the fundamental role of such processes in thermosensation builds at a fast pace, adequately accurate tools that would allow heat receptor logic behind thermosensation to be examined on a single-cell level are in great demand. Here, we demonstrate a specifically designed fiber-optic probe that enables thermal activation with simultaneous online thermometry of individual cells expressing genetically encoded TRP channels. This probe integrates a fiber-optic tract for the delivery of laser light with a two-wire microwave transmission line. A diamond microcrystal fixed on the fiber tip is heated by laser radiation transmitted through the fiber, providing a local heating of a cell culture, enabling a well-controlled TRP-assisted thermal activation of cells. Online local temperature measurements are performed by using the temperature-dependent frequency shift of optically detected magnetic resonance, induced by coupling the microwave field, delivered by the microwave transmission line, to nitrogen--vacancy centers in the diamond microcrystal. Activation of TRP channels is verified by using genetically encoded fluorescence indicators, visualizing an increase in the calcium flow through activated TRP channels.

  18. All-fiber single-mode high modulation rate pseudorandom-coded laser

    Science.gov (United States)

    Zhang, Xin; Yang, Fang; Liu, Yuan; He, Yan; Hou, Xia; Chen, Weibiao

    2013-12-01

    An all-fiber high modulation speed pseudorandom-coded laser based on master oscillator power amplifier configuration is proposed. We use a high modulation rate distributed feedback laser diode as the seed laser to generate the original pseudorandom pulse train. The modulation rate is 1 Gb/s, which corresponds to a minimum pulse interval of 1 ns. A 1 kHz repetition frequency of 10-order M-sequence pseudorandom pulse train is chosen to balance on-line data processing speed and laser ranging resolution. Then, the pseudorandom pulse train is amplified by two-stage amplifiers to boost the output power. All components used in the amplifiers are built in single mode (SM) fiber, so the final output laser is SM with excellent beam quality. Finally, the peak power of pseudorandom code laser is amplified to 23.6 W from 1.5 mW without wave distortion, corresponding to a gain of 42 dB. The ranging experiment of using the optical fiber delay method indoors shows the transmitter of combining modulated laser diode and multistage fiber amplifiers as a promising solution for developing laser for pseudorandom-coded laser ranging.

  19. Development of distributed temperature sensor based on single-mode fiber

    Science.gov (United States)

    Jiang, Mingshun; Wang, Jing; Feng, Dejun; Sui, Qingmei

    2008-12-01

    The distributed optical fiber temperature measurement system (DTS) is a kind of sensing system, which is applied to the real-time measurement of the temperature field in space. It is widely used in monitoring of production process: fire alarm of coal mine and fuel depots, heat detection and temperature monitor of underground cable, seepage and leakage of dam. Through analyzing temperature effect of optical fiber Raman backscattering theoretically, a distributed temperature sensor based on single-mode fiber was designed, which overcame the inadequacies of multimode fiber. The narrow pulse width laser, excellent InGaAS PIN, low noise precision difet operational amplifier and high speed data acquisition card in order to improve the stability of this system were selected. The demodulation method based on ratio of Anti-Stokes and Stokes Raman backscattering intensity was adopted. Both hardware composition and software implementation of the system were introduced in detail. It is proved that its distinguishing ability of temperature and space are 1 m and 2 m, respectively. The system response time is about 180 s, with a sensing range of 5 km and the temperature measurement range 0~100 °C.

  20. Single- and dual-fiber fluorescence probes: application to oil-film measurements in an internal combustion engine.

    Science.gov (United States)

    Ghandhi, J B

    2000-10-20

    Single- and dual-fiber fluorescence probes have been utilized to study oil-film behavior in a firing Diesel engine. A detailed analysis of the response characteristics of these probes was performed, and universal response curves have been generated through identification of the appropriate nondimensional parameters. For single-fiber probes a single curve was obtained, and for dual-fiber probes families of curves were identified based on three geometric dimensionless parameters. The complementary response characteristics of the single- and dual-fiber probes allows determination of the oil distribution within the piston-liner gap. The dual-fiber probe is not sensitive at small distances. Thus its signal originates solely from the piston surface, whereas the single-fiber probe is most sensitive at small distances and hence to the wall oil film. The engine data from the dual-fiber probe confirmed the presence of an oil film on the piston and provided a means of quantifying the transport of this oil within the engine.

  1. Graphene based widely-tunable and singly-polarized pulse generation with random fiber lasers

    Science.gov (United States)

    Yao, B. C.; Rao, Y. J.; Wang, Z. N.; Wu, Y.; Zhou, J. H.; Wu, H.; Fan, M. Q.; Cao, X. L.; Zhang, W. L.; Chen, Y. F.; Li, Y. R.; Churkin, D.; Turitsyn, S.; Wong, C. W.

    2015-12-01

    Pulse generation often requires a stabilized cavity and its corresponding mode structure for initial phase-locking. Contrastingly, modeless cavity-free random lasers provide new possibilities for high quantum efficiency lasing that could potentially be widely tunable spectrally and temporally. Pulse generation in random lasers, however, has remained elusive since the discovery of modeless gain lasing. Here we report coherent pulse generation with modeless random lasers based on the unique polarization selectivity and broadband saturable absorption of monolayer graphene. Simultaneous temporal compression of cavity-free pulses are observed with such a polarization modulation, along with a broadly-tunable pulsewidth across two orders of magnitude down to 900 ps, a broadly-tunable repetition rate across three orders of magnitude up to 3 MHz, and a singly-polarized pulse train at 41 dB extinction ratio, about an order of magnitude larger than conventional pulsed fiber lasers. Moreover, our graphene-based pulse formation also demonstrates robust pulse-to-pulse stability and wide-wavelength operation due to the cavity-less feature. Such a graphene-based architecture not only provides a tunable pulsed random laser for fiber-optic sensing, speckle-free imaging, and laser-material processing, but also a new way for the non-random CW fiber lasers to generate widely tunable and singly-polarized pulses.

  2. Single lens photometric machine vision with 3D imaging for fiber-to-chip coupling.

    Science.gov (United States)

    Liu, Xu; Hu, Hongmei; Sun, Xiaohan

    2012-03-01

    A single lens photometric machine vision (SLPMV) optical microbench is presented and built for fiber-to-chip coupling. By a rotation mechanics in SLPMV, the multi-view-camera can scan the various surface status of the chips coupled. To realize 3D imaging more explicitly, the modified photometric stereo algorithm is proposed through acquiring the images of weak saturation, matching the scanning illuminative angles, and rectifying rectangularly the original images. The reconstructed images have had similar qualities as those obtained by scanning electron microscopy and have unveiled the detailed information obscured in the 2D images. For the InP-based optical waveguide chip coupled with wedge-shaped fiber, the insertion loss tested on the SLPMV is 3 dB less than one on the conventional testing station. The SLPMV could serve as a more cost-effective and compact scientific observation instrumentation in imaging informatics than commercial ones.

  3. Extraction and characterization of cellulose single fibers from native african napier grass.

    Science.gov (United States)

    Reddy, K Obi; Maheswari, C Uma; Dhlamini, M S; Mothudi, B M; Kommula, V P; Zhang, Jinming; Zhang, Jun; Rajulu, A Varada

    2018-05-15

    With increasing awareness of protecting the environment, the demand for renewable and environmental materials is increasing. In this work, the cellulose single fibers (CSFs) were extracted from the African native Napier grass fibers (NGFs) by chemical process. NGFs and CSFs were characterized for their chemical composition, structure, morphology, crystallinity and thermal properties using, chemical analysis, FTIR, 13C CP/MAS NMR, SEM, XRD and TGA techniques. The resulted CSFs had higher α-cellulose content, crystallinity and thermal stability than the pristine NGFs. SEM images showed cleaner and rough surfaces for the CSFs when compared to those of NGFs. About 69% of the extracted CSFs showed a diameter range between 4 and 10 μm. FTIR and 13C CP/MAS NMR spectra confirmed the removal of lignin and hemicellulose components after chemical treatments. Copyright © 2018 Elsevier Ltd. All rights reserved.

  4. Low Po2 conditions induce reactive oxygen species formation during contractions in single skeletal muscle fibers

    Science.gov (United States)

    Shiah, Amy; Roberts, William J.; Chien, Michael T.; Wagner, Peter D.; Hogan, Michael C.

    2013-01-01

    Contractions in whole skeletal muscle during hypoxia are known to generate reactive oxygen species (ROS); however, identification of real-time ROS formation within isolated single skeletal muscle fibers has been challenging. Consequently, there is no convincing evidence showing increased ROS production in intact contracting fibers under low Po2 conditions. Therefore, we hypothesized that intracellular ROS generation in single contracting skeletal myofibers increases during low Po2 compared with a value approximating normal resting Po2. Dihydrofluorescein was loaded into single frog (Xenopus) fibers, and fluorescence was used to monitor ROS using confocal microscopy. Myofibers were exposed to two maximal tetanic contractile periods (1 contraction/3 s for 2 min, separated by a 60-min rest period), each consisting of one of the following treatments: high Po2 (30 Torr), low Po2 (3–5 Torr), high Po2 with ebselen (antioxidant), or low Po2 with ebselen. Ebselen (10 μM) was administered before the designated contractile period. ROS formation during low Po2 treatment was greater than during high Po2 treatment, and ebselen decreased ROS generation in both low- and high-Po2 conditions (P Po2. Force was reduced >30% for each condition except low Po2 with ebselen, which only decreased ∼15%. We concluded that single myofibers under low Po2 conditions develop accelerated and more oxidative stress than at Po2 = 30 Torr (normal human resting Po2). Ebselen decreases ROS formation in both low and high Po2, but only mitigates skeletal muscle fatigue during reduced Po2 conditions. PMID:23576612

  5. A tunable and switchable single-longitudinal-mode dual-wavelength fiber laser with a simple linear cavity.

    Science.gov (United States)

    He, Xiaoying; Fang, Xia; Liao, Changrui; Wang, D N; Sun, Junqiang

    2009-11-23

    A simple linear cavity erbium-doped fiber laser based on a Fabry-Perot filter which consists of a pair of fiber Bragg gratings is proposed for tunable and switchable single-longitudinal-mode dual-wavelength operation. The single-longitudinal-mode is obtained by the saturable absorption of an unpumed erbium-doped fiber together with a narrow-band fiber Bragg grating. Under the high pump power (>166 mW) condition, the stable dual-wavelength oscillation with uniform amplitude can be realized by carefully adjusting the polarization controller in the cavity. Wavelength selection and switching are achieved by tuning the narrow-band fiber Bragg grating in the system. The spacing of the dual-wavelength can be selected at 0.20 nm (approximately 25.62 GHz), 0.22 nm (approximately 28.19 GHz) and 0.54 nm (approximately 69.19 GHz).

  6. Combined single-mode/multimode fiber link supporting simplified in-building 60-GHz gigabit wireless access

    DEFF Research Database (Denmark)

    Pham, Tien Thang; Lebedev, Alexander; Beltrán, Marta

    2012-01-01

    In this paper, we propose and experimentally demonstrate a simple, cost-effective hybrid gigabit fiber-wireless system for in-building wireless access. Simplicity and cost-effectiveness are achieved in all parts of the system by utilizing direct laser modulation, optical frequency up-conversion, ......In this paper, we propose and experimentally demonstrate a simple, cost-effective hybrid gigabit fiber-wireless system for in-building wireless access. Simplicity and cost-effectiveness are achieved in all parts of the system by utilizing direct laser modulation, optical frequency up......-conversion, combined single mode/multimode fiber transmission and envelope detection. Error-free transmission of 2-Gbps data in 60-GHz band over a composite channel including 10-km standard single-mode fiber (SSMF)/1-km multimode fiber (MMF) and 6.5-m air transmission was successfully achieved....

  7. Choosing a Better Delay Line Medium between Single-Mode and Multi-Mode Optical Fibers: the Effect of Bending

    Directory of Open Access Journals (Sweden)

    Auwal Mustapha Imam

    2017-12-01

    Full Text Available Optical fiber cables are materials whose core is made of silica and other materials such as chalcogenide glasses; they transmit a digital signal via light pulses through an extremely thin strand of glass. The light propagates and is being guided by the core which is surrounded by the cladding. Light travels in the optical fiber in the form of total internal reflection in the core of the fibers. The flexibility, low tensile strength, low signal loss, high bandwidth and other characteristics of optical fibers favors it for use as a delay medium in many applications. Another favorable characteristic of optical fiber delay lines is are their relative insensitivities to environmental effects and electromagnetic interferences. The immunity of optical fibers to interferences and their less weight added advantages to it for use as delay medium. Single-mode and multi-mode are the two most popular types of optical fibers. Single-mode fibers have good propagation and delay properties with a minimal loss that allows the signal to propagate in a large distance with insignificant distortion or attenuation. The percentage of power transmission of single-mode fibers is found to be higher than that of the multi-mode fibers. It is, therefore, a preferred type for use as a delay line. In this paper, relative studies of the two optical fibers modes, and the results of power input/output measurement of the two modes are presented with a view to coming up with a better type for use as a delay medium.

  8. Spectrally pure heralded single photons by spontaneous four-wave mixing in a fiber: reducing impact of dispersion fluctuations

    DEFF Research Database (Denmark)

    Koefoed, Jacob Gade; Friis, Søren Michael Mørk; Christensen, Jesper Bjerge

    2017-01-01

    We model the spectral quantum-mechanical purity of heralded single photons from a photon-pair source based on nondegenerate spontaneous four-wave mixing taking the impact of distributed dispersion fluctuations into account. The considered photon-pair-generation scheme utilizes pump-pulse walk......-off to produce pure heralded photons and phase matching is achieved through the dispersion properties of distinct spatial modes in a few-mode silica step-index fiber. We show that fiber-core-radius fluctuations in general severely impact the single-photon purity. Furthermore, by optimizing the fiber design we...... frequency. (C) 2017 Optical Society of America...

  9. Pre-embedding staining of single muscle fibers for light and electron microscopy studies of subcellular organization

    DEFF Research Database (Denmark)

    Ralston, E; Ploug, Thorkil

    1996-01-01

    ) immunocytochemistry. Here we show that pre-embedding staining of single teased fibers, or of single enzymatically dissociated fibers, has several advantages over the use of sections for observing discrete patterns that extend over long distances in the cells. We report on an optimization study carried out......Skeletal muscle fibers are large, multinucleated cells which pose a challenge to the morphologist. In the course of studies of the distribution of the glucose transporter GLUT4, in muscle, we have compared different preparative procedures, for both light (LM) and electron microscopy (EM...

  10. Efficient fiber-coupled single-photon source based on quantum dots in a photonic-crystal waveguide

    DEFF Research Database (Denmark)

    Daveau, Raphaël S.; Balram, Krishna C.; Pregnolato, Tommaso

    2017-01-01

    Many photonic quantum information processing applications would benefit from a high brightness, fiber-coupled source of triggered single photons. Here, we present a fiber-coupled photonic-crystal waveguide (PCWG) singlephoton source relying on evanescent coupling of the light field from a tapered...... transfer it to the fiber. The applied outcoupling method is robust, stable over time, and broadband over several tens of nanometers, which makes it a highly promising pathway to increase the efficiency and reliability of planar chip-based single-photon sources....

  11. Toward single-mode UV to near-IR guidance using hollow-core anti-resonant silica fiber

    DEFF Research Database (Denmark)

    Habib, Md Selim; Antonio-Lopez, Jose Enrique; Van Newkirk, Amy

    2017-01-01

    Hollow-core anti-resonant (HC-AR) fibers with a “negative-curvature” of the core-cladding boundary have been extensively studied over the past few years owing to their low loss and wide transmission bandwidths. The key unique feature of the HC-AR fiber is that the coupling between the core and cl...... a silica HC-AR fiber having a single ring of 7 non-touching capillaries, designed to have effectively single-mode operation and low loss from UV to near-IR....

  12. Over 19 W Single-Mode 1545 nm Er,Yb Codoped All-Fiber Laser

    Directory of Open Access Journals (Sweden)

    Jiadong Wu

    2017-01-01

    Full Text Available We report a high-power cladding-pumped Er,Yb codoped all-fiber laser with truly single transverse mode output. The fiber laser is designed to operate at 1545 nm by the use of a pair of fiber Bragg gratings (FBGs to lock and narrow the output spectrum, which can be very useful in generating the eye-safe ~1650 nm laser emission through the Stimulated Raman Scattering (SRS in silica fibers that is of interest in many applications. Two pieces of standard single-mode fibers are inserted into the laser cavity and output port to guarantee the truly single-mode output as well as good compatibility with other standard fiber components. We have obtained a maximum output power of 19.2 W at 1544.68 nm with a FWHM spectral width of 0.08 nm, corresponding to an average overall slope efficiency of 31.9% with respect to the launched pump power. This is, to the best of our knowledge, the highest output power reported from simple all-fiber single-mode Er,Yb codoped laser oscillator architecture.

  13. Comparative investigation of methods to determine the group velocity dispersion of an endlessly single-mode photonic crystal fiber

    Science.gov (United States)

    Baselt, Tobias; Popp, Tobias; Nelsen, Bryan; Lasagni, Andrés. Fabián.; Hartmann, Peter

    2017-05-01

    Endlessly single-mode fibers, which enable single mode guidance over a wide spectral range, are indispensable in the field of fiber technology. A two-dimensional photonic crystal with a silica central core and a micrometer-spaced hexagonal array of air holes is an established method to achieve endless single-mode guidance. There are two possible ways to determine the dispersion: measurement and calculation. We calculate the group velocity dispersion GVD based on the measurement of the fiber structure parameters, the hole diameter and the pitch of a presumed homogeneous hexagonal array and compare the calculation with two methods to measure the wavelength-dependent time delay. We measure the time delay on a three hundred meter test fiber with a homemade supercontinuum light source, a set of bandpass filters and a fast detector and compare the results with a white light interferometric setup. To measure the dispersion of optical fibers with high accuracy, a time-frequency-domain setup based on a Mach-Zehnder interferometer is used. The experimental setup allows the determination of the wavelength dependent differential group delay of light travelling through a thirty centimeter piece of test fiber in the wavelength range from VIS to NIR. The determination of the GVD using different methods enables the evaluation of the individual methods for characterizing the endlessly single-mode fiber.

  14. Circular chromatin complexes in human lymphocytes high-resolution autoradiography

    International Nuclear Information System (INIS)

    Becak, M.L.; Fukuda-Pizzocaro, K.; Santos, R. de C.S. dos; Brunner, O.

    1985-01-01

    Transcriptionally active chromatin fibers were observed in chromosomes presenting the loops/scaffold configuration. The active fibers showed altered nucleosomes and presented multiforked aspects which led to the formation of ring complexes. The ribonucleoprotein transcripts (RNP) appeared as networks of 0.1 μm or multiples tandemly disposed along the fiber. It is suggested that the ring complexes belong to the human genome. The possibility that these circular structures come from a prokaryote is also considered. (author) [pt

  15. Single-crystal SrTiO3 fiber grown by laser heated pedestal growth method: influence of ceramic feed rod preparation in fiber quality

    Directory of Open Access Journals (Sweden)

    D. Reyes Ardila

    1998-10-01

    Full Text Available The rapidly spreading use of optical fiber as a transmission medium has created an interest in fiber-compatible optical devices and methods for growing them, such as the Laser Heated Pedestal Growth (LHPG. This paper reports on the influence of the ceramic feed rod treatment on fiber quality and optimization of ceramic pedestal processing that allows improvements to be made on the final quality in a simple manner. Using the LHPG technique, transparent crack-free colorless single crystal fibers of SrTiO3 (0.50 mm in diameter and 30-40 mm in length were grown directly from green-body feed rods, without using external oxygen atmosphere.

  16. Utilizing wheel-ring architecture for stable and selectable single-longitudinal-mode erbium fiber laser

    Science.gov (United States)

    Yeh, Chien-Hung; Yang, Zi-Qing; Huang, Tzu-Jung; Chow, Chi-Wai

    2018-03-01

    To achieve a steady single-longitudinal-mode (SLM) erbium-doped fiber (EDF) laser, the wheel-ring architecture is proposed in the laser cavity. According to Vernier effect, the proposed wheel-ring can produce three different free spectrum ranges (FSRs) to serve as the mode-filter for suppressing the densely multi-longitudinal-mode (MLM). Here, to complete wavelength-tunable EDF laser, an optical tunable bandpass filter (OTBF) is utilized inside the cavity for tuning arbitrarily. In addition, the entire output performances of the proposed EDF wheel-ring laser are also discussed and analyzed experimentally.

  17. 4 × 160-Gbit/s multi-channel regeneration in a single fiber

    DEFF Research Database (Denmark)

    Wang, Ju; Ji, Hua; Hu, Hao

    2014-01-01

    Simultaneous regeneration of four high-speed (160 Gbit/s) wavelength-division multiplexed (WDM) and polarization-division multiplexed (PDM) signals in a single highly nonlinear fiber (HNLF) is demonstrated. The regeneration operation is based on four-wave mixing in HNLF, where the degraded data...... phase modulation of the CW light. Mitigation of the inter-channel nonlinearities is achieved mainly through an inter-channel 0.5 bit slot time delay. Bidirectional propagation is also applied to relieve the inter-channel four-wave mixing. The multi-channel regeneration performance is validated by bit...

  18. Effects of underwater turbulence on laser beam propagation and coupling into single-mode optical fiber.

    Science.gov (United States)

    Hanson, Frank; Lasher, Mark

    2010-06-01

    We characterize and compare the effects of turbulence on underwater laser propagation with theory. Measurements of the coupling efficiency of the focused beam into a single-mode fiber are reported. A simple tip-tilt control system, based on the position of the image centroid in the focal plane, was shown to maintain good coupling efficiency for a beam radius equal to the transverse coherence length, r(0). These results are relevant to high bandwidth communication technology that requires good spatial mode quality.

  19. Microsecond fiber laser pumped, single-frequency optical parametric oscillator for trace gas detection.

    Science.gov (United States)

    Barria, Jessica Barrientos; Roux, Sophie; Dherbecourt, Jean-Baptiste; Raybaut, Myriam; Melkonian, Jean-Michel; Godard, Antoine; Lefebvre, Michel

    2013-07-01

    We report on the first microsecond doubly resonant optical parametric oscillator (OPO). It is based on a nested cavity OPO architecture allowing single longitudinal mode operation and low oscillation threshold (few microjoule). The combination with a master oscillator-power amplifier fiber pump laser provides a versatile optical source widely tunable in the 3.3-3.5 μm range with an adjustable pulse repetition rate (from 40 to 100 kHz), high duty cycle (~10(-2)) and mean power (up to 25 mW in the idler beam). The potential for trace gas sensing applications is demonstrated through photoacoustic detection of atmospheric methane.

  20. High core count single-mode multicore fiber for dense space division multiplexing

    DEFF Research Database (Denmark)

    Aikawa, K.; Sasaki, Y.; Amma, Y.

    2016-01-01

    Multicore fibers and few-mode fibers have the potential to realize dense-space-division multiplexing systems. Several dense-space-division multiplexing system transmission experiments over multicore fibers and few-mode fibers have been demonstrated so far. Multicore fibers, including recent resul...

  1. Artificially controlled backscattering in single mode fibers based on femtosecond laser fabricated reflectors

    Science.gov (United States)

    Wang, Xiaoliang; Chen, Daru; Li, Haitao; Wu, Qiong

    2018-04-01

    A novel method to artificially control the backscattering of the single-mode fiber (SMF) is proposed and investigated for the first time. This method can help to fabricate a high backscattering fiber (HBSF), such as by fabricating reflectors in every one meter interval of an SMF based on the exposure of the femtosecond laser beam. The artificially controlled backscattering (ACBS) can be much higher than the natural Rayleigh backscattering (RB) of the SMF. The RB power and ACBS power in the unit length fiber are derived according to the theory of the RBS. The total relative power and the relative back power reflected in the unit length of the HBSF have been simulated and presented. The simulated results show that the HBSF has the characteristics of both low optical attenuation and high backscattering. The relative back power reflected in the unit length of the HBSF is 25dB larger than the RB power of the SMF when the refractive index modulation quantity of the reflectors is 0.009. Some preliminary experiments also indicate that the method fabricating reflectors to increase the backscattering power of the SMF is practical and promising.

  2. An Intrinsic Fiber-Optic Single Loop Micro-Displacement Sensor

    Directory of Open Access Journals (Sweden)

    Guillermo Salceda-Delgado

    2012-01-01

    Full Text Available A micro-displacement sensor consisting of a fiber-loop made with a tapered fiber is reported. The sensor operation is based on the interaction between the fundamental cladding mode propagating through the taper waist and higher order cladding modes excited when the taper is deformed to form a loop. As a result, a transmission spectrum with several notches is observed, where the notch wavelength resonances shift as a function of the loop diameter. The loop diameter is varied by the spatial displacement of one end of the fiber-loop attached to a linear translation stage. In a displacement range of 3.125 mm the maximum wavelength shift is 360.93 nm, with 0.116 nm/μm sensitivity. By using a 1,280 nm broadband low-power LED source and a single Ge-photodetector in a power transmission sensor setup, a sensitivity in the order of 2.7 nW/μm is obtained in ~1 mm range. The proposed sensor is easy to implement and has a plenty of room to improve its performance.

  3. Single and multichannel scintillating fiber dosimeter for radiotherapic beams with SiPM readout

    Energy Technology Data Exchange (ETDEWEB)

    Berra, A., E-mail: alessandro.berra@gmail.it [Università degli Studi dell' Insubria e INFN sezione di Milano Bicocca (Italy); Ferri, A. [Fondazione Bruno Kessler, Centro per i Materiali e i Microsistemi (Italy); Novati, C. [Università degli Studi dell' Insubria e INFN sezione di Milano Bicocca (Italy); Ostinelli, A. [Ospedale Sant' Anna, Servizio di Fisica Sanitaria (Italy); Paternoster, G.; Piemonte, C. [Fondazione Bruno Kessler, Centro per i Materiali e i Microsistemi (Italy); Prest, M. [Università degli Studi dell' Insubria e INFN sezione di Milano Bicocca (Italy); Vallazza, E. [INFN Sezione di Trieste (Italy)

    2016-12-01

    The treatment of many neoplastic diseases requires the use of radiotherapy, which consists in the irradiation of the tumor, identified as the target volume, with ionizing radiations generated both by administered radiopharmaceuticals or by linear particle accelerators (LINACs). The radiotherapy beam delivered to the patient must be regularly checked to assure the best tumor control probability: this task is performed with dosimeters, i.e. devices able to provide a measurement of the dose deposited in their sensitive volume. This paper describes the development of two scintillator dosimeter prototypes for radiotherapic applications based on plastic scintillating fibers read out by high dynamic range Silicon PhotoMultipliers. The first dosimeter, consisting of a single-channel prototype with a pair of optical fibers, a scintillating and a white one, read out by two SiPMs, has been fully characterized and led to the development of a second multi-channel dosimeter based on an array of scintillating fibers: this device represents the first step towards the assembly of a “one-shot” device, capable to perform some of the daily quality controls in a few seconds. The dosimeters characterization was performed with a Varian Clinac iX linear accelerator at the Radiotherapy Department of the St. Anna Hospital in Como (IT).

  4. Insertion of linear 8.4 μm diameter 16 channel carbon fiber electrode arrays for single unit recordings

    Science.gov (United States)

    Patel, Paras R.; Na, Kyounghwan; Zhang, Huanan; Kozai, Takashi D. Y.; Kotov, Nicholas A.; Yoon, Euisik; Chestek, Cynthia A.

    2016-01-01

    Objective Single carbon fiber electrodes (d=8.4 μm) insulated with parylene-c and functionalized with PEDOT:pTS have been shown to record single unit activity but manual implantation of these devices with forceps can be difficult. Without an improvement in the insertion method any increase in the channel count by fabricating carbon fiber arrays would be impractical. In this study, we utilize a water soluble coating and structural backbones that allow us to create, implant, and record from fully functionalized arrays of carbon fibers with ~150 μm pitch. Approach Two approaches were tested for the insertion of carbon fiber arrays. The first method used a PEG coating that temporarily stiffened the fibers while leaving a small portion at the tip exposed. The small exposed portion (500 μm – 1 mm) readily penetrated the brain allowing for an insertion that did not require the handling of each fiber by forceps. The second method involved the fabrication of silicon support structures with individual shanks spaced 150 μm apart. Each shank consisted of a small groove that held an individual carbon fiber. Main results Our results showed that the PEG coating allowed for the chronic implantation of carbon fiber arrays in 5 rats with unit activity detected at 31 days post-implant. The silicon support structures recorded single unit activity in 3 acute rat surgeries. In one of those surgeries a stacked device with 3 layers of silicon support structures and carbon fibers was built and shown to readily insert into the brain with unit activity on select sites. Significance From these studies we have found that carbon fibers spaced at ~150 μm readily insert into the brain. This greatly increases the recording density of chronic neural probes and paves the way for even higher density devices that have a minimal scarring response. PMID:26035638

  5. Extremely low-loss single-mode photonic crystal fiber in the terahertz regime

    DEFF Research Database (Denmark)

    Islam, Raonaqul; Hasanuzzaman, G. K M; Sadath, Md Anwar

    2015-01-01

    This paper presents an updated design and numerical characterization of a rotated porous-core hexagonal photonic crystal fiber (PCF) for single-mode terahertz (THz) wave guidance. The simulation results are found using an efficient finite element method (FEM) which show a better and ultra......-low effective absorption loss of 0.045 cm-1 at 1 THz and a more flattened dispersion of 0.74±0.07ps/THz/cm in a wider bandwidth (0.54-1.36 THz) than the previously reported results. Besides, the single-mode region has been extended up to 1.74 THz (previously up to 1.3 THz) which is advantageous for wideband THz...

  6. Ce-doped LuAG single-crystal fibers grown from the melt for high-energy physics

    CERN Document Server

    Xu, X; Moretti, F; Pauwels, K; Lecoq, P; Auffray, E; Dujardin, C

    2014-01-01

    Under a stationary stable regime undoped and Ce-doped LuAG (Lu3Al5O12) single-crystal fibers were grown by a micro-pulling-down technique. The meniscus length corresponding to the equilibrium state was <200 mu m. Fluctuations in the fiber composition and pulling rate were found to have a significant effect on the properties of the fibers grown. A great improvement in the performance was found in samples containing low Ce concentrations (<= 0.1 at.\\%) and produced using pulling rates <0.5 mm min(-1). Under such conditions a good lateral surface fiber quality was obtained and light propagation was significantly improved. Conversely, a high Ce concentration and a high pulling rate resulted in a strong degradation of the fiber surface quality causing defects to appear and a decrease in light output. (C) 2014 Acta Materialia Inc. Published by Elsevier Ltd. All rights reserved.

  7. Coloration of chromium-doped yttrium aluminum garnet single-crystal fibers using a divalent codopant

    International Nuclear Information System (INIS)

    Tissue, B.M.; Jia, W.; Lu, L.; Yen, W.M.

    1991-01-01

    We have grown single-crystal fibers of Cr:YAG and Cr,Ca:YAG under oxidizing and reducing conditions by the laser-heated-pedestal-growth method. The Cr:YAG crystals were light green due to Cr 3+ in octahedral sites, while the Cr,Ca:YAG crystals were brown. The presence of the divalent codopant was the dominant factor determining the coloration in these single-crystal fibers, while the oxidizing power of the growth atmosphere had little effect on the coloration. The Cr,Ca:YAG had a broad absorption band centered at 1.03 μm and fluoresced from 1.1 to 1.7 μm, with a room-temperature lifetime of 3.5 μs. The presence of both chromium and a divalent codopant were necessary to create the optically-active center which produces the near-infrared emission. Doping with only Ca 2+ created a different coloration with absorption in the blue and ultraviolet. The coloration in the Cr,Ca:YAG is attributed to Cr 4+ and is produced in as-grown crystals without irradiation or annealing, as has been necessary in previous work

  8. Self-centering fiber alignment structures for high-precision field installable single-mode fiber connectors

    Science.gov (United States)

    Van Erps, Jürgen; Ebraert, Evert; Gao, Fei; Vervaeke, Michael; Berghmans, Francis; Beri, Stefano; Watté, Jan; Thienpont, Hugo

    2014-05-01

    There is a steady increase in the demand for internet bandwidth, primarily driven by cloud services and high-definition video streaming. Europe's Digital Agenda states the ambitious objective that by 2020 all Europeans should have access to internet at speeds of 30Mb/s or above, with 50% or more of households subscribing to connections of 100Mb/s. Today however, internet access in Europe is mainly based on the first generation of broadband, meaning internet accessed over legacy telephone copper and TV cable networks. In recent years, Fiber-To-The-Home (FTTH) networks have been adopted as a replacement of traditional electrical connections for the `last mile' transmission of information at bandwidths over 1Gb/s. However, FTTH penetration is still very low (FTTH networks. Indeed, the success and adoption of optical access networks critically depend on the quality and reliability of connections between optical fibers. In particular a further reduction of insertion loss of field- installable connectors must be achieved without a significant increase in component cost. This requires precise alignment of fibers that can differ in terms of ellipticity, eccentricity or diameter and seems hardly achievable using today's widespread ferrule-based alignment systems. In this paper, we present a field-installable connector based on deflectable/compressible spring structures, providing a self-centering functionality for the fiber. This way, it can accommodate for possible fiber cladding diameter variations (the tolerance on the cladding diameter of G.652 fiber is typically +/-0.7μm). The mechanical properties of the cantilever are derived through an analytical approximation and a mathematical model of the spring constant, and finite element-based simulations are carried out to find the maximum first principal stress as well as the stress distribution distribution in the fiber alignment structure. Elastic constants of the order of 104N=m are found to be compatible with a proof

  9. The use of Lorentz group formalism in solving polarization effects of a birefringent single mode optical fiber

    International Nuclear Information System (INIS)

    Ishiekwene, G.C.; Brown, C.S.; Mensah, S.Y.; Bak, A.E.

    2000-07-01

    A theoretical analysis on the polarization effects of a light beam propagating in a birefringent single-mode fiber is presented. We derive a system of differential equations representing the evolution of Stokes parameters and illustrate their application to polarization effects in a straight birefringent single mode optical fiber. The solutions to the set of equations are obtained using specifically the methods of the unified formalism for polarization optics which adopt the use of the Stokes-Mueller equation and the Lorentz group to model polarization phenomena in media such as optical fibers. The analytical results presented using this approach are identical to results obtained from other conventional methods. We observe the characteristic exponential decrease in the total intensity of the input light due to attenuation by the fiber. (author)

  10. Single-mode optical fiber design with wide-band ultra low bending-loss for FTTH application.

    Science.gov (United States)

    Watekar, Pramod R; Ju, Seongmin; Han, Won-Taek

    2008-01-21

    We propose a new design of a single-mode optical fiber (SMF) which exhibits ultra low bend sensitivity over a wide communication band (1.3 microm to 1.65 microm). A five-cladding fiber structure has been proposed to minimize the bending loss, estimated to be as low as 4.4x10(-10) dB/turn for the bend radius of 10 mm.

  11. Design and prototyping of self-centering optical single-mode fiber alignment structures

    International Nuclear Information System (INIS)

    Ebraert, Evert; Gao, Fei; Thienpont, Hugo; Van Erps, Jürgen; Beri, Stefano; Watté, Jan

    2016-01-01

    The European Commission’s goal of providing each European household with at least a 30 Mb s −1 Internet connection by 2020 would be facilitated by a widespread deployment of fibre-to-the-home, which would in turn be sped up by the development of connector essential components, such as high-precision alignment features. Currently, the performance of state-of-the-art physical contact optical fiber connectors is limited by the tolerance on the cladding of standard telecom-grade single-mode fiber (SMF), which is typically smaller than  ±1 μ m. We propose to overcome this limit by developing micro-spring-based self-centering alignment structures (SCAS) for SMF-connectors. We design these alignment structures with robustness and low-cost replication in mind, allowing for large-scale deployment. Both theoretical and finite element analysis (FEA) models are used to determine the optimal dimensions of the beams of which the micro-springs of the SCAS are comprised. Two topologies of the SCAS, consisting of three and four micro-springs respectively, are investigated for two materials: polysulfone (PSU) and polyetherimide (PEI). These materials hold great potential for high-performance fiber connectors while being compatible with low-cost production and with the harsh environmental operation conditions of those connectors. The theory and FEA agree well (<3% difference) for a simple micro-spring. When including a pedestal on the micro-spring (to bring it further away from the fiber) and for shorter spring lengths the agreement worsens. This is due to spring compression effects not being taken into account in our theoretical model. Prototypes are successfully fabricated using deep proton writing and subsequently characterized. The controlled insertion of an SMF in the SCAS is investigated and we determine that a force of 0.11 N is required. The fiber insertion also causes an out-of-plane deformation of the micro-springs in the SCAS of about 7 μ m, which is no

  12. Investigation of the polarization anisotropy in a single-mode quartz fiber

    Science.gov (United States)

    Kozel, S. M.; Listvin, V. N.; Shatalin, S. V.

    A method is presented for investigating the fiber-length dependence of optical activity, linear birefringence and the azimuth of the major axis of linear birefringence on the basis of the evolution of two states of light polarization in a fiber with arbitrary polarization anisotropy. Linear and circular birefringent properties of the fiber are determined, and, it is shown that the fiber is irregular.

  13. Quantitive DNA Fiber Mapping

    Energy Technology Data Exchange (ETDEWEB)

    Lu, Chun-Mei; Wang, Mei; Greulich-Bode, Karin M.; Weier, Jingly F.; Weier, Heinz-Ulli G.

    2008-01-28

    Several hybridization-based methods used to delineate single copy or repeated DNA sequences in larger genomic intervals take advantage of the increased resolution and sensitivity of free chromatin, i.e., chromatin released from interphase cell nuclei. Quantitative DNA fiber mapping (QDFM) differs from the majority of these methods in that it applies FISH to purified, clonal DNA molecules which have been bound with at least one end to a solid substrate. The DNA molecules are then stretched by the action of a receding meniscus at the water-air interface resulting in DNA molecules stretched homogeneously to about 2.3 kb/{micro}m. When non-isotopically, multicolor-labeled probes are hybridized to these stretched DNA fibers, their respective binding sites are visualized in the fluorescence microscope, their relative distance can be measured and converted into kilobase pairs (kb). The QDFM technique has found useful applications ranging from the detection and delineation of deletions or overlap between linked clones to the construction of high-resolution physical maps to studies of stalled DNA replication and transcription.

  14. Chromatin replication and histone dynamics

    DEFF Research Database (Denmark)

    Alabert, Constance; Jasencakova, Zuzana; Groth, Anja

    2017-01-01

    organization into chromatin. We reveal how specialized replication-coupled mechanisms rapidly assemble newly synthesized DNA into nucleosomes, while the complete restoration of chromatin organization including histone marks is a continuous process taking place throughout the cell cycle. Because failure...

  15. Diode-pumped laser with Yb:YAG single-crystal fiber grown by the micro-pulling down technique

    Science.gov (United States)

    Sangla, D.; Aubry, N.; Didierjean, J.; Perrodin, D.; Balembois, F.; Lebbou, K.; Brenier, A.; Georges, P.; Tillement, O.; Fourmigué, J.-M.

    2009-02-01

    Laser emission obtained from an Yb:YAG single-crystal fiber directly grown by the micro-pulling down technique is demonstrated for the first time. We achieved 11.2 W of continuous wave (CW) output power at 1031 nm for 55 W of incident pump power at 940 nm. In the Q-switched regime, we obtained pulses as short as 17 ns, for an average power of 2.3 W at 2 kHz corresponding to an energy of 1.15 mJ. In both cases, the M 2 factor was 2.5. This single-crystal fiber showed performance similar to a standard rod elaborated by the Czochralski method. The potential of Yb3+-doped single-crystal fibers is presented for scalable high-average and high-peak-power laser systems.

  16. 26 nJ picosecond solitons from thulium-doped single-mode master oscillator power fiber amplifier.

    Science.gov (United States)

    Renard, William; Canat, Guillaume; Bourdon, Pierre

    2012-02-01

    We report on an all single-mode master oscillator power fiber amplifier delivering high energy picosecond solitons at 1960 nm. The Bragg stabilized and self-starting oscillator delivers 62 pJ transform-limited pulses at 11.2 MHz pulse repetition frequency. Solitons are amplified in a core-pumped single-mode heavily thulium-doped fiber up to 26 nJ. The average and peak power are 291 mW and 7.4 kW, respectively. Pulses remain transform limited without significant self-phase-modulation distortion. We discuss the limitations of picosecond pulse amplification in a core-pumped single-mode fiber amplifier.

  17. Analysis of Chromatin Organisation

    Science.gov (United States)

    Szeberenyi, Jozsef

    2011-01-01

    Terms to be familiar with before you start to solve the test: chromatin, nucleases, sucrose density gradient centrifugation, melting point, gel electrophoresis, ethidium bromide, autoradiography, Southern blotting, Northern blotting, Sanger sequencing, restriction endonucleases, exonucleases, linker DNA, chloroform extraction, nucleosomes,…

  18. Where splicing joins chromatin

    Czech Academy of Sciences Publication Activity Database

    Hnilicová, Jarmila; Staněk, David

    2011-01-01

    Roč. 2, č. 3 (2011), s. 182-188 ISSN 1949-1034 R&D Projects: GA ČR GAP305/10/0424; GA AV ČR KAN200520801 Institutional research plan: CEZ:AV0Z50520514 Keywords : chromatin * exon * alternative splicing * transcription * snRNP Subject RIV: EB - Genetics ; Molecular Biology

  19. Finite element analysis of mechanics of lateral transmission of force in single muscle fiber.

    Science.gov (United States)

    Zhang, Chi; Gao, Yingxin

    2012-07-26

    Most of the myofibers in long muscles of vertebrates terminate within fascicles without reaching either end of the tendon, thus force generated in myofibers has to be transmitted laterally through the extracellular matrix (ECM) to adjacent fibers; which is defined as the lateral transmission of force in skeletal muscles. The goal of this study was to determine the mechanisms of lateral transmission of force between the myofiber and ECM. In this study, a 2D finite element model of single muscle fiber was developed to study the effects of mechanical properties of the endomysium and the tapered ends of myofiber on lateral transmission of force. Results showed that most of the force generated is transmitted near the end of the myofiber through shear to the endomysium, and the force transmitted to the end of the model increases with increased stiffness of ECM. This study also demonstrated that the tapered angle of the myofiber ends can reduce the stress concentration near the myofiber end while laterally transmitting force efficiently. Copyright © 2012 Elsevier Ltd. All rights reserved.

  20. Feeding Single-Walled Carbon Nanotubes or Graphene to Silkworms for Reinforced Silk Fibers.

    Science.gov (United States)

    Wang, Qi; Wang, Chunya; Zhang, Mingchao; Jian, Muqiang; Zhang, Yingying

    2016-10-12

    Silkworm silk is gaining significant attention from both the textile industry and research society because of its outstanding mechanical properties and lustrous appearance. The possibility of creating tougher silks attracts particular research interest. Carbon nanotubes and graphene are widely studied for their use as reinforcement. In this work, we report mechanically enhanced silk directly collected by feeding Bombyx mori larval silkworms with single-walled carbon nanotubes (SWNTs) and graphene. We found that parts of the fed carbon nanomaterials were incorporated into the as-spun silk fibers, whereas the others went into the excrement of silkworms. Spectroscopy study indicated that nanocarbon additions hindered the conformation transition of silk fibroin from random coil and α-helix to β-sheet, which may contribute to increased elongation at break and toughness modules. We further investigated the pyrolysis of modified silk, and a highly developed graphitic structure with obviously enhanced electrical conductivity was obtained through the introduction of SWNTs and graphene. The successful generation of these SWNT- or graphene-embedded silks by in vivo feeding is expected to open up possibilities for the large-scale production of high-strength silk fibers.

  1. High axial resolution Raman probe made of a single hollow optical fiber.

    Science.gov (United States)

    Katagiri, Takashi; Yamamoto, Yuko S; Ozaki, Yukihiro; Matsuura, Yuji; Sato, Hidetoshi

    2009-01-01

    A ball lens mounted hollow optical fiber Raman probe (BHRP) consisting of a single hollow optical fiber (HOF) and a micro-ball lens was developed for performing a high axial resolution and high-sensitivity remote Raman analysis of biomedical tissues. The total diameter of the probe head is 640 microm. The BHRP is useful in the measurement of thin-layered tissues that are in contact with the probe's surface because the probe has a limited depth-of-field optical property. An optical calculation study suggested that it is possible to vary the probe's working distance by selecting different materials and diameters for the ball lens. Empirical studies revealed that this probe has a higher axial resolution and a higher sensitivity than an HOF Raman probe without the ball lens. The spectrum of a mouse stomach measured with the BHRP had better quality and considerably lower noise than that measured with a conventional Raman microscope. These results strongly suggest that the BHRP can be used effectively in biomedical applications.

  2. Experimental demonstration of single-mode fiber coupling over relatively strong turbulence with adaptive optics.

    Science.gov (United States)

    Chen, Mo; Liu, Chao; Xian, Hao

    2015-10-10

    High-speed free-space optical communication systems using fiber-optic components can greatly improve the stability of the system and simplify the structure. However, propagation through atmospheric turbulence degrades the spatial coherence of the signal beam and limits the single-mode fiber (SMF) coupling efficiency. In this paper, we analyze the influence of the atmospheric turbulence on the SMF coupling efficiency over various turbulences. The results show that the SMF coupling efficiency drops from 81% without phase distortion to 10% when phase root mean square value equals 0.3λ. The simulations of SMF coupling with adaptive optics (AO) indicate that it is inevitable to compensate the high-order aberrations for SMF coupling over relatively strong turbulence. The SMF coupling efficiency experiments, using an AO system with a 137-element deformable mirror and a Hartmann-Shack wavefront sensor, obtain average coupling efficiency increasing from 1.3% in open loop to 46.1% in closed loop under a relatively strong turbulence, D/r0=15.1.

  3. Sensor system for multi-point monitoring using bending loss of single mode optical fiber

    International Nuclear Information System (INIS)

    Kim, Heon Young; Kim, Dae Hyun

    2015-01-01

    Applications of smart sensors have been extended to safety systems in the aerospace, transportation and civil engineering fields. In particular, structural health monitoring techniques using smart sensors have gradually become necessary and have been developed to prevent dangers to human life and damage to assets. Generally, smart sensors are based on electro-magnets and have several weaknesses, including electro-magnetic interference and distortion. Therefore, fiber optic sensors are an outstanding alternative to overcome the weaknesses of electro-magnetic sensors. However, they require expensive devices and complex systems. This paper proposes a new, affordable and simple sensor system that uses a single fiber to monitor pressures at multiple-points. Moreover, a prototype of the sensor system was manufactured and tested for a feasibility study. Based on the results of this experimental test, a relationship was carefully observed between the bend loss conditions and light-intensity. As a result, it was shown that impacts at multiple-points could be monitored.

  4. Proteomic interrogation of human chromatin.

    Directory of Open Access Journals (Sweden)

    Mariana P Torrente

    Full Text Available Chromatin proteins provide a scaffold for DNA packaging and a basis for epigenetic regulation and genomic maintenance. Despite understanding its functional roles, mapping the chromatin proteome (i.e. the "Chromatome" is still a continuing process. Here, we assess the biological specificity and proteomic extent of three distinct chromatin preparations by identifying proteins in selected chromatin-enriched fractions using mass spectrometry-based proteomics. These experiments allowed us to produce a chromatin catalog, including several proteins ranging from highly abundant histone proteins to less abundant members of different chromatin machinery complexes. Using a Normalized Spectral Abundance Factor approach, we quantified relative abundances of the proteins across the chromatin enriched fractions giving a glimpse into their chromosomal abundance. The large-scale data sets also allowed for the discovery of a variety of novel post-translational modifications on the identified chromatin proteins. With these comparisons, we find one of the probed methods to be qualitatively superior in specificity for chromatin proteins, but inferior in proteomic extent, evidencing a compromise that must be made between biological specificity and broadness of characterization. Additionally, we attempt to identify proteins in eu- and heterochromatin, verifying the enrichments by characterizing the post-translational modifications detected on histone proteins from these chromatin regions. In summary, our results provide insights into the value of different methods to extract chromatin-associated proteins and provide starting points to study the factors that may be involved in directing gene expression and other chromatin-related processes.

  5. Application of Single-Mode Fiber-Coupled Receivers in Optical Satellite to High-Altitude Platform Communications

    Directory of Open Access Journals (Sweden)

    Fidler Franz

    2008-01-01

    Full Text Available Abstract In a free-space optical communication system employing fiber-optic components, the phasefront distortions induced by atmospheric turbulence limit the efficiency with which the laser beam is coupled into a single-mode fiber. We analyze different link scenarios including a geostationary (GEO satellite, a high-altitude platform (HAP, and an optical ground station (OGS. Single-mode coupled optically preamplified receivers allow for efficient suppression of background noise and highly sensitive detection. While GEO-to-OGS communication suffers from atmospheric turbulence, we demonstrate that GEO-to-HAP communication allows for close to diffraction-limited performance when applying tip-tilt correction.

  6. Application of Single-Mode Fiber-Coupled Receivers in Optical Satellite to High-Altitude Platform Communications

    Directory of Open Access Journals (Sweden)

    Oswald Wallner

    2008-05-01

    Full Text Available In a free-space optical communication system employing fiber-optic components, the phasefront distortions induced by atmospheric turbulence limit the efficiency with which the laser beam is coupled into a single-mode fiber. We analyze different link scenarios including a geostationary (GEO satellite, a high-altitude platform (HAP, and an optical ground station (OGS. Single-mode coupled optically preamplified receivers allow for efficient suppression of background noise and highly sensitive detection. While GEO-to-OGS communication suffers from atmospheric turbulence, we demonstrate that GEO-to-HAP communication allows for close to diffraction-limited performance when applying tip-tilt correction.

  7. Excitation of random intense single-cycle light-pulse chains in optical fiber

    International Nuclear Information System (INIS)

    Ding, Y C; Zhang, F L; Gao, J B; Chen, Z Y; Lin, C Y; Yu, M Y

    2014-01-01

    Excitation of intense periodic single-cycle light pulses in a stochastic background arising from continuous wave stimulated Brillouin scattering (SBS) in a long optical fiber with weak optical feedback is found experimentally and modeled theoretically. Such intense light-pulse chains occur randomly and the optical feedback is a requirement for their excitation. The probability of these forms, among the large number of experimental output signals with identifiable waveforms, appearing is only about 3%, with the remainder exhibiting regular SBS characteristics. It is also found that pulses with low period numbers appear more frequently and the probability distribution for their occurrence in terms of the pulse power is roughly L-shaped, like that for rogue waves. The results from a three-wave-coupling model for SBS including feedback phase control agree well qualitatively with the observed phenomena. (paper)

  8. All-normal-dispersion fiber laser with NALM: power scalability of the single-pulse regime

    Science.gov (United States)

    Gao, Gan; Zhang, Haitao; Li, Yuhe; Deng, Decai

    2018-03-01

    We investigate the average power scalability of all-normal-dispersion fiber integrated lasers with a nonlinear amplifying loop. This laser generates 34 ps pulses at a repetition of 8 MHz and spectral width of 30 nm when increased to the highest power. The laser operates on a single-pulse train regime and can be de-chirped as short as 200 fs. The 60 mW output power which can be maintained while operating with low Raman effect is the highest average power achieved for this type of laser in the sub-200 fs regime. The laser becomes unstable due to the strengthening of the Raman–Stokes pulse. Output pulses show great stability in testing.

  9. Single fiber beta detector for stereotactic biopsy and intraoperative lumpectomy of breast cancer

    Energy Technology Data Exchange (ETDEWEB)

    Atac, M. [Fermi National Accelerator Lab., Batavia, IL (United States); Nalcioglu, O. [California Univ., Irvine, CA (United States). Div. of Physics and Engineering; Roeck, W.W. [California Univ., Irvine, CA (United States). Dept. of Radiological Sciences

    1996-10-01

    We have developed an intraoperative probe for use in early detection of breast cancer and aiding lumpectomy. The probe consists of a small plastic scintillator, 0.8mm dia and 3mm long, coupled to a single clear optical-fiber strand, and solid state photomultiplier. Due to the small size of the probe, it can be placed inside of a small gauge biopsy needle. The scintillator is very efficient in detecting betas and positrons while being very in efficient to energetic gammas due to small size and low density. High quantum efficiency, 80%, and high gain obtainable, solid state photomultiplier makes the probe very low noise device in detecting beta particles. Intrinsic resolution of the probe is expected to be around 1 mm. Preliminary results using beta sources and a rat bearing R320 adenocarcinoma tumor were very successful.

  10. Effects of fast neutrons on chromatin: dependence on chromatin structure

    Energy Technology Data Exchange (ETDEWEB)

    Radu, L. [Dept. of Molecular Genetics, V. Babes National Inst., Bd. Timisoara, Bucharest (Romania); Constantinescu, B. [Dept. of Cyclotron, H. Hulubei National Inst., Bucharest (Romania); Gazdaru, D. [Dept. of Biophysics, Physics Faculty, Univ. of Bucharest (Romania)

    2002-07-01

    The effects of fast neutrons (10-100 Gy) on chromatin extracted from normal (liver of Wistar rats) and tumor (Walker carcinosarcoma maintained on Wistar rats) tissues were compared. The spectroscopic assays used were (i) chromatin intrinsic fluorescence, (ii) time-resolved fluorescence of chromatin-proflavine complexes, and (iii) fluorescence resonance energy transfer (FRET) between dansyl chloride and acridine orange coupled to chromatin. For both normal and tumor chromatin, the intensity of intrinsic fluorescence specific for acidic and basic proteins decreased with increasing dose. The relative contributions of the excited-state lifetime of proflavine bound to chromatin were reduced upon fast-neutron irradiation, indicating a decrease in the proportion of chromatin DNA available for ligand binding. The Forster energy transfer efficiencies were also modified by irradiation. These effects were larger for chromatin from tumor tissue. In the range 0-100 Gy, fast neutrons induced alterations in DNA and acidic and basic proteins, as well as in global chromatin structure. The radiosensitivity of chromatin extracted from tumor tissue seems to be higher than that of chromatin extracted from normal tissue, probably because of its higher euchromatin (loose)-heterochromatin (compact) ratio. (author)

  11. Increasing temperature speeds intracellular PO2 kinetics during contractions in single Xenopus skeletal muscle fibers.

    Science.gov (United States)

    Koga, S; Wüst, R C I; Walsh, B; Kindig, C A; Rossiter, H B; Hogan, M C

    2013-01-01

    Precise determination of the effect of muscle temperature (T(m)) on mitochondrial oxygen consumption kinetics has proven difficult in humans, in part due to the complexities in controlling for T(m)-related variations in blood flow, fiber recruitment, muscle metabolism, and contractile properties. To address this issue, intracellular Po(2) (P(i)(O(2))) was measured continuously by phosphorescence quenching following the onset of contractions in single Xenopus myofibers (n = 24) while controlling extracellular temperature. Fibers were subjected to two identical contraction bouts, in random order, at 15°C (cold, C) and 20°C (normal, N; n = 12), or at N and 25°C (hot, H; n = 12). Contractile properties were determined for every contraction. The time delay of the P(i)(O(2)) response was significantly greater in C (59 ± 35 s) compared with N (35 ± 26 s, P = 0.01) and H (27 ± 14 s, P = 0.01). The time constant for the decline in P(i)(O(2)) was significantly greater in C (89 ± 34 s) compared with N (52 ± 15 s; P kinetics and T(m) (r = 0.322, P = 0.03). Estimated ATP turnover was significantly greater in H than in C (P kinetics among conditions. These results demonstrate that P(i)(O(2)) kinetics in single contracting myofibers are dependent on T(m), likely caused by temperature-induced differences in metabolic demand and by temperature-dependent processes underlying mitochondrial activation at the start of muscle contractions.

  12. An optical fiber coupled streak camera system for multichannel recording of simultaneous emission from a single plasma producing event

    International Nuclear Information System (INIS)

    Tan, T.H.; Williams, A.H.

    1983-01-01

    A streak camera system capable of multichannel sub-nanosecond recording of simultaneous emissions (photons and particles) from a single plasma interaction event (laser or particle beam) has been developed. In this system ultra-fast quenched (benzophenone) plastic scintillator detectors are coupled via optical fibers to a visible streak camera. The use of optical fibers presents two tractive features: miniaturization of detectors permits improved flexibility in placing detectors at the most desirable location and in greater number than can normally be accommodated; and the detectors are insensitive to electromagnetic noise generated both from the interacting plasmas and from the high voltage components associated with the laser or particle beam system. The fibers can be directly routed through vacuum tight couplers at the target chamber wall and brought into direct contact with the photocathode of the camera in most applications. In fusion experiments, however, the fiber florescence and Cerenkov radiation due to the copious emissions of energetic electrons and x-rays can present serious problems in the use of long fibers. Here, short fibers can be used and the visible streak camera is then focused through a glass port of the target chamber onto the open ends of these optical fibers

  13. Fracture behavior of single-structure fiber-reinforced composite restorations.

    Science.gov (United States)

    Nagata, Kohji; Garoushi, Sufyan K; Vallittu, Pekka K; Wakabayashi, Noriyuki; Takahashi, Hidekazu; Lassila, Lippo V J

    2016-12-01

    Objective: The applications of single-structure fiber-reinforced composite (FRC) in restorative dentistry have not been well reported. This study aimed to clarify the static mechanical properties of anterior crown restorations prepared using two types of single-structure FRC. Materials and methods : An experimental crown restoration was designed for an upper anterior incisor. The restorations were made from IPS Empress CAD for CEREC (Emp), IPS e.max ® CAD (eMx), experimental single-structure all-FRC (a-FRC), Filtek™ Supreme XTE (XTE), and commercially available single-structure short-FRC (everX Posterior™) ( n = 8 for each material) (s-FRC). The a-FRC restorations were prepared from an experimental FRC blank using a computer-aided design and manufacturing (CAD/CAM) device. A fracture test was performed to assess the fracture load, toughness, and failure mode. The fracture loads were vertically applied on the restorations. The surface micromorphology of the FRC restorations was observed by scanning electron microscopy (SEM). The data were analyzed by analysis of variance ( p = .05) followed by Tukey's test. Results : s-FRC showed the highest mean fracture load (1145.0 ± 89.6 N) and toughness (26.2 ± 5.8 Ncm) among all the groups tested. With regard to the micromorphology of the prosthetic surface, local crushing of the fiberglass was observed in s-FRC, whereas chopped fiberglass was observed in a-FRC. Conclusions : The restorations made of short-FRC showed a higher load-bearing capacity than those made of the experimental all-FRC blanks for CAD/CAM. The brittle-like fractures were exhibited in the recent dental esthetic materials, while local crushing fractures were shown for single-structure FRC restorations.

  14. Experiments and analysis of tunable monolithic 1- μm single-frequency fiber lasers with loop mirror filters

    Science.gov (United States)

    Wang, Qi; Song, Huaqing; Wang, Xingpeng; Wang, Dongdong; Li, Li

    2018-03-01

    In this paper, we demonstrated thermally tunable 1- μm single-frequency fiber lasers utilizing loop mirror filters (LMFs) with unpumped Yb-doped fibers. The frequency selection and tracking was achieved by combining a fiber Bragg grating (FBG) and a dynamic grating established inside the LMF. The central emission wavelength was at 1064.07 nm with a tuning range of 1.4 nm, and the measured emission linewidth was less than 10 kHz. We also systematically studied the wavelength-tracking thermal stability of the LMF with separate thermal treatment upon the FBG and LMF, respectively. Finally, we presented a selection criterion for the minimum unpumped doped fiber length inside the LMF with experimental verification.

  15. Label free imaging system for measuring blood flow speeds using a single multi-mode optical fiber (Conference Presentation)

    Science.gov (United States)

    Sigal, Iliya; Caravaca Aguirre, Antonio M.; Gad, Raanan; Piestun, Rafael; Levi, Ofer

    2016-03-01

    We demonstrate a single multi-mode fiber-based micro-endoscope for measuring blood flow speeds. We use the transmission-matrix wavefront shaping approach to calibrate the multi-mode fiber and raster-scan a focal spot across the distal fiber facet, imaging the cross-polarized back-reflected light at the proximal facet using a camera. This setup allows assessment of the backscattered photon statistics: by computing the mean speckle contrast values across the proximal fiber facet we show that spatially-resolved flow speed maps can be inferred by selecting an appropriate camera integration time. The proposed system is promising for minimally-invasive studies of neurovascular coupling in deep brain structures.

  16. Chromatin replication and epigenome maintenance

    DEFF Research Database (Denmark)

    Alabert, Constance; Groth, Anja

    2012-01-01

    Stability and function of eukaryotic genomes are closely linked to chromatin structure and organization. During cell division the entire genome must be accurately replicated and the chromatin landscape reproduced on new DNA. Chromatin and nuclear structure influence where and when DNA replication...... initiates, whereas the replication process itself disrupts chromatin and challenges established patterns of genome regulation. Specialized replication-coupled mechanisms assemble new DNA into chromatin, but epigenome maintenance is a continuous process taking place throughout the cell cycle. If DNA...... synthesis is perturbed, cells can suffer loss of both genome and epigenome integrity with severe consequences for the organism....

  17. Elevation in heat shock protein 72 mRNA following contractions in isolated single skeletal muscle fibers.

    Science.gov (United States)

    Stary, Creed M; Walsh, Brandon J; Knapp, Amy E; Brafman, David; Hogan, Michael C

    2008-08-01

    The purpose of the present study was 1) to develop a stable model for measuring contraction-induced elevations in mRNA in single skeletal muscle fibers and 2) to utilize this model to investigate the response of heat shock protein 72 (HSP72) mRNA following an acute bout of fatiguing contractions. Living, intact skeletal muscle fibers were microdissected from lumbrical muscle of Xenopus laevis and either electrically stimulated for 15 min of tetanic contractions (EX; n=26) or not stimulated to contract (REST; n=14). The relative mean developed tension of EX fibers decreased to 29+/-7% of initial peak tension at the stimulation end point. Following treatment, individual fibers were allowed to recover for 1 (n=9), 2 (n=8), or 4 h (n=9) prior to isolation of total cellular mRNA. HSP72, HSP60, and cardiac alpha-actin mRNA content were then assessed in individual fibers using quantitative PCR detection. Relative HSP72 mRNA content was significantly (Pelevated at the 2-h postcontraction time point relative to REST fibers when normalized to either HSP60 (18.5+/-7.5-fold) or cardiac alpha-actin (14.7+/-4.3-fold), although not at the 1- or 4-h time points. These data indicate that 1) extraction of RNA followed by relative quantification of mRNA of select genes in isolated single skeletal muscle fibers can be reliably performed, 2) HSP60 and cardiac alpha-actin are suitable endogenous normalizing genes in skeletal muscle following contractions, and 3) a significantly elevated content of HSP72 mRNA is detectable in skeletal muscle 2 h after a single bout of fatiguing contractions, despite minimal temperature changes and without influence from extracellular sources.

  18. High Performance Spatial Filter Array Based on Single Mode Fiber Bundle Project

    Data.gov (United States)

    National Aeronautics and Space Administration — In Phase I project, by leveraging on Agiltron's experience in optical fiber components and our unique fabrication procedure of fiber array, we successfully designed...

  19. Adsorption of Geosmin and MIB on Activated Carbon Fibers-Single and Binary Solute System

    Energy Technology Data Exchange (ETDEWEB)

    Srinivasan, Rangesh; Sorial, George A., E-mail: george.sorial@uc.ed [University of Cincinnati, Department of Civil and Environmental Engineering (United States)

    2009-08-15

    The adsorption of two taste- and odor-causing compounds, namely MIB (2-methyl isoborneol-C{sub 11}H{sub 20}O) and geosmin (C{sub 12}H{sub 22}O) on activated carbon was investigated in this study. The impact of adsorbent pore size distribution on adsorption of MIB and geosmin was evaluated through single solute and multicomponent adsorption of these compounds on three types of activated carbon fibers (ACFs) and one granular activated carbon (GAC). The ACFs (ACC-15, ACC-20, and ACC-25) with different degrees of activation had narrow pore size distributions and specific critical pore diameters whereas the GAC (F-400) had a wider pore size distribution and lesser microporosity. The effect of the presence of natural organic matter (NOM) on MIB and geosmin adsorption was also studied for both the single solute and binary systems. The Myers equation was used to evaluate the single solute isotherms as it converges to Henry's law at low coverage and also serves as an input for predicting multicomponent adsorption. The single solute adsorption isotherms fit the Myers equation well and pore size distribution significantly influenced adsorption on the ACFs and GAC. The ideal adsorbed solute theory (IAST), which is a well-established thermodynamic model for multicomponent adsorption, was used to predict the binary adsorption of MIB and geosmin. The IAST predicted well the binary adsorption on the ACFs and GAC. Binary adsorption isotherms were also conducted in the presence of oxygen (oxic) and absence of oxygen (anoxic). There were no significant differences in the binary isotherm between the oxic and anoxic conditions, indicating that adsorption was purely through physical adsorption and no oligomerization was taking place. Binary adsorptions for the four adsorbents were also conducted in the presence of humic acid to determine the effect of NOM and to compare with IAST predictions. The presence of NOM interestingly resulted in deviation from IAST behavior in case of two

  20. Design optimization of the distributed modal filtering rod fiber for increasing single mode bandwidth

    DEFF Research Database (Denmark)

    Jørgensen, Mette Marie; Petersen, Sidsel Rübner; Laurila, Marko

    2012-01-01

    High-power fiber amplifiers for pulsed applications require large mode area (LMA) fibers having high pump absorption and near diffraction limited output. This improves the limiting factor of nonlinear effects, while maintaining good beam quality. Photonic crystal fibers allow realization of short...

  1. Forensic identification of trunk mat by trace element analysis of single fiber with laser ablation ICP-MS

    International Nuclear Information System (INIS)

    Hiroma, Yuki; Nakai, Izumi; Hokura, Akiko

    2010-01-01

    The application of LA-ICP-MS (laser ablation inductively coupled plasma mass spectrometry) to the chemical characterization of single trunk mat fibers made of PET was investigated in order to establish a forensic analytical method for the discrimination of samples of different origins. The analytical conditions of LA-ICP-MS equipped with a 213 nm Nd : YAG laser were optimized to analyze trace elements, such as Cu, Sb, and Ba at ppm levels. A total of 31 samples produced by 7 car manufactures in Japan were used for analysis. The concentrations of Li, Mg, Al, P, Ca, Ti, Co, Cu, Ge, Nb, Sb, Ta, and Pb were successfully measured from a single fiber sample with a diameter of ca. 20 μm. It was possible to discriminate all 31 samples based on the analytical results of a single fiber by LA-ICP-MS combined with those of FT-IR and SEM-EDS. LA-ICP-MS has good analytical sensitivity, and requires a much shorter preparation time and a smaller sample size than any other conventional element analysis methods. This paper demonstrates for the first time that this method is practically useful as a powerful tool for the forensic identification of a single trunk mat fiber. (author)

  2. Demonstration of Cascaded In-Line Single-Pump Fiber Optical Parametric Amplifiers in Recirculating Loop Transmission

    DEFF Research Database (Denmark)

    Lali-Dastjerdi, Zohreh; Ozolins, Oskars; An, Yi

    2012-01-01

    The performance of cascaded single-pump fiber optical parametric amplifiers (FOPAs) is experimentally studied for the first time using recirculating loop transmission with 80-km dispersion managed spans. Error-free performance has been achieved over 320 km for 40-Gbit/s CSRZ-OOK and CSRZ...

  3. The Usability Analysis of Different Standard Single-Mode Optical Fibers and Its Installation Methods for the Interferometric Measurements

    Directory of Open Access Journals (Sweden)

    Jakub Cubik

    2013-01-01

    Full Text Available With optical fibers we are able to measure a variety of physical quantities. Optical fiber sensors sensitive to the change of the light phase, so-called interferometers referred in this article are one of the most sensitive sensors. Because we are able to detect phase changes with extreme precision, these sensors are thus suitable for demanding applications, where cost is not the main requirement. We have used the Mach-Zehnder configuration. The paper deals with the usage of different types of standard single-mode optical fibers in the civil engineering as an integrated acoustic sensor. Further experiments are focused on the different types of fiber installation methods, such as placement in the mounting foam, into the polystyrene or attachment onto the wooden surface and their effect on the measurements. Through the repeated measurements of harmonic frequencies were obtained information about the usable frequency range and sensitivity of the particular arrangement. Measurement was performed for both cases, where the specific type of fiber or specifically installed fiber was used as the measurement or as the reference. The final evaluation is based both on the experience gained during measurements and also using the statistical calculations.

  4. Sensing interrogation technique for fiber-optic interferometer type of sensors based on a single-passband RF filter.

    Science.gov (United States)

    Chen, Hao; Zhang, Shiwei; Fu, Hongyan; Zhou, Bin; Chen, Nan

    2016-02-08

    In this paper, a sensing interrogation system for fiber-optic interferometer type of sensors by using a single-passband radio-frequency (RF) filter has been proposed and experimentally demonstrated. The fiber-optic interferometer based sensors can give continuous optical sampling, and along with dispersive medium a single-passband RF frequency response can be achieved. The sensing parameter variation on the fiber-optic interferometer type of sensors will affect their free spectrum range, and thus the peak frequency of the RF filter. By tracking the central frequency of the passband the sensing parameter can be demodulated. As a demonstration, in our experiment a fiber Mach-Zehnder interferometer (FMZI) based temperature sensor has been interrogated. By tracking the peak frequency of the passband the temperature variation can be monitored. In our experiment, the sensing responsivity of 10.5 MHz/°C, 20.0 MHz/°C and 41.2 MHz/°C, when the lengths of sensing fiber are 1 m, 2 m and 4 m have been achieved.

  5. Analysis of active and inactive X chromosome architecture reveals the independent organization of 30 nm and large-scale chromatin structures.

    Science.gov (United States)

    Naughton, Catherine; Sproul, Duncan; Hamilton, Charlotte; Gilbert, Nick

    2010-11-12

    Using a genetic model, we present a high-resolution chromatin fiber analysis of transcriptionally active (Xa) and inactive (Xi) X chromosomes packaged into euchromatin and facultative heterochromatin. Our results show that gene promoters have an open chromatin structure that is enhanced upon transcriptional activation but the Xa and the Xi have similar overall 30 nm chromatin fiber structures. Therefore, the formation of facultative heterochromatin is dependent on factors that act at a level above the 30 nm fiber and transcription does not alter bulk chromatin fiber structures. However, large-scale chromatin structures on Xa are decondensed compared with the Xi and transcription inhibition is sufficient to promote large-scale chromatin compaction. We show a link between transcription and large-scale chromatin packaging independent of the bulk 30 nm chromatin fiber and propose that transcription, not the global compaction of 30 nm chromatin fibers, determines the cytological appearance of large-scale chromatin structures. Copyright © 2010 Elsevier Inc. All rights reserved.

  6. Dual CARS and SHG image acquisition scheme that combines single central fiber and multimode fiber bundle to collect and differentiate backward and forward generated photons

    Science.gov (United States)

    Weng, Sheng; Chen, Xu; Xu, Xiaoyun; Wong, Kelvin K.; Wong, Stephen T. C.

    2016-01-01

    In coherent anti-Stokes Raman scattering (CARS) and second harmonic generation (SHG) imaging, backward and forward generated photons exhibit different image patterns and thus capture salient intrinsic information of tissues from different perspectives. However, they are often mixed in collection using traditional image acquisition methods and thus are hard to interpret. We developed a multimodal scheme using a single central fiber and multimode fiber bundle to simultaneously collect and differentiate images formed by these two types of photons and evaluated the scheme in an endomicroscopy prototype. The ratio of these photons collected was calculated for the characterization of tissue regions with strong or weak epi-photon generation while different image patterns of these photons at different tissue depths were revealed. This scheme provides a new approach to extract and integrate information captured by backward and forward generated photons in dual CARS/SHG imaging synergistically for biomedical applications. PMID:27375938

  7. All-optical Hilbert transformer based on a single phase-shifted fiber Bragg grating: design and analysis.

    Science.gov (United States)

    Asghari, Mohammad H; Azaña, José

    2009-02-01

    A simple all-fiber design for implementing an all-optical temporal Hilbert transformer is proposed and numerically demonstrated. We show that an all-optical Hilbert transformer can be implemented using a uniform-period fiber Bragg grating (FBG) with a properly designed amplitude-only grating apodization profile incorporating a single pi phase shift in the middle of the grating length. All-optical Hilbert transformers capable of processing arbitrary optical waveforms with bandwidths up to a few hundreds of gigahertz can be implemented using feasible FBGs.

  8. Elevation in heat shock protein 72 mRNA following contractions in isolated single skeletal muscle fibers

    OpenAIRE

    Stary, Creed M.; Walsh, Brandon J.; Knapp, Amy E.; Brafman, David; Hogan, Michael C.

    2008-01-01

    The purpose of the present study was 1) to develop a stable model for measuring contraction-induced elevations in mRNA in single skeletal muscle fibers and 2) to utilize this model to investigate the response of heat shock protein 72 (HSP72) mRNA following an acute bout of fatiguing contractions. Living, intact skeletal muscle fibers were microdissected from lumbrical muscle of Xenopus laevis and either electrically stimulated for 15 min of tetanic contractions (EX; n = 26) or not stimulated ...

  9. Fibronectin: a chromatin-associated protein?

    Science.gov (United States)

    Zardi, L; Siri, A; Carnemolla, B; Santi, L; Gardner, W D; Hoch, S O

    1979-11-01

    We have previously reported that chromatin preparations from human cultured fibroblasts contain a single homologous serum protein. In this paper we present evidence, based on immunological identity and physicochemical properties, that this serum protein is fibronectin. Furthermore, using a radioimmunoassay system, we have estimated that fibronectin represents about 0.7% of the total protein in both chromatin preparations and whole fibroblasts. Using a nitrocellulose filter assay system, we also show that fibronectin is a DNA-binding protein having an equilibrium constant of 4.6 x 10(-6) M. Equilibrium competition experiments have demonstrated that fibronectin has the ability to differentiate among nucleotides, indicating that fibronectin-DNA interaction is at least partially specific, and that a minimum polymer length of 12-18 nucleotides is required for effective binding to occur. Fibronectin has been isolated readily from plasma using DNA-affinity chromatography. We do not have direct evidence that fibronectin is an actual nonhistone chromosomal protein, but fibronectin is a DNA-binding protein (at least under in vitro assay conditions) and appears to be a normal constituent of chromatin as chromatin is currently isolated from cell nuclei.

  10. Chromatin dynamics in genome stability

    DEFF Research Database (Denmark)

    Nair, Nidhi; Shoaib, Muhammad; Sørensen, Claus Storgaard

    2017-01-01

    Genomic DNA is compacted into chromatin through packaging with histone and non-histone proteins. Importantly, DNA accessibility is dynamically regulated to ensure genome stability. This is exemplified in the response to DNA damage where chromatin relaxation near genomic lesions serves to promote ...... of chromatin structure regulation in maintaining genome integrity by multiple mechanisms including facilitating DNA repair and directly suppressing endogenous DNA damage.......Genomic DNA is compacted into chromatin through packaging with histone and non-histone proteins. Importantly, DNA accessibility is dynamically regulated to ensure genome stability. This is exemplified in the response to DNA damage where chromatin relaxation near genomic lesions serves to promote...... access of relevant enzymes to specific DNA regions for signaling and repair. Furthermore, recent data highlight genome maintenance roles of chromatin through the regulation of endogenous DNA-templated processes including transcription and replication. Here, we review research that shows the importance...

  11. Tm3+-doped barium gallo-germanate glass single-mode fiber with high gain per unit length for ultracompact 1.95 µm laser

    Science.gov (United States)

    Tang, Guowu; Wen, Xin; Huang, Kaimin; Qian, Guoquan; Lin, Wei; Cheng, Huihui; Jiang, Licheng; Qian, Qi; Yang, Zhongmin

    2018-03-01

    Heavily Tm3+-doped barium gallo-germanate glass single-mode (SM) fibers were successfully drawn. A gain per unit length of 3.6 dB/cm at 1.95 µm was obtained. To the best of our knowledge, this is the highest gain per unit length reported for Tm3+-doped germanate glass SM fibers. A single-frequency fiber laser operating at 1.95 µm has been built using a 1.5-cm-long active fiber pumped by a 1568 nm fiber laser. The direct output power from the ultracompact laser cavity is 227 mW. The results show that the fibers are highly promising for high-power and ultracompact single-frequency laser applications.

  12. Action potential-evoked calcium release is impaired in single skeletal muscle fibers from heart failure patients.

    Directory of Open Access Journals (Sweden)

    Marino DiFranco

    Full Text Available Exercise intolerance in chronic heart failure (HF has been attributed to abnormalities of the skeletal muscles. Muscle function depends on intact excitation-contraction coupling (ECC, but ECC studies in HF models have been inconclusive, due to deficiencies in the animal models and tools used to measure calcium (Ca2+ release, mandating investigations in skeletal muscle from HF patients. The purpose of this study was to test the hypothesis that Ca2+ release is significantly impaired in the skeletal muscle of HF patients in whom exercise capacity is severely diminished compared to age-matched healthy volunteers.Using state-of-the-art electrophysiological and optical techniques in single muscle fibers from biopsies of the locomotive vastus lateralis muscle, we measured the action potential (AP-evoked Ca2+ release in 4 HF patients and 4 age-matched healthy controls. The mean peak Ca2+ release flux in fibers obtained from HF patients (10±1.2 µM/ms was markedly (2.6-fold and significantly (p<0.05 smaller than in fibers from healthy volunteers (28±3.3 µM/ms. This impairment in AP-evoked Ca2+ release was ubiquitous and was not explained by differences in the excitability mechanisms since single APs were indistinguishable between HF patients and healthy volunteers.These findings prove the feasibility of performing electrophysiological experiments in single fibers from human skeletal muscle, and offer a new approach for investigations of myopathies due to HF and other diseases. Importantly, we have demonstrated that one step in the ECC process, AP-evoked Ca2+ release, is impaired in single muscle fibers in HF patients.

  13. Dense chromatin plates in metaphase chromosomes.

    Science.gov (United States)

    Gállego, Isaac; Castro-Hartmann, Pablo; Caravaca, Juan Manuel; Caño, Silvia; Daban, Joan-Ramon

    2009-04-01

    In a previous work we observed multilayered plate-like structures surrounding partially denatured HeLa chromosomes at metaphase ionic conditions. This unexpected finding has led us to carry out an extensive investigation of these structures. Our results show that plates can also be found in metaphase chromosomes from chicken lymphocytes. We have used atomic force microscopy (AFM) to image and investigate the mechanical properties of plates in aqueous solution. Plates are thin (approximately 6.5 nm each layer) but compact and resistant to penetration by the AFM tip: their Young's modulus is approximately 0.2 GPa and the stress required for surface penetration is approximately 0.03 GPa in the presence of Mg(2+) (5-20 mM). Low-ionic strength conditions produce emanation of chromatin fibers from the edges of uncrosslinked plates. These observations and AFM results obtained applying high forces indicate that the chromatin filament is tightly tethered inside the plates. Images of metal-shadowed plates and cryo-electron microscopy images of frozen-hydrated plates suggest that nucleosomes are tilted with respect to the plate surface to allow an interdigitation between the successive layers and a thickness reduction compatible with the observed plate height. The similarities between denatured plates from chicken chromosomes and aggregates of purified chromatin from chicken erythrocytes suggest that chromatin has intrinsic structural properties leading to plate formation. Scanning electron micrographs and images obtained with the 200-kV transmission microscope show that plates are the dominant component of compact chromatids. We propose that metaphase chromosomes are formed by many stacked plates perpendicular to the chromatid axis.

  14. Single fiber UV detector based on hydrothermally synthesized ZnO nanorods for wearable computing devices

    Science.gov (United States)

    Eom, Tae Hoon; Han, Jeong In

    2018-01-01

    There has been increasing interest in zinc oxide (ZnO) based ultraviolet (UV) sensing devices over the last several decades owing to their diverse range of applications. ZnO has extraordinary properties, such as a wide band gap and high exciton binding energy, which make it a beneficial material for UV sensing device. Herein, we show a ZnO UV sensing device fabricated on a cylindrical Polyethylene terephthalate (PET) monofilament. The ZnO active layer was synthesized by hydrothermal synthesis and the Cu electrodes were deposited by radio frequency (RF) magnetron sputtering. Cu thin film was deposited uniformly on a single PET fiber by rotating it inside the sputtering chamber. Various characteristics were investigated by changing the concentration of the seed solution and the growth solution. The growth of ZnO nanorods was confirmed by Field Emission Scanning Electron Microscopy (FESEM) to see the surface state and structure, followed by X-ray Diffraction (XRD) and X-ray photoelectron spectroscopy (XPS) analysis. Also, current-voltage (I-V) curves were obtained to measure photocurrent and conductance. Furthermore, falling response time, rising response time, and responsivity were calculated by analyzing current-time (I-t) curves.

  15. Role of third-order dispersion in chirped Airy pulse propagation in single-mode fibers

    Science.gov (United States)

    Cai, Wangyang; Wang, Lei; Wen, Shuangchun

    2018-04-01

    The dynamic propagation of the initial chirped Airy pulse in single-mode fibers is studied numerically, special attention being paid to the role of the third-order dispersion (TOD). It is shown that for the positive TOD, the Airy pulse experiences inversion irrespective of the sign of initial chirp. The role of TOD in the dynamic propagation of the initial chirped Airy pulse depends on the combined sign of the group-velocity dispersion (GVD) and the initial chirp. If the GVD and chirp have the opposite signs, the chirped Airy pulse compresses first and passes through a breakdown area, then reconstructs a new Airy pattern with opposite acceleration, with the breakdown area becoming small and the main peak of the new Airy pattern becoming asymmetric with an oscillatory structure due to the positive TOD. If the GVD and chirp have the same signs, the finite-energy Airy pulse compresses to a focal point and then inverses its acceleration, in the case of positive TOD, the distance to the focal point becoming smaller. At zero-dispersion point, the finite-energy Airy pulse inverses to the opposite acceleration at a focal point, with the tight-focusing effect being reduced by initial chirp. Under the effect of negative TOD, the initial chirped Airy pulse disperses and the lobes split. In addition, in the anomalous dispersion region, for strong nonlinearity, the initial chirped Airy pulse splits and enters a soliton shedding regime.

  16. Sound Absorption Properties Of Single-Hole Hollow Polyester Fiber Reinforced Hydrogenated Carboxyl Nitrile Rubber Composites

    Directory of Open Access Journals (Sweden)

    Jie Hong

    2017-09-01

    Full Text Available A series of single-hole hollow polyester fiber (SHHPF reinforced hydrogenated carboxyl nitrile rubber (HXNBR composites were fabricated. In this study, the sound absorption property of the HXNBR/SHHPF composite was tested in an impedance tube, the composite morphology was characterized by scanning electron microscope (SEM, and the tensile mechanical property was measured by strength tester. The results demonstrated that a remarkable change in sound absorption can be observed by increasing the SHHPF content from 0% to 40%. In the composite with 40% SHHPF in 1 mm thickness, the sound absorption coefficient reached 0.671 at 2,500 Hz; the effective bandwidth was 1,800-2,500 Hz for sound absorption coefficient larger than 0.2. But the sound absorption property of the composite deteriorated when the SHHPF content increased to 50% in 1 mm thickness. While with 20% SHHPF proportion, the sound absorption property was improved by increasing the thickness of composites from 1 to 5 mm. Compared with the pure HXNBR of the same thickness, the tensile mechanical property of the composite improved significantly by increasing the SHHPF proportion. As a lightweight composite with excellent sound absorption property, the HXNBR/SHHPF composite has potential practical application value in the fields of engineering.

  17. Transmission of 2.5 Gbit/s Spectrum-sliced WDM System for 50 km Single-mode Fiber

    Science.gov (United States)

    Ahmed, Nasim; Aljunid, Sayed Alwee; Ahmad, R. Badlisha; Fadil, Hilal Adnan; Rashid, Mohd Abdur

    2011-06-01

    The transmission of a spectrum-sliced WDM channel at 2.5 Gbit/s for 50 km of single mode fiber using an system channel spacing only 0.4 nm is reported. We have investigated the system performance using NRZ modulation format. The proposed system is compared with conventional system. The system performance is characterized as the bit-error-rate (BER) received against the system bit rates. Simulation results show that the NRZ modulation format performs well for 2.5 Gbit/s system bit rates. Using this narrow channel spectrum-sliced technique, the total number of multiplexed channels can be increased greatly in WDM system. Therefore, 0.4 nm channel spacing spectrum-sliced WDM system is highly recommended for the long distance optical access networks, like the Metro Area Network (MAN), Fiber-to-the-Building (FTTB) and Fiber-to-the-Home (FTTH).

  18. Developing a compact multiple laser diode combiner with a single fiber stub output for handheld IoT devices

    Science.gov (United States)

    Lee, Minseok; June, Seunghyeok; Kim, Sehwan

    2018-01-01

    Many biomedical applications require an efficient combination and localization of multiple discrete light sources ( e.g., fluorescence and absorbance imaging). We present a compact 6 channel combiner that couples the output of independent solid-state light sources into a single 400-μm-diameter fiber stub for handheld Internet of Things (IoT) devices. We demonstrate average coupling efficiencies > 80% for each of the 6 laser diodes installed into the prototype. The design supports the use of continuous wave and intensity-modulated laser diodes. This fiber-stub-type beam combiner could be used to construct custom multi-wavelength sources for tissue oximeters, microscopes and molecular imaging technologies. In order to validate its suitability, we applied the developed fiber-stub-type beam combiner to a multi-wavelength light source for a handheld IoT device and demonstrated its feasibility for smart healthcare through a tumor-mimicking silicon phantom.

  19. High-temperature sensor based on an abrupt-taper Michelson interferometer in single-mode fiber.

    Science.gov (United States)

    Xu, Le; Jiang, Lan; Wang, Sumei; Li, Benye; Lu, Yongfeng

    2013-04-01

    This study proposes a high-temperature sensor based on an abrupt fiber-taper Michelson interferometer (FTMI) in single-mode fiber fabricated by a fiber-taper machine and electric-arc discharge. The proposed FTMI is applied to measure temperature and refractive index (RI). A high temperature sensitivity of 118.6 pm/°C is obtained in the temperature range of 500°C-800°C. The wavelength variation is only -0.335 nm for the maximum attenuation peak, with the external RI changed from 1.333 to 1.3902, which is desirable for high-temperature sensing to eliminate the cross sensitivity to RI.

  20. Analytical study of nonlinear phase shift through stimulated Brillouin scattering in single mode fiber with the pump power recycling technique

    International Nuclear Information System (INIS)

    Al-Asadi, H A; Mahdi, M A; Bakar, A A A; Adikan, F R Mahamd

    2011-01-01

    We present a theoretical study of nonlinear phase shift through stimulated Brillouin scattering in single mode optical fiber. Analytical expressions describing the nonlinear phase shift for the pump and Stokes waves in the pump power recycling technique have been derived. The dependence of the nonlinear phase shift on the optical fiber length, the reflectivity of the optical mirror and the frequency detuning coefficient have been analyzed for different input pump power values. We found that with the recycling pump technique, the nonlinear phase shift due to stimulated Brillouin scattering reduced to less than 0.1 rad for 5 km optical fiber length and 0.65 reflectivity of the optical mirror, respectively, at an input pump power equal to 30 mW

  1. Chromatin structure in the unicellular algae Olisthodiscus luteus, Crypthecodinium cohnii and Peridiniun balticum.

    Science.gov (United States)

    Rizzo, P J; Burghardt, R C

    1980-01-01

    Isolated nuclei of the unicellular alga Olisthodiscus luteus, the uninucleate dinoflagellate Crypthecodinium cohnii and the binucleate dinoflagellate Peridinium balticum were lysed and deposited on grids by the microcentrifugation technique. The ultrastructure of the released chromatin fibers was compared to that of mouse liver nuclei. Chromatin from nuclei of Olisthodiscus luteus and the "eukaryotic" nuclei of Peridinium balticum, appeared as linear arrays of regularly repeating subunits which were identical in size and morphology to mouse nucleosomes. In contrast, the chromatin fibers from Crypthecodinium cohnii nuclei appeared as smoothe threads with a diameter of about 6.5 nm. Nuclear preparations containing mixtures of "dinokaryotic" and "eukaryotic" nuclei of Peridinium balticum also contained smooth fibers which most likely originated from the dinokaryotic nuclei. These and other results demonstrating the presence of nucleosomes in lower eukaryotes suggest that the subunit structure of chromatin arose very early in the evolution of the eukaryotic cell.

  2. A single-longitudinal-mode Brillouin fiber laser passively stabilized at the pump resonance frequency with a dynamic population inversion grating

    International Nuclear Information System (INIS)

    Spirin, V V; López-Mercado, C A; Kinet, D; Mégret, P; Fotiadi, A A; Zolotovskiy, I O

    2013-01-01

    We demonstrate a single-longitudinal-mode Brillouin ring fiber laser passively stabilized at the resonance frequency with a 1.7 m section that is an unpumped polarization-maintaining erbium-doped fiber. The two coupled all-fiber Fabry–Perot interferometers that comprise the cavity, in combination with the dynamical population inversion gratings self-induced in the active fiber, provide adaptive pump-mode selection and Stokes wave generation at the same time. The laser is shown to emit a single-frequency Stokes wave with a linewidth narrower than 100 Hz. (letter)

  3. Linker histone partial phosphorylation: effects on secondary structure and chromatin condensation

    Science.gov (United States)

    Lopez, Rita; Sarg, Bettina; Lindner, Herbert; Bartolomé, Salvador; Ponte, Inma; Suau, Pedro; Roque, Alicia

    2015-01-01

    Linker histones are involved in chromatin higher-order structure and gene regulation. We have successfully achieved partial phosphorylation of linker histones in chicken erythrocyte soluble chromatin with CDK2, as indicated by HPCE, MALDI-TOF and Tandem MS. We have studied the effects of linker histone partial phosphorylation on secondary structure and chromatin condensation. Infrared spectroscopy analysis showed a gradual increase of β-structure in the phosphorylated samples, concomitant to a decrease in α-helix/turns, with increasing linker histone phosphorylation. This conformational change could act as the first step in the phosphorylation-induced effects on chromatin condensation. A decrease of the sedimentation rate through sucrose gradients of the phosphorylated samples was observed, indicating a global relaxation of the 30-nm fiber following linker histone phosphorylation. Analysis of specific genes, combining nuclease digestion and qPCR, showed that phosphorylated samples were more accessible than unphosphorylated samples, suggesting local chromatin relaxation. Chromatin aggregation was induced by MgCl2 and analyzed by dynamic light scattering (DLS). Phosphorylated chromatin had lower percentages in volume of aggregated molecules and the aggregates had smaller hydrodynamic diameter than unphosphorylated chromatin, indicating that linker histone phosphorylation impaired chromatin aggregation. These findings provide new insights into the effects of linker histone phosphorylation in chromatin condensation. PMID:25870416

  4. Retention of the Native Epigenome in Purified Mammalian Chromatin.

    Directory of Open Access Journals (Sweden)

    Andreas H Ehrensberger

    Full Text Available A protocol is presented for the isolation of native mammalian chromatin as fibers of 25-250 nucleosomes under conditions that preserve the natural epigenetic signature. The material is composed almost exclusively of histones and DNA and conforms to the structure expected by electron microscopy. All sequences probed for were retained, indicating that the material is representative of the majority of the genome. DNA methylation marks and histone marks resembled the patterns observed in vivo. Importantly, nucleosome positions also remained largely unchanged, except on CpG islands, where nucleosomes were found to be unstable. The technical challenges of reconstituting biochemical reactions with native mammalian chromatin are discussed.

  5. Chromatin Flavors: Chromatin composition and domain organization in Drosophila melanogaster

    NARCIS (Netherlands)

    J.G. van Bemmel (Joke)

    2012-01-01

    textabstractChromatin was originally identified by W. Flemming in 1882 as not much more than the stainable substance of the cell nucleus. Flemming named this substance according to the Greek word “chroma”, meaning color. In 1911 chromatin was characterized as proteins, named histones, that

  6. Axial-Compressive Behavior, Including Kink-Band Formation and Propagation, of Single p-Phenylene Terephthalamide (PPTA Fibers

    Directory of Open Access Journals (Sweden)

    M. Grujicic

    2013-01-01

    Full Text Available The mechanical response of p-phenylene terephthalamide (PPTA single fibers when subjected to uniaxial compression is investigated computationally using coarse-grained molecular statics/dynamics methods. In order to construct the coarse-grained PPTA model (specifically, in order to define the nature of the coarse-grained particles/beads and to parameterize various components of the bead/bead force-field functions, the results of an all-atom molecular-level computational investigation are used. In addition, the microstructure/topology of the fiber core, consisting of a number of coaxial crystalline fibrils, is taken into account. Also, following our prior work, various PPTA crystallographic/topological defects are introduced into the model (at concentrations consistent with the prototypical PPTA synthesis/processing conditions. The analysis carried out clearly revealed (a formation of the kink bands during axial compression; (b the role of defects in promoting the formation of kink bands; (c the stimulating effects of some defects on the fiber-fibrillation process; and (d the detrimental effect of the prior compression, associated with fiber fibrillation, on the residual longitudinal-tensile strength of the PPTA fibers.

  7. Single-shot T1 mapping of the corpus callosum: A rapid characterization of fiber bundle anatomy

    Directory of Open Access Journals (Sweden)

    Sabine eHofer

    2015-05-01

    Full Text Available Using diffusion-tensor MRI and fiber tractography the topographic organization of the corpus callosum (CC has been described to comprise 5 segments with fibers projecting into prefrontal (I, premotor and supplementary motor (II, primary motor (III, and primary sensory areas (IV, as well as into parietal, temporal, and occipital cortical areas (V. In order to more rapidly characterize the underlying anatomy of these segments, this study used a novel single-shot T1 mapping method to quantitatively determine T1 relaxation times in the human CC. A region-of-interest analysis revealed a tendency for the lowest T1 relaxation times in the genu and the highest T1 relaxation times in the somatomotor region of the CC. This observation separates regions dominated by myelinated fibers with large diameters (somatomotor area from densely packed smaller axonal bundles (genu with less myelin. The results indicate that characteristic T1 relaxation times in callosal profiles provide an additional means to monitor differences in fiber anatomy, fiber density, and gray matter in respective neocortical areas. In conclusion, rapid T1 mapping allows for a characterization of the axonal architecture in an individual CC in less than 10 s. The approach emerges as a valuable means for studying neocortical brain anatomy with possible implications for the diagnosis of neurodegenerative processes.

  8. Influence of the degree of retting of flax fibers on the tensile properties of single fibers and short fiber/polypropylene composites

    OpenAIRE

    Martin, Nicolas; Mouret, Nicolas; Davies, Peter; Baley, Christophe

    2013-01-01

    The flax quality required for composite applications is not yet well established. Retting is one of the steps that are not well defined for these applications, and is a critical parameter during flax production. In this study, the influence of the degree of retting of flax on the properties of short flax fiber/polypropylene composites has been assessed. First, the degree of retting of gradually retted flax was measured by both qualitative and quantitative experimental techniques. In addition,...

  9. Misalignment Consideration in Laser Diode to Circular Core Single-Mode Dispersion-Shifted/Dispersion-Flattened Fiber Excitation via Hemispherical Microlens on the Tip of the Fiber

    Science.gov (United States)

    Kamila, Kiranmay; Middya, Tapas Ranjan; Gangopadhyay, Sankar

    2016-06-01

    We report the theoretical study of excitation efficiency in the presence of possible transverse and angular misalignments in the case of excitation of single-mode circular core dispersion-shifted and dispersion-flattened fiber by laser diode via hemispherical microlens on the tip of the fiber. The present study takes into consideration limited aperture allowed by the hemispherical microlens. Employing ABCD matrix technique involving refraction of paraxial rays by a hemispherical microlens on the fiber tip, we formulate analytical expressions for the coupling efficiencies in the presence of the said misalignments. The estimations of the concerned efficiencies as well as associated losses by using our formulations will require little computations. But the results found are sufficiently accurate and the execution of our formalism is simple. Thus the prescribed analytical expressions are useful and new in the sense that prediction of coupling optics can be made accurately but in a simple manner without requiring lengthy numerical integrations concerned with conventional phase model technique. Moreover, the present study, as per our knowledge till date, being the first theoretical investigation of excitation efficiency for the said type of coupling device, will benefit the experimentalists, designers and packagers who are working in the field of optimum launch optics involving such coupler.

  10. Highly tunable large core single-mode liquid crystal photonic bandgap fiber

    DEFF Research Database (Denmark)

    Alkeskjold, Thomas Tanggaard; Lægsgaard, Jesper; Bjarklev, Anders Overgaard

    2006-01-01

    We demonstrate a highly tunable photonic bandgap fiber, which has a large-core diameter of 25 mu m and an effective mode area of 440 mu m(2). The tunability is achieved by infiltrating the air holes of a photonic crystal fiber with an optimized liquid-crystal mixture having a large temperature...

  11. Single Particle Differentiation through 2D Optical Fiber Trapping and Back-Scattered Signal Statistical Analysis: An Exploratory Approach.

    Science.gov (United States)

    Paiva, Joana S; Ribeiro, Rita S R; Cunha, João P S; Rosa, Carla C; Jorge, Pedro A S

    2018-02-27

    Recent trends on microbiology point out the urge to develop optical micro-tools with multifunctionalities such as simultaneous manipulation and sensing. Considering that miniaturization has been recognized as one of the most important paradigms of emerging sensing biotechnologies, optical fiber tools, including Optical Fiber Tweezers (OFTs), are suitable candidates for developing multifunctional small sensors for Medicine and Biology. OFTs are flexible and versatile optotools based on fibers with one extremity patterned to form a micro-lens. These are able to focus laser beams and exert forces onto microparticles strong enough (piconewtons) to trap and manipulate them. In this paper, through an exploratory analysis of a 45 features set, including time and frequency-domain parameters of the back-scattered signal of particles trapped by a polymeric lens, we created a novel single feature able to differentiate synthetic particles (PMMA and Polystyrene) from living yeasts cells. This single statistical feature can be useful for the development of label-free hybrid optical fiber sensors with applications in infectious diseases detection or cells sorting. It can also contribute, by revealing the most significant information that can be extracted from the scattered signal, to the development of a simpler method for particles characterization (in terms of composition, heterogeneity degree) than existent technologies.

  12. Observing Exoplanets with High-dispersion Coronagraphy. II. Demonstration of an Active Single-mode Fiber Injection Unit

    Energy Technology Data Exchange (ETDEWEB)

    Mawet, D.; Ruane, G.; Xuan, W.; Echeverri, D.; Klimovich, N.; Randolph, M.; Fucik, J.; Wang, J.; Dekany, R.; Delorme, J.-R. [Department of Astronomy, California Institute of Technology, 1200 East California Boulevard, MC 249-17, Pasadena, CA 91125 (United States); Wallace, J. K.; Vasisht, G.; Mennesson, B.; Choquet, E.; Serabyn, E., E-mail: dmawet@astro.caltech.edu [Jet Propulsion Laboratory, California Institute of Technology, 4800 Oak Grove Drive, Pasadena, CA 91109 (United States)

    2017-04-01

    High-dispersion coronagraphy (HDC) optimally combines high-contrast imaging techniques such as adaptive optics/wavefront control plus coronagraphy to high spectral resolution spectroscopy. HDC is a critical pathway toward fully characterizing exoplanet atmospheres across a broad range of masses from giant gaseous planets down to Earth-like planets. In addition to determining the molecular composition of exoplanet atmospheres, HDC also enables Doppler mapping of atmosphere inhomogeneities (temperature, clouds, wind), as well as precise measurements of exoplanet rotational velocities. Here, we demonstrate an innovative concept for injecting the directly imaged planet light into a single-mode fiber, linking a high-contrast adaptively corrected coronagraph to a high-resolution spectrograph (diffraction-limited or not). Our laboratory demonstration includes three key milestones: close-to-theoretical injection efficiency, accurate pointing and tracking, and on-fiber coherent modulation and speckle nulling of spurious starlight signal coupling into the fiber. Using the extreme modal selectivity of single-mode fibers, we also demonstrated speckle suppression gains that outperform conventional image-based speckle nulling by at least two orders of magnitude.

  13. A novel optical single-sideband frequency translation technique for transmission of wireless MIMO signals over fiber-wireless system

    Science.gov (United States)

    Shaddad, Redhwan Q.; Mohammad, Abu Bakar; Al-Hetar, Abdulaziz M.; Al-Gailani, Samir A.

    2013-04-01

    The fiber-wireless (FiWi) access network is a powerful hybrid architecture of optical backhaul and wireless front-end to support high data rates and throughput with minimal time delay. By using radio over fiber (ROF) technique, the optical fiber is well adapted to propagate multiple wireless services having different carrier frequencies. However, multiple wireless signals which have the same carrier frequency cannot propagate over a single optical fiber on the same wavelength, such as multi-input multi-output (MIMO) signals. A novel optical single-sideband frequency translation technique is designed and simulated to solve this problem. 240 Mb/s 802.11n MIMO signals are proposed to transport over FiWi system using the proposed approach at 2.4 GHz and 5.0 GHz carrier frequencies. The crosstalk between MIMO signals with the same carrier frequency is excluded, since each MIMO signal is carried on a specific optical wavelength. Error vector magnitude (EVM) values of -29.83 dB (for 2.4 GHz) and -28.41 dB (for 5.0 GHz) have been achieved for bit error rate (BER) 10-5 in the proposed FiWi system.

  14. Low-bending loss and single-mode operation in few-mode optical fiber

    Science.gov (United States)

    Yin, Ping; Wang, Hua; Chen, Ming-Yang; Wei, Jin; Cai, Zhi-Min; Li, Lu-Ming; Yang, Ji-Hai; Zhu, Yuan-Feng

    2016-10-01

    The technique of eliminating the higher-order modes in a few-mode optical fiber is proposed. The fiber is designed with a group of defect modes in the cladding. The higher-order modes in the fiber can be eliminated by bending the fiber to induce strong coupling between the defect modes and the higher-order modes. Numerical simulation shows the bending losses of the LP01 mode are lower than 1.5×10-4 dB/turn for the wavelength shorter than 1.625 μm. The proposed fiber can be bent multiple turns at small bending radius which are preferable for FTTH related applications.

  15. Interphase Chromosome Conformation and Chromatin-Chromatin Interactions in Human Epithelial Cells Cultured Under Different Gravity Conditions

    Science.gov (United States)

    Zhang, Ye; Wong, Michael; Hada, Megumi; Wu, Honglu

    2015-01-01

    Microgravity has been shown to alter global gene expression patterns and protein levels both in cultured cells and animal models. It has been suggested that the packaging of chromatin fibers in the interphase nucleus is closely related to genome function, and the changes in transcriptional activity are tightly correlated with changes in chromatin folding. This study explores the changes of chromatin conformation and chromatin-chromatin interactions in the simulated microgravity environment, and investigates their correlation to the expression of genes located at different regions of the chromosome. To investigate the folding of chromatin in interphase under various culture conditions, human epithelial cells, fibroblasts, and lymphocytes were fixed in the G1 phase. Interphase chromosomes were hybridized with a multicolor banding in situ hybridization (mBAND) probe for chromosome 3 which distinguishes six regions of the chromosome as separate colors. After images were captured with a laser scanning confocal microscope, the 3-dimensional structure of interphase chromosome 3 was reconstructed at multi-mega base pair scale. In order to determine the effects of microgravity on chromosome conformation and orientation, measures such as distance between homologous pairs, relative orientation of chromosome arms about a shared midpoint, and orientation of arms within individual chromosomes were all considered as potentially impacted by simulated microgravity conditions. The studies revealed non-random folding of chromatin in interphase, and suggested an association of interphase chromatin folding with radiation-induced chromosome aberration hotspots. Interestingly, the distributions of genes with expression changes over chromosome 3 in cells cultured under microgravity environment are apparently clustered on specific loci and chromosomes. This data provides important insights into how mammalian cells respond to microgravity at molecular level.

  16. Single fiber colorless symmetric WDM-PON architecture using time interleaved remodulation technique for mitigating Rayleigh backscattering resilience

    Science.gov (United States)

    Afridi, Muhammad Idrees; Zhang, Jie; Zhao, Yong-li; Latif, Abdul; Niazi, Shahab Ahmed

    2013-01-01

    A time interleaved differential phase shift keying (DPSK) remodulation technique is proposed to mitigate the effect of Rayleigh backscattering (RBS)-induced noise in a single fiber colorless wavelength-division-multiplexing passive optical network (WDM-PON). In order to achieve a cost effective optical network unit (ONU) solution without dedicated laser sources for upstream signals to provide optimum symmetric capacity in a colorless WDM-PON, remodulation becomes the core attraction. Also as the performance of colorless WDM-PON systems suffers from the transmission impairments due to RBS, it is mitigated by using this remodulation scheme. Simulation results show that downstream and upstream signals achieve the error-free performance at 10 Gbit/s with negligible penalty, and enhance the tolerance to RBS-induced noise over a 25 km single-mode fiber.

  17. Single-shot photonic time-stretch digitizer using a dissipative soliton-based passively mode-locked fiber laser.

    Science.gov (United States)

    Peng, Di; Zhang, Zhiyao; Zeng, Zhen; Zhang, Lingjie; Lyu, Yanjia; Liu, Yong; Xie, Kang

    2018-03-19

    We demonstrate a single-shot photonic time-stretch digitizer using a dissipative soliton-based passively mode-locked fiber laser. The theoretical analysis and simulation results indicate that the dissipative soliton-based optical source with a flat spectrum relieves the envelope-induced signal distortion, and its high energy spectral density helps to improve the signal-to-noise ratio, both of which are favorable for simplifying the optical front-end architecture of a photonic time-stretch digitizer. By employing a homemade dissipative soliton-based passively mode-locked erbium-doped fiber laser in a single-shot photonic time-stretch digitizer, an effective number of bits of 4.11 bits under an effective sampling rate of 100 GS/s is experimentally obtained without optical amplification in the link and pulse envelope removing process.

  18. Label-free tracking of single extracellular vesicles in a nano-fluidic optical fiber (Conference Presentation)

    Science.gov (United States)

    van der Pol, Edwin; Weidlich, Stefan; Lahini, Yoav; Coumans, Frank A. W.; Sturk, Auguste; Nieuwland, Rienk; Schmidt, Markus A.; Faez, Sanli; van Leeuwen, Ton G.

    2016-03-01

    Background: Extracellular vesicles, such as exosomes, are abundantly present in human body fluids. Since the size, concentration and composition of these vesicles change during disease, vesicles have promising clinical applications, including cancer diagnosis. However, since ~70% of the vesicles have a diameter vesicles remains challenging. Thus far, vesicles vesicles to be adhered to a surface. Consequently, the majority of vesicles have never been studied in their physiological environment. We present a novel label-free optical technique to track single vesicles vesicles were contained within a single-mode light-guiding silica fiber containing a 600 nm nano-fluidic channel. Light from a diode laser (660 nm wavelength) was coupled to the fiber, resulting in a strongly confined optical mode in the nano-fluidic channel, which continuously illuminated the freely diffusing vesicles inside the channel. The elastic light scattering from the vesicles, in the direction orthogonal to the fiber axis, was collected using a microscope objective (NA=0.95) and imaged with a home-built microscope. Results: We have tracked single urinary vesicles as small as 35 nm by elastic light scattering. Please note that vesicles are low-refractive index (nvesicles vesicle-based clinical applications.

  19. Inferring the physical properties of yeast chromatin through Bayesian analysis of whole nucleus simulations.

    Science.gov (United States)

    Arbona, Jean-Michel; Herbert, Sébastien; Fabre, Emmanuelle; Zimmer, Christophe

    2017-05-03

    The structure and mechanical properties of chromatin impact DNA functions and nuclear architecture but remain poorly understood. In budding yeast, a simple polymer model with minimal sequence-specific constraints and a small number of structural parameters can explain diverse experimental data on nuclear architecture. However, how assumed chromatin properties affect model predictions was not previously systematically investigated. We used hundreds of dynamic chromosome simulations and Bayesian inference to determine chromatin properties consistent with an extensive dataset that includes hundreds of measurements from imaging in fixed and live cells and two Hi-C studies. We place new constraints on average chromatin fiber properties, narrowing down the chromatin compaction to ~53-65 bp/nm and persistence length to ~52-85 nm. These constraints argue against a 20-30 nm fiber as the exclusive chromatin structure in the genome. Our best model provides a much better match to experimental measurements of nuclear architecture and also recapitulates chromatin dynamics measured on multiple loci over long timescales. This work substantially improves our understanding of yeast chromatin mechanics and chromosome architecture and provides a new analytic framework to infer chromosome properties in other organisms.

  20. Theoretical analysis and numerical simulation of electromagnetic parameters of Fe-C coaxial single fiber

    Energy Technology Data Exchange (ETDEWEB)

    Xie, Wei, E-mail: cslggncl@163.com [Key Laboratory of Safety Design and Reliability Technology for Engineering Vehicle, Hunan Province, Changsha University of Science and Technology, Changsha 410114 (China); Hunan Province Higher Education Key Laboratory of Modeling and Monitoring on the Near-Earth Electromagnetic Environments, Changsha University of Science & Technology, Changsha 410114 (China); College of Aerospace Science and Engineering, National University of Defense Technology, Changsha 410073 (China); Chemical and Biomolecular Engineering Department, University of Tennessee, Knoxville, TN 37996 (United States); Zhu, Xukun; Kuang, Jiacai [Key Laboratory of Safety Design and Reliability Technology for Engineering Vehicle, Hunan Province, Changsha University of Science and Technology, Changsha 410114 (China); Hunan Province Higher Education Key Laboratory of Modeling and Monitoring on the Near-Earth Electromagnetic Environments, Changsha University of Science & Technology, Changsha 410114 (China); Yi, Shihe; Cheng, Haifeng [College of Aerospace Science and Engineering, National University of Defense Technology, Changsha 410073 (China); Guo, Zhanhu; He, Qingliang [Chemical and Biomolecular Engineering Department, University of Tennessee, Knoxville, TN 37996 (United States)

    2017-06-15

    Highlights: • Theoretical formula and calculation results of effective permeability and effective permittivity of the Fe-C coaxial fiber are obtained based on the Maxwell equation. • The coaxial fiber has stronger anisotropy and better electromagnetic dissipation performance than the hollow carbon fiber and solid iron fiber with the same volume content. • Greater conductivity, larger aspect ratio, thin iron shell play important roles to improve the electromagnetic matching ability and microwave attenuation for the Fe-C coaxial fibers. - Abstract: Based on the Maxwell equation, the electromagnetic model in the coaxial fiber was described. The interaction with electromagnetic wave was analysed and the theoretical formula of axial permeability (μ{sub ∥}), axial permittivity (ε{sub ∥}), radial permeability (μ{sub ⊥}) and radial permittivity (ε{sub ⊥}) of Fe-C coaxial fiber were derived, and the demagnetization factor (N) of fibrous material was revised. Calculation results indicate that the composite fiber has stronger anisotropy and better EM dissipation performance than the hollow carbon fiber and solid iron fiber with the same volume content. These properties can be enhanced through increasing aspect ratio and carbon content. The μ{sub ‖} is 5.18-4.46i, μ{sub ⊥} is 2.58-0.50i, ε{sub ∥} is 7.63-6.97i, and ε{sub ⊥} is 1.98-0.15i when the electromagnetic wave frequency is 5 GHz with the outer diameter of 0.866 μm, inner diameter of 0.500 μm, and length of 20 μm. The maximum of the imaginary part of μ{sub ∥} and ε{sub ∥} are much larger than that of μ{sub ⊥} and ε{sub ⊥} when the structural parameters change, and the maximum of μ{sub ∥} and ε{sub ∥} can reach 6.429 and 23.59. Simulation results show that greater conductivity, larger aspect ratio, thin iron shell play important roles to improve the electromagnetic matching ability and microwave attenuation for the Fe-C coaxial fibers.

  1. Nonlinear optics at the single-photon level inside a hollow core fiber

    DEFF Research Database (Denmark)

    Hofferberth, Sebastian; Peyronel, Thibault; Liang, Qiyu

    2011-01-01

    Cold atoms inside a hollow core fiber provide an unique system for studying optical nonlinearities at the few-photon level. Confinement of both atoms and photons inside the fiber core to a diameter of just a few wavelengths results in high electric field intensity per photon and large optical...... depths with a relatively small number of atoms. We present our experimental apparatus and discuss results regarding all-optical switching at ultra-low light levels....

  2. Single-step emulation of nonlinear fiber-optic link with gaussian mixture model

    DEFF Research Database (Denmark)

    Borkowski, Robert; Doberstein, Andy; Haisch, Hansjörg

    2015-01-01

    We use a fast and low-complexity statistical signal processing method to emulate nonlinear noise in fiber links. The proposed emulation technique stands in good agreement with the numerical NLSE simulation for 32 Gbaud DP-16QAM nonlinear transmission.......We use a fast and low-complexity statistical signal processing method to emulate nonlinear noise in fiber links. The proposed emulation technique stands in good agreement with the numerical NLSE simulation for 32 Gbaud DP-16QAM nonlinear transmission....

  3. The telomere binding protein TRF2 induces chromatin compaction.

    Directory of Open Access Journals (Sweden)

    Asmaa M Baker

    2011-04-01

    Full Text Available Mammalian telomeres are specialized chromatin structures that require the telomere binding protein, TRF2, for maintaining chromosome stability. In addition to its ability to modulate DNA repair activities, TRF2 also has direct effects on DNA structure and topology. Given that mammalian telomeric chromatin includes nucleosomes, we investigated the effect of this protein on chromatin structure. TRF2 bound to reconstituted telomeric nucleosomal fibers through both its basic N-terminus and its C-terminal DNA binding domain. Analytical agarose gel electrophoresis (AAGE studies showed that TRF2 promoted the folding of nucleosomal arrays into more compact structures by neutralizing negative surface charge. A construct containing the N-terminal and TRFH domains together altered the charge and radius of nucleosomal arrays similarly to full-length TRF2 suggesting that TRF2-driven changes in global chromatin structure were largely due to these regions. However, the most compact chromatin structures were induced by the isolated basic N-terminal region, as judged by both AAGE and atomic force microscopy. Although the N-terminal region condensed nucleosomal array fibers, the TRFH domain, known to alter DNA topology, was required for stimulation of a strand invasion-like reaction with nucleosomal arrays. Optimal strand invasion also required the C-terminal DNA binding domain. Furthermore, the reaction was not stimulated on linear histone-free DNA. Our data suggest that nucleosomal chromatin has the ability to facilitate this activity of TRF2 which is thought to be involved in stabilizing looped telomere structures.

  4. Formation and conversion of defect centers in low water peak single mode optical fiber induced by gamma rays irradiation

    International Nuclear Information System (INIS)

    Wen, J. X.; Luo, W. Y.; Xiao, Z. Y.; Wang, T. Y.; Chen, Z. Y.; Zeng, X. L.

    2010-01-01

    The formation and conversion processes of defect centers in low water peak single mode optical (LWPSM) fiber irradiated with gamma rays were investigated at room temperature using electron spin resonance. Germanium electron center (GEC) and self-trapped hole center (STH) occur when the fibers are irradiated with 1 and 5 kGy cumulative doses, respectively. With the increase in irradiation doses, the GEC defect centers disappear, and new defect centers such as E ' centers (Si and Ge) and nonbridge oxygen hole centers (NBOHCs) generate. The generation of GEC and STH is attributed to the electron transfer, which is completely balanced. This is the main reason that radiation-induced attenuation (RIA) of the LWPSM fiber is only 10 dB/km at communication window. The new defect centers come from the conversion of GEC and STH to E ' centers and NBOHC, and the conversion processes cause bond cleavage, which is the root cause that the RIA of the LWPSM fiber significantly increases up to 180 dB/km at working window. Furthermore, the concentration of new defect centers is saturated easily even by increasing cumulative doses.

  5. High Power Fiber Laser Welding of Single Sided T-Joint on Shipbuilding Steel with Different Processing Setups

    Directory of Open Access Journals (Sweden)

    Anna Unt

    2017-12-01

    Full Text Available Laser welding of thick plates in production environments is one of the main applications of high power lasers; however, the process has certain limitations. The small spot size of the focused beam produces welds with high depth-to-width aspect ratio but at times fails to provide sufficient reinforcement in certain applications because of poor gap bridging ability. The results of welding shipbuilding steel AH36 with thickness of 8 mm as a single-sided T-joint using a 10 kW fiber laser are presented and discussed in this research paper. Three optical setups with process fibers of 200 µm, 300 µm and 600 µm core diameters were used to study the possibilities and limitations set by the beam delivery system. The main parameters studied were beam inclination angle, beam offset from the joint plane and focal point position. Full penetration joints were produced and the geometry of the welds was examined. It was found that process fibers with smaller core diameter produce deeper penetration but suffer from sensitivity to beam positioning deviation. Larger fibers are less sensitive and produce wider welds but have, in turn, lower penetration at equivalent power levels.

  6. Single-frequency pulsed Brillouin-thulium fiber laser at 2 µm with nonlinear polarization rotation and active phase modulation

    Science.gov (United States)

    Wang, Xiong; Lv, Haibin; Zhou, Pu; Wu, Weijun; Wang, Xiaolin; Xiao, Hu; Liu, Zejin

    2014-10-01

    We present a single-frequency (SF) pulsed fiber laser at 2 µm based on stimulated Brillouin scattering in a thulium-doped fiber laser. The effective feedback of the fiber laser is quite weak to induce pulse operation. Nonlinear polarization rotation and active phase modulation are employed to compress the pulse width and stabilize the pulse train. This SF pulsed Brillouin-thulium fiber laser (BTFL) can generate a stable pulse train with a repetition rate of ˜310 kHz and a pulse width of ˜200 ns. The repetition rate of the pulse train can be adjusted by controlling the cavity length, and the pulse width can be tuned between 200 and 500 ns. The central wavelength locates at 1971.58 nm with an optical signal-to-noise ratio of more than 40 dB, and the linewidth is about 6 MHz. This is the first demonstration of the SF pulsed BTFL as far as we know.

  7. Chromatin stiffening underlies enhanced locus mobility after DNA damage in budding yeast.

    Science.gov (United States)

    Herbert, Sébastien; Brion, Alice; Arbona, Jean-Michel; Lelek, Mickaël; Veillet, Adeline; Lelandais, Benoît; Parmar, Jyotsana; Fernández, Fabiola García; Almayrac, Etienne; Khalil, Yasmine; Birgy, Eleonore; Fabre, Emmanuelle; Zimmer, Christophe

    2017-09-01

    DNA double-strand breaks (DSBs) induce a cellular response that involves histone modifications and chromatin remodeling at the damaged site and increases chromosome dynamics both locally at the damaged site and globally in the nucleus. In parallel, it has become clear that the spatial organization and dynamics of chromosomes can be largely explained by the statistical properties of tethered, but randomly moving, polymer chains, characterized mainly by their rigidity and compaction. How these properties of chromatin are affected during DNA damage remains, however, unclear. Here, we use live cell microscopy to track chromatin loci and measure distances between loci on yeast chromosome IV in thousands of cells, in the presence or absence of genotoxic stress. We confirm that DSBs result in enhanced chromatin subdiffusion and show that intrachromosomal distances increase with DNA damage all along the chromosome. Our data can be explained by an increase in chromatin rigidity, but not by chromatin decondensation or centromeric untethering only. We provide evidence that chromatin stiffening is mediated in part by histone H2A phosphorylation. Our results support a genome-wide stiffening of the chromatin fiber as a consequence of DNA damage and as a novel mechanism underlying increased chromatin mobility. © 2017 The Authors.

  8. Sensors Based on Thin-Film Coated Cladding Removed Multimode Optical Fiber and Single-Mode Multimode Single-Mode Fiber: A Comparative Study

    Directory of Open Access Journals (Sweden)

    Ignacio Del Villar

    2015-01-01

    Full Text Available Two simple optical fibre structures that do not require the inscription of a grating, a cladding removed multimode optical fibre (CRMOF and a single-mode multimode single-mode structure (SMS, are compared in terms of their adequateness for sensing once they are coated with thin-films. The thin-film deposited (TiO2/PSS permits increasing the sensitivity to surrounding medium refractive index. The results obtained can be extrapolated to other fields such as biological or chemical sensing just by replacing the thin-film by a specific material.

  9. Chromatin and Transcription in Yeast

    Science.gov (United States)

    Rando, Oliver J.; Winston, Fred

    2012-01-01

    Understanding the mechanisms by which chromatin structure controls eukaryotic transcription has been an intense area of investigation for the past 25 years. Many of the key discoveries that created the foundation for this field came from studies of Saccharomyces cerevisiae, including the discovery of the role of chromatin in transcriptional silencing, as well as the discovery of chromatin-remodeling factors and histone modification activities. Since that time, studies in yeast have continued to contribute in leading ways. This review article summarizes the large body of yeast studies in this field. PMID:22345607

  10. Design of single-polarization coupler based on dual-core photonic band-gap fiber implied in resonant fiber optic gyro

    Science.gov (United States)

    Xu, Zhenlong; Li, Xuyou; Zhang, Chunmei; Ling, Weiwei; Liu, Pan; Xia, Linlin; Yang, Hanrui

    2016-12-01

    A novel (to our knowledge) type of single-polarization (SP) coupler based on a dual-core photonic band-gap fiber (PBF) is proposed. The effects of structure parameters on the performance of this coupler are studied numerically based on the full vector finite element method (FEM). Finally, an optimal design with a length of 0.377 mm at the wavelength of 1.55 μm is achieved, and its implication in PBF-based fiber ring resonator (FRR), the effect of angular misalignment on the SP coupler are analyzed as well. When the SP coupler is incorporated into a PBF-based FRR, it functions as the power splitter and the polarizer simultaneously, and can extinct the secondary eigenstate of polarization (ESOP) propagating in the FRR. The mode field of SP coupler can match with the polarization-maintaining (PM) PBF with ultra-low temperature sensitivity proposed in previous study, and an all PM-PBF based FRR can be established, which is of great significance in suppressing the temperature-related polarization fluctuation and improving the long-term stability for RFOG, and the SP coupler has high angular misalignment tolerance as well.

  11. Method and Apparatus of Multiplexing and Acquiring Data from Multiple Optical Fibers Using a Single Data Channel of an Optical Frequency-Domain Reflectometry (OFDR) System

    Science.gov (United States)

    Parker, Jr., Allen R (Inventor); Chan, Hon Man (Inventor); Piazza, Anthony (Nino) (Inventor); Richards, William Lance (Inventor)

    2014-01-01

    A method and system for multiplexing a network of parallel fiber Bragg grating (FBG) sensor-fibers to a single acquisition channel of a closed Michelson interferometer system via a fiber splitter by distinguishing each branch of fiber sensors in the spatial domain. On each branch of the splitter, the fibers have a specific pre-determined length, effectively separating each branch of fiber sensors spatially. In the spatial domain the fiber branches are seen as part of one acquisition channel on the interrogation system. However, the FBG-reference arm beat frequency information for each fiber is retained. Since the beat frequency is generated between the reference arm, the effective fiber length of each successive branch includes the entire length of the preceding branch. The multiple branches are seen as one fiber having three segments where the segments can be resolved. This greatly simplifies optical, electronic and computational complexity, and is especially suited for use in multiplexed or branched OFS networks for SHM of large and/or distributed structures which need a lot of measurement points.

  12. ChromEMT: Visualizing 3D chromatin structure and compaction n interphase and mitotic cells

    Science.gov (United States)

    Ou, Horng D.; Phan, Sébastien; Deerinck, Thomas J.; Thor, Andrea; Ellisman, Mark H.; O’Shea, Clodagh C.

    2017-01-01

    The chromatin structure of DNA determines genome compaction and activity in the nucleus. On the basis of in vitro structures and electron microscopy (EM) studies, the hierarchical model is that 11-nanometer DNA-nucleosome polymers fold into 30- and subsequently into 120- and 300-to 700-nanometer fibers and mitotic chromosomes. To visualize chromatin in situ, we identified a fluorescent dye that stains DNA with an osmiophilic polymer and selectively enhances its contrast in EM. Using ChromEMT (ChromEM tomography), we reveal the ultrastructure and three-dimensional (3D) organization of individual chromatin polymers, megabase domains, and mitotic chromosomes. We show that chromatin is a disordered 5- to 24-nanometer-diameter curvilinear chain that is packed together at different 3D concentration distributions in interphase and mitosis. Chromatin chains have many different particle arrangements and bend at various lengths to achieve structural compaction and high packing densities. PMID:28751582

  13. The equivalent circuit of single crab muscle fibers as determined by impedance measurements with intracellular electrodes.

    Science.gov (United States)

    Eisenberg, R S

    1967-07-01

    The input impedance of muscle fibers of the crab was determined with microelectrodes over the frequency range 1 cps to 10 kc/sec. Care was taken to analyze, reduce, and correct for capacitive artifact. One dimensional cable theory was used to determine the properties of the equivalent circuit of the membrane admittance, and the errors introduced by the neglect of the three dimensional spread of current are discussed. In seven fibers the equivalent circuit of an element of the membrane admittance must contain a DC path and two capacitances, each in series with a resistance. In two fibers, the element of membrane admittance could be described by one capacitance in parallel with a resistance. In several fibers there was evidence for a third very large capacitance. The values of the elements of the equivalent circuit depend on which of several equivalent circuits is chosen. The circuit (with a minimum number of elements) that was considered most reasonably consistent with the anatomy of the fiber has two branches in parallel: one branch having a resistance R(e) in series with a capacitance C(e); the other branch having a resistance R(b) in series with a parallel combination of a resistance R(m) and a capacitance C(m). The average circuit values (seven fibers) for this model, treating the fiber as a cylinder of sarcolemma without infoldings or tubular invaginations, are R(e) = 21 ohm cm(2); C(e) = 47 microf/cm(2); R(b) = 10.2 ohm cm(2); R(m) = 173 ohm cm(2); C(m) = 9.0 microf/cm(2). The relation of this equivalent circuit and another with a nonminimum number of circuit elements to the fine structure of crab muscle is discussed. In the above equivalent circuit R(m) and C(m) are attributed to the sarcolemma; R(e) and C(e), to the sarcotubular system; and R(b), to the amorphous material found around crab fibers. Estimates of actual surface area of the sarcolemma and sarcotubular system permit the average circuit values to be expressed in terms of unit membrane area. The

  14. Impact Resistance of Recycled Aggregate Concrete with Single and Hybrid Fibers

    Directory of Open Access Journals (Sweden)

    Ismail Sallehan

    2016-01-01

    Full Text Available This paper presents a recycled aggregate concrete (RAC mix that has been modified by adding treated recycled concrete aggregate (RCA and various types of fiber-reinforced systems. The effectiveness of these modifications in terms of energy absorption and impact resistance was evaluated and compared with that of the corresponding regular concrete, as well as with unmodified RAC specimens. Results clearly indicate that although modification of the RAC mix with treated RCA significantly enhances the impact resistance of RAC, further diversification with additional fiber, particularly those in hybrid form, can optimize the results.

  15. Polymer optical fiber Bragg grating inscription with a single UV laser pulse

    DEFF Research Database (Denmark)

    Pospori, Andreas; Marques, A.T.; Bang, Ole

    2017-01-01

    laser pulse with a duration of 15 ns, which provide energy density of 974 mJ/cm2, is adequate to introduce a refractive index change of 0.74×10-4 in the fiber core. After the exposure, the reflectivity of the grating increases for a few minutes following a second order exponential saturation...... of the grating structures. Optimizing the irradiation conditions and the material chemical composition, a higher refractive index change in the fiber core is feasible. This demonstration significantly improves the potential for commercial exploitation of the technology....

  16. Contact angle goniometry on single micron-scale fibers for composites

    DEFF Research Database (Denmark)

    Hansen, Daniel; Bomholt, Niels; Jeppesen, Jonas Camillus

    2017-01-01

    Probing the wetting properties of microfibers by polymer resins is of significant interest for the rational design of composite materials. Here, we demonstrate the measurement of contact angles on wetted micron scale fibers by imaging the fluid meniscus with telecentric optics at a spatial...... resolution of 4 um followed by automated image analysis. The meniscus is described as a catenary in the zero gravity approximation and by fitting this to the measured profile, the contact angle is obtained at the intersection between the fluid and the fiber surface. The method is validated by measuring...

  17. Characterizing the molecular architectures of chromatin-modifying complexes.

    Science.gov (United States)

    Setiaputra, Dheva T; Yip, Calvin K

    2017-11-01

    Eukaryotic cells package their genome in the form of a DNA-protein complex known as chromatin. This organization not only condenses the genome to fit within the confines of the nucleus, but also provides a platform for a cell to regulate accessibility to different gene sequences. The basic packaging element of chromatin is the nucleosome, which consists of 146 base pairs of DNA wrapped around histone proteins. One major means that a cell regulates chromatin structure is by depositing post-translational modifications on nucleosomal histone proteins, and thereby altering internucleosomal interactions and/or binding to different chromatin associated factors. These chromatin modifications are often catalyzed by multi-subunit enzyme complexes, whose large size, sophisticated composition, and inherent conformational flexibility pose significant technical challenges to their biochemical and structural characterization. Multiple structural approaches including nuclear magnetic resonance spectroscopy, X-ray crystallography, single-particle electron microscopy, and crosslinking coupled to mass spectrometry are often used synergistically to probe the overall architecture, subunit organization, and catalytic mechanisms of these macromolecular assemblies. In this review, we highlight several recent chromatin-modifying complexes studies that embodies this multipronged structural approach, and explore common themes amongst them. This article is part of a Special Issue entitled: Biophysics in Canada, edited by Lewis Kay, John Baenziger, Albert Berghuis and Peter Tieleman. Copyright © 2017 Elsevier B.V. All rights reserved.

  18. Modal analysis and dispersion curves of an elliptical W-type single mode fiber

    Science.gov (United States)

    Prajapati, Y.; Maurya, Jitendra Bahadur; Singh, Vivek; Saini, J. P.

    2015-05-01

    In this paper, the propagation of electromagnetic waves in W-type elliptical dielectric optical fiber having various cladding layers is presented. The presented fiber has concentric core and cladding which have elliptical cross section and the refractive index of one of the inner cladding (the cladding between first clad and last clad) maximum. Using elliptic cylindrical coordinates, boundary conditions are derived and longitudinal field components for the even and odd modes are obtained. The characteristic equation for the fiber to be studied is determined by solving the Mathieu ( q > 0) and the modified Mathieu functions ( q < 0). In order to study the fundamental mode, the modal index m is put as m = 1. Finally, the cutoff frequencies for several lower order modes have been calculated and their dispersion characteristics are plotted. The effects of elliptical eccentricity e on the mode cutoff frequencies and mode transmissions are also addressed. The analysis shows that one can control the propagation property of optical fiber by increasing the number of inner claddings. These claddings provide additional degree of freedom to control the modes.

  19. An Organic Memristive Element Based on Single Polyaniline/Polyamide-6 Fiber

    Science.gov (United States)

    Lapkin, D. A.; Malakhov, S. N.; Demin, V. A.; Chvalun, S. N.

    2017-12-01

    Conducting hybrid polyaniline-coated polyamide-6 fiber has been obtained and used as the basis for an organic memristive element. The proposed device exhibits resistive switching with a continuous character of conductance variation. The results show that the proposed organic memristor can be used for creating three-dimensional stochastic networks based on hybrid nonwoven materials.

  20. Low Loss Single-Mode Porous-Core Kagome Photonic Crystal Fiber for THz Wave Guidance

    DEFF Research Database (Denmark)

    Hasanuzzaman, G. K. M.; Habib, Selim; Abdur Razzak, S. M.

    2015-01-01

    A novel porous-core kagome lattice photonic crystal fiber (PCF) is designed and analyzed in this paper for terahertz (THz) wave guidance. Using finite element method (FEM), properties of the proposed kagome lattice PCF are simulated in details including the effective material loss (EML...

  1. Highly tunable large core single-mode liquid crystal photonic bandgap fiber

    DEFF Research Database (Denmark)

    Alkeskjold, Thomas Tanggaard; Lægsgaard, Jesper; Bjarklev, Anders Overgaard

    2006-01-01

    We demonstrate a highly tunable photonic bandgap fiber, which has a core diameter of 25mm, and a bandgap tuning sensitivity of 27nm/°C at room temperature. The insertion loss is estimated to be less than 0.5dB....

  2. Universal route to optimal few- to single-cycle pulse generation in hollow-core fiber compressors.

    Science.gov (United States)

    Conejero Jarque, E; San Roman, J; Silva, F; Romero, R; Holgado, W; Gonzalez-Galicia, M A; Alonso, B; Sola, I J; Crespo, H

    2018-02-02

    Gas-filled hollow-core fiber (HCF) pulse post-compressors generating few- to single-cycle pulses are a key enabling tool for attosecond science and ultrafast spectroscopy. Achieving optimum performance in this regime can be extremely challenging due to the ultra-broad bandwidth of the pulses and the need of an adequate temporal diagnostic. These difficulties have hindered the full exploitation of HCF post-compressors, namely the generation of stable and high-quality near-Fourier-transform-limited pulses. Here we show that, independently of conditions such as the type of gas or the laser system used, there is a universal route to obtain the shortest stable output pulse down to the single-cycle regime. Numerical simulations and experimental measurements performed with the dispersion-scan technique reveal that, in quite general conditions, post-compressed pulses exhibit a residual third-order dispersion intrinsic to optimum nonlinear propagation within the fiber, in agreement with measurements independently performed in several laboratories around the world. The understanding of this effect and its adequate correction, e.g. using simple transparent optical media, enables achieving high-quality post-compressed pulses with only minor changes in existing setups. These optimized sources have impact in many fields of science and technology and should enable new and exciting applications in the few- to single-cycle pulse regime.

  3. Particle size analysis in a turbid media with a single-fiber, optical probe while using a visible spectrometer

    Science.gov (United States)

    Canpolat, Murat; Mourant, Judith R.

    2003-12-09

    Apparatus and method for measuring scatterer size in a dense media with only a single fiber for both light delivery and collection are disclosed. White light is used as a source and oscillations of the detected light intensities are measured as a function of wavelength. The maximum and minimum of the oscillations can be used to determine scatterer size for monodisperse distributions of spheres when the refractive indices are known. In addition several properties of the probe relevant to tissue diagnosis are disclosed including the effects of absorption, a broad distribution of scatterers, and the depth probed.

  4. Variable single-passband narrowband optical filter based on forward stimulated interpolarization scattering in photonic crystal fiber.

    Science.gov (United States)

    Qin, Yi; Sun, Junqiang; Du, Mingdi; Liao, Jianfei

    2012-09-01

    A variable transmission spectrum single-passband narrowband optical filter is proposed and experimentally demonstrated. It is based on forward stimulated interpolarization scattering (SIPS) in a photonic crystal fiber by applying a differential quadrature phase-shift keying modulation to the pump wave to broaden and shape the SIPS gain spectrum. By choosing the bit rate of the modulation data pattern, a flat-top steep-cutoff optical bandpass filter with a 3 dB bandwidth of 70 MHz and a 10 dB bandwidth of 90 MHz is realized. In addition, a variable narrowband optical notch filter is also realized by attenuation of the pump wave.

  5. Switchable dual-wavelength single-longitudinal-mode erbium-doped fiber laser using an inverse-Gaussian apodized fiber Bragg grating filter and a low-gain semiconductor optical amplifier.

    Science.gov (United States)

    Lin, Bo; Tjin, Swee Chuan; Zhang, Han; Tang, Dingyuan; Hao, Jianzhong; Dong, Bo; Liang, Sheng

    2010-12-20

    We present a stable and switchable dual-wavelength erbium-doped fiber laser. In the ring cavity, an inverse-Gaussian apodized fiber Bragg grating serves as an ultranarrow dual-wavelength passband filter, a semiconductor optical amplifier biased in the low-gain regime reduces the gain competition of the two wavelengths, and a feedback fiber loop acts as a mode filter to guarantee a stable single-longitudinal-mode operation. Two lasing lines with a wavelength separation of approximately 0.1 nm are obtained experimentally. A microwave signal at 12.51 GHz is demonstrated by beating the dual wavelengths at a photodetector.

  6. Sensitivity-enhanced Tm3+/Yb3+ co-doped YAG single crystal optical fiber thermometry based on upconversion emissions

    Science.gov (United States)

    Yu, Lu; Ye, Linhua; Bao, Renjie; Zhang, Xianwei; Wang, Li-Gang

    2018-03-01

    Optical thermometry based on Y3Al5O12 (YAG) single crystal optical fiber with end Tm3+/Yb3+ co-doped is presented. The YAG crystal fiber with end Tm3+/Yb3+ co-doped was grown by laser heated pedestal growth (LHPG) method. Under a 976 nm laser diode excitation, the upconversion (UC) emissions, originating from 3F2,3 →3H6 and 3H4 →3H6 transitions of Tm3+ ions, were investigated in the temperature range from 333 K to 733 K. Interestingly, the UC emission intensity of 3F2,3 →3H6 transition was significantly enhanced with increase of temperature, as compared with the other Tm3+/Yb3+ co-doped materials. The temperature dependence of fluorescence intensity ratio (FIR) of these two emission bands (3F2,3/3H4 →3H6) suggests that this doped YAG crystal fiber can be used as a highly sensitive optical thermal probe, which demonstrates a high absolute sensitivity with the maximum value of 0.021 K-1 at 733 K. In addition, due to the compact structure, strong mechanical strength and high thermal stability, such thermal probe may be a more promising candidate for temperature sensor with a high spatial resolution.

  7. Single fiber push-out characterization of interfacial mechanical properties in unidirectional CVI-C/SiC composites by the nano-indentation technique

    Science.gov (United States)

    Zhang, Lifeng; Ren, Chengzu; Zhou, Changling; Xu, Hongzhao; Jin, Xinmin

    2015-12-01

    The characterization of interfaces in woven ceramic matrix composites is one of the most challenging problems in composite application. In this investigation, a new model material consisting of the chemical vapor infiltration unidirectional C/SiC composites with PyC fiber coating were prepared and evaluated to predict the interfacial mechanic properties of woven composites. Single fiber push-out/push-back tests with the Berkovich indenter were conducted on the thin sliced specimens using nano-indentation technique. To give a detailed illustration of the interfacial crack propagation and failure mechanism, each sector during the push-out process was analyzed at length. The test results show that there is no detectable difference between testing a fiber in a direct vicinity to an already tested fiber and testing a fiber in vicinity to not-pushed fibers. Moreover, the interface debonding and fiber sliding mainly occur at the PyC coating, and both the fiber and surrounding matrix have no plastic deformation throughout the process. Obtained from the load-displacement curve, the interfacial debonding strength (IDS) and friction stress (IFS) amount to, respectively, 35 ± 5 MPa and 10 ± 1 MPa. Based on the findings, the interfacial properties with PyC fiber coating can be predicted. Furthermore, it is expected to provide a useful guideline for the design, evaluation and optimal application of CVI-C/SiC.

  8. Effect of cleft palate repair on the susceptibility to contraction-induced injury of single permeabilized muscle fibers from congenitally-clefted goat palates.

    Science.gov (United States)

    Rader, Erik P; Cederna, Paul S; McClellan, William T; Caterson, Stephanie A; Panter, Kip E; Yu, Deborah; Buchman, Steven R; Larkin, Lisa M; Faulkner, John A; Weinzweig, Jeffrey

    2008-03-01

    Despite cleft palate repair, velopharyngeal competence is not achieved in approximately 15% of patients, often necessitating secondary surgical correction. Velopharyngeal competence postrepair may require the conversion of levator veli palatini muscle fibers from injury-susceptible type 2 fibers to injury-resistant type 1 fibers. As an initial step to determining the validity of this theory, we tested the hypothesis that, in most cases, repair induces the transformation to type 1 fibers, thus diminishing susceptibility to injury. Single permeabilized levator veli palatini muscle fibers were obtained from normal palates and nonrepaired congenitally-clefted palates of young (2 months old) and adult (14 to 15 months old) goats and from repaired palates of adult goats (8 months old). Repair was done at 2 months of age using a modified von Langenbeck technique. Fiber type was determined by contractile properties and susceptibility to injury was assessed by force deficit, the decrease in maximum force following a lengthening contraction protocol expressed as a percentage of initial force. For normal palates and cleft palates of young goats, the majority of the fibers were type 2 with force deficits of approximately 40%. Following repair, 80% of the fibers were type 1 with force deficits of 20% +/- 2%; these deficits were 45% of those for nonrepaired cleft palates of adult goats (p < .0001). The decrease in the percentage of type 2 fibers and susceptibility to injury may be important for the development of a functional levator veli palatini muscle postrepair.

  9. Instrument for all-fiber structure measurement of ultra-low turbidity by using single photon detection technique

    Science.gov (United States)

    Qin, Feihu; Hu, Juntao; Wang, Huanqin; Gui, Huaqiao; Liu, Jianguo; Lü, Liang; Kong, Deyi; Zhang, Jian; Han, Xia; Wang, Tianli

    2017-10-01

    An all-fiber structure detection system based on single photon detection technique(SPDT) has been developed to measure the ultra-low turbidity ofliquids. To assure the measurement accuracy,the total intensity of transmission light has been detected and quantified as number of photons by avalanche photodiode (APD) which has the advantage of high sensitivity.A fresh all-fiber structure optical fiber probe based on SPDT is applied in the system to reduce the volume and fluctuation of traditional transmission-light measurement system,in which the all-fiber structure probe is used to delivery and collection of transmission light.On the basis of Beer-Lambert (B-L) transmission law,a test system has been established and carried out a series of experiments.By combining B-Llaw with the principle of SPDT,a novel model for detecting turbidity has been proposed to explain the experimental results.The results have shown a well exponential relationship over the range of 0.01-1NTU (Nephelometric Turbidity Units).It also has showna good linear relationship with a resolution as high as 0.01NTUin the range of 0.01-0.09 NTU.When it is 1 secondofthe sampling time,the mean error of measurement result can be controlled within 5% of full scale.In addition,the new detection structure proposed in this paper, which makes the system more compact and more suitable in the small special space.

  10. The need for a single cleaning standard for OEM and OSP fiber optic connections

    Science.gov (United States)

    Forrest, Edward J., Jr.; Blair, Paul

    2009-01-01

    Development of fiber optic communications networks has continued in virtually all geographies of the world. Some calculate that expansion in the USA alone will continue to 2025. After that time there will maintenance, upgrade, and replacement. While some nations are more advanced than others and some enterprises more sophisticated than others, the undeniable reality is that previous networks will, in some fashion or another, include fiber optics. The future need is for speed and reliable bandwidth: lots of it. Decisions will be made based on new concepts that will enable far more data at far faster rates than once considered feasible or necessary. As the consumer enters the market with newly engineered home entertainment systems, additional burdens will be placed on both OEM and OSP. These are not negative challenges, but rather indicators of a new generation of consumers with awareness and demand far more advanced any may have imagined just a few years ago.

  11. Statistical physics of nucleosome positioning and chromatin structure

    Science.gov (United States)

    Morozov, Alexandre

    2012-02-01

    Genomic DNA is packaged into chromatin in eukaryotic cells. The fundamental building block of chromatin is the nucleosome, a 147 bp-long DNA molecule wrapped around the surface of a histone octamer. Arrays of nucleosomes are positioned along DNA according to their sequence preferences and folded into higher-order chromatin fibers whose structure is poorly understood. We have developed a framework for predicting sequence-specific histone-DNA interactions and the effective two-body potential responsible for ordering nucleosomes into regular higher-order structures. Our approach is based on the analogy between nucleosomal arrays and a one-dimensional fluid of finite-size particles with nearest-neighbor interactions. We derive simple rules which allow us to predict nucleosome occupancy solely from the dinucleotide content of the underlying DNA sequences.Dinucleotide content determines the degree of stiffness of the DNA polymer and thus defines its ability to bend into the nucleosomal superhelix. As expected, the nucleosome positioning rules are universal for chromatin assembled in vitro on genomic DNA from baker's yeast and from the nematode worm C.elegans, where nucleosome placement follows intrinsic sequence preferences and steric exclusion. However, the positioning rules inferred from in vivo C.elegans chromatin are affected by global nucleosome depletion from chromosome arms relative to central domains, likely caused by the attachment of the chromosome arms to the nuclear membrane. Furthermore, intrinsic nucleosome positioning rules are overwritten in transcribed regions, indicating that chromatin organization is actively managed by the transcriptional and splicing machinery.

  12. EFFECT OF TURMERIC (CURCUMAE LONGAE TREATMENT ON MORPHOLOGY AND CHEMICAL PROPERTIES OF AKAA (CORYPHA SINGLE FIBER

    Directory of Open Access Journals (Sweden)

    ILYAS RENRENG

    2017-08-01

    Full Text Available The study is to determine the ingredients effect the turmeric (Curcumae longae treatment of Akaa (Corypha midrib fiber, toward the surface morphology and chemical properties. The material used was a natural fibers, soaking in water 1 hour, by heating a turmeric solution 1 hour (TT1, 2 hours and 3 hours. The heating of 86°C - 90°C at 1 atmosphere pressure, and dried of 28°C-32°C at 48 hours. The turmeric solution was turmeric powder 20% and water 80% in volume. The surface morphology and the roughness was tested by scanning electron microscope and the roughness test. The chemical properties by hidrolisis and the X-Ray diffraction test. The results, that changing of the fiber surface morphology and the roughness decrease after treatment. The TT1 treatment increases the cellulose 22% and reduced the lignin 42%, also the sharpest peak diffraction pattern which was indicated an increases on the crystal level.

  13. Study on microstructure of transition zone and its strong contrast of single T700 carbon fibers

    Energy Technology Data Exchange (ETDEWEB)

    Guo, Xinshuang; Zhang, Kexiang [Shenyang National Laboratory for Materials Science, Institute of Metal Research, Chinese Academy of Sciences, Shenyang 110016 (China); University of Chinese Academy of Sciences, Beijing 100049 (China); Fan, Zhen; Feng, Zhihai [National Key Laboratory of Advanced Functional Composite Materials, Aerospace Research Institute of Materials and Processing Technology, Beijing 100076 (China); He, LianLong, E-mail: llhe@imr.ac.cn [Shenyang National Laboratory for Materials Science, Institute of Metal Research, Chinese Academy of Sciences, Shenyang 110016 (China)

    2017-06-01

    Highlights: • The transition zone of T700 carbon fiber was first identified with higher density in addition to higher orientation. • The higher sample density still existed while the higher orientation disappeared after heat treatment at 2800 °C. • The strong contrast of the transition zone mainly results from its higher density. • The transition zone with higher density and orientation may exist not only in the T700 but other PAN-based carbon fibers. - Abstract: The transition zone (TZ) between the skin and core of Toray T700 carbon fiber was investigated by transmission electron microscopy. The higher basal-plane orientation was identified in the TZ compared with the skin and core, but it disappeared after heat treatment at 2800 °C. Plasmon peak energy in the TZ was higher than that in the skin and core about 0.7–0.8 eV, indicating the TZ with higher density. No element concentration existed in the TZ. The TZ with strong contrast manifests itself before and after heat treatment, and formation mechanism of its strong contrast was proposed.

  14. Micron-scale coherence in interphase chromatin dynamics.

    Science.gov (United States)

    Zidovska, Alexandra; Weitz, David A; Mitchison, Timothy J

    2013-09-24

    Chromatin structure and dynamics control all aspects of DNA biology yet are poorly understood, especially at large length scales. We developed an approach, displacement correlation spectroscopy based on time-resolved image correlation analysis, to map chromatin dynamics simultaneously across the whole nucleus in cultured human cells. This method revealed that chromatin movement was coherent across large regions (4-5 µm) for several seconds. Regions of coherent motion extended beyond the boundaries of single-chromosome territories, suggesting elastic coupling of motion over length scales much larger than those of genes. These large-scale, coupled motions were ATP dependent and unidirectional for several seconds, perhaps accounting for ATP-dependent directed movement of single genes. Perturbation of major nuclear ATPases such as DNA polymerase, RNA polymerase II, and topoisomerase II eliminated micron-scale coherence, while causing rapid, local movement to increase; i.e., local motions accelerated but became uncoupled from their neighbors. We observe similar trends in chromatin dynamics upon inducing a direct DNA damage; thus we hypothesize that this may be due to DNA damage responses that physically relax chromatin and block long-distance communication of forces.

  15. A novel single-nucleotide polymorphism in the 5' upstream region of the prolactin receptor gene is associated with fiber traits in Liaoning cashmere goats.

    Science.gov (United States)

    Zhou, J P; Zhu, X P; Zhang, W; Qin, F; Zhang, S W; Jia, Z H

    2011-10-13

    The most important traits of Chinese Liaoning cashmere goat fiber are fiber diameter, weight, and length. We looked for polymorphisms and their possible association with cashmere fiber traits in the 5' upstream region (5' UTR) of the prolactin receptor gene (PRLR), which encodes an anterior pituitary peptide hormone involved in different physiological activities; it is the principal endocrine regulator in pelage replacement in mammals. A novel single-nucleotide polymorphism (SNP) was found in the 5' UTR of PRLR by PCR-RFLP in an analysis of 590 goats. Two genotypes (CC and CT) were observed. The frequencies of allele C and T were 0.93 and 0.07, respectively. Association analysis revealed that the PRLR 5' UTR polymorphism (SNP5) was significantly associated with cashmere fiber weight and diameter. This novel SNP in hircine PRLR has potential as a molecular marker for cashmere fiber weight and diameter in Liaoning cashmere goats.

  16. Three-dimensional oriented attachment growth of single-crystal pre-perovskite PbTiO3 hollowed fibers

    KAUST Repository

    Zhao, Ruoyu

    2017-12-11

    Hollowed single-crystal pre-perovskite PbTiO fibers (PP-PTF) were successfully synthesized via a polyvinyl alcohol (PVA) assisted hydrothermal process. The as-prepared PP-PTF were characterized to be 0.3-1 μm in diameter and tens of micrometers in length by adjusting the concentration of PVA to 0.8 g L. Microstructure characterization of the samples at different reaction times revealed that PP-PTF were formed via a three-dimensional (3D) hierarchical oriented attachment (OA) growth process. The initial growth units were determined to be single-crystal pre-perovskite PbTiO fibers with a diameter of 10-20 nm. Zeta potential measurement suggested that the main driving force of the OA process is the surface electrostatic force, which is induced by the incompletely bonded Pb and O atomic layers on the surface of the {110} plane. Moreover, molecular dynamics simulations have been employed to reveal a stable configuration of the initial pre-perovskite PbTiO growth units, agreeing well with the experimental results.

  17. Electro-opto-mechanical radio-frequency oscillator driven by guided acoustic waves in standard single-mode fiber

    Directory of Open Access Journals (Sweden)

    Yosef London

    2017-04-01

    Full Text Available An opto-electronic radio-frequency oscillator that is based on forward scattering by the guided acoustic modes of a standard single-mode optical fiber is proposed and demonstrated. An optical pump wave is used to stimulate narrowband, resonant guided acoustic modes, which introduce phase modulation to a co-propagating optical probe wave. The phase modulation is converted to an intensity signal at the output of a Sagnac interferometer loop. The intensity waveform is detected, amplified, and driven back to modulate the optical pump. Oscillations are achieved at a frequency of 319 MHz, which matches the resonance of the acoustic mode that provides the largest phase modulation of the probe wave. Oscillations at the frequencies of competing acoustic modes are suppressed by at least 40 dB. The linewidth of the acoustic resonance is sufficiently narrow to provide oscillations at a single longitudinal mode of the hybrid cavity. Competing longitudinal modes are suppressed by at least 38 dB as well. Unlike other opto-electronic oscillators, no radio-frequency filtering is required within the hybrid cavity. The frequency of oscillations is entirely determined by the fiber opto-mechanics.

  18. Chromatin challenges during DNA replication and repair

    DEFF Research Database (Denmark)

    Groth, Anja; Rocha, Walter; Verreault, Alain

    2007-01-01

    Inheritance and maintenance of the DNA sequence and its organization into chromatin are central for eukaryotic life. To orchestrate DNA-replication and -repair processes in the context of chromatin is a challenge, both in terms of accessibility and maintenance of chromatin organization. To meet...... the challenge of maintenance, cells have evolved efficient nucleosome-assembly pathways and chromatin-maturation mechanisms that reproduce chromatin organization in the wake of DNA replication and repair. The aim of this Review is to describe how these pathways operate and to highlight how the epigenetic...... landscape may be stably maintained even in the face of dramatic changes in chromatin structure....

  19. Equatorial x-ray diffraction from single skinned rabbit psoas fibers at various degrees of activation. Changes in intensities and lattice spacing.

    OpenAIRE

    Brenner, B; Yu, L C

    1985-01-01

    Equatorial x-ray diffraction patterns were obtained from single skinned rabbit psoas fibers during various degrees of activation under isometric conditions at ionic strength 170 mM and 6-9 degrees C. By direct calcium activation, contraction was homogeneous throughout the preparation, and by using a cycling technique (Brenner, 1983) integrity of the fiber was maintained even during prolonged steady activation. The intensity ratio of the two innermost reflections I11/I10, and the normalized in...

  20. Simultaneous Strain and Temperature Measurement Using a Single Fiber Bragg Grating Coated with a Thermochromic Material

    Science.gov (United States)

    2017-03-27

    strain and temperature measurements. Thermal-mechanical tests were conducted to validate this principle and a data analysis algorithm was developed to...loadings inside a temperature-controllable incubator , as shown in figure 1.4. The optical fiber was hung vertically by gluing its top portion on a...flat plate, which is 15.6 gm. Under each weight, the temperature of the incubator was heated from 30 to 60°C in an increment of 5°C. The reflectance

  1. Study on microstructure of transition zone and its strong contrast of single T700 carbon fibers

    Science.gov (United States)

    Guo, Xinshuang; Zhang, Kexiang; Fan, Zhen; Feng, Zhihai; He, LianLong

    2017-06-01

    The transition zone (TZ) between the skin and core of Toray T700 carbon fiber was investigated by transmission electron microscopy. The higher basal-plane orientation was identified in the TZ compared with the skin and core, but it disappeared after heat treatment at 2800 °C. Plasmon peak energy in the TZ was higher than that in the skin and core about 0.7-0.8 eV, indicating the TZ with higher density. No element concentration existed in the TZ. The TZ with strong contrast manifests itself before and after heat treatment, and formation mechanism of its strong contrast was proposed.

  2. Frequency Noise Suppression of a Single Mode Laser with an Unbalanced Fiber Interferometer for Subnanometer Interferometry

    Czech Academy of Sciences Publication Activity Database

    Šmíd, Radek; Čížek, Martin; Mikel, Břetislav; Číp, Ondřej

    2015-01-01

    Roč. 15, č. 1 (2015), s. 1342-1355 ISSN 1424-8220 R&D Projects: GA ČR(CZ) GPP102/12/P962; GA ČR GAP102/10/1813; GA TA ČR TA01010995; GA MŠk(CZ) LO1212; GA MŠk ED0017/01/01 Institutional support: RVO:68081731 Keywords : unbalanced interferometer * fiber spool * PI control * frequency noise Subject RIV: BH - Optics, Masers, Lasers Impact factor: 2.033, year: 2015

  3. High-density multicore fibers

    DEFF Research Database (Denmark)

    Takenaga, K.; Matsuo, S.; Saitoh, K.

    2016-01-01

    High-density single-mode multicore fibers were designed and fabricated. A heterogeneous 30-core fiber realized a low crosstalk of −55 dB. A quasi-single-mode homogeneous 31-core fiber attained the highest core count as a single-mode multicore fiber.......High-density single-mode multicore fibers were designed and fabricated. A heterogeneous 30-core fiber realized a low crosstalk of −55 dB. A quasi-single-mode homogeneous 31-core fiber attained the highest core count as a single-mode multicore fiber....

  4. Interaction of maize chromatin-associated HMG proteins with mononucleosomes

    DEFF Research Database (Denmark)

    Lichota, J.; Grasser, Klaus D.

    2003-01-01

    Two groups of plant chromatin-associated high mobility group (HMG) proteins, namely the HMGA family, typically containing four A/T-hook DNA-binding motifs, and the HMGB family, containing a single HMG-box DNA-binding domain, have been identified. We have examined the interaction of recombinant...

  5. Chromatin remodeling in mammalian embryos.

    Science.gov (United States)

    Cabot, Birgit; Cabot, Ryan A

    2018-03-01

    The mammalian embryo undergoes a dramatic amount of epigenetic remodeling during the first week of development. In this review, we discuss several epigenetic changes that happen over the course of cleavage development, focusing on covalent marks (e.g., histone methylation and acetylation) and non-covalent remodeling (chromatin remodeling via remodeling complexes; e.g., SWI/SNF-mediated chromatin remodeling). Comparisons are also drawn between remodeling events that occur in embryos from a variety of mammalian species. © 2018 Society for Reproduction and Fertility.

  6. Global Quantitative Modeling of Chromatin Factor Interactions

    Science.gov (United States)

    Zhou, Jian; Troyanskaya, Olga G.

    2014-01-01

    Chromatin is the driver of gene regulation, yet understanding the molecular interactions underlying chromatin factor combinatorial patterns (or the “chromatin codes”) remains a fundamental challenge in chromatin biology. Here we developed a global modeling framework that leverages chromatin profiling data to produce a systems-level view of the macromolecular complex of chromatin. Our model ultilizes maximum entropy modeling with regularization-based structure learning to statistically dissect dependencies between chromatin factors and produce an accurate probability distribution of chromatin code. Our unsupervised quantitative model, trained on genome-wide chromatin profiles of 73 histone marks and chromatin proteins from modENCODE, enabled making various data-driven inferences about chromatin profiles and interactions. We provided a highly accurate predictor of chromatin factor pairwise interactions validated by known experimental evidence, and for the first time enabled higher-order interaction prediction. Our predictions can thus help guide future experimental studies. The model can also serve as an inference engine for predicting unknown chromatin profiles — we demonstrated that with this approach we can leverage data from well-characterized cell types to help understand less-studied cell type or conditions. PMID:24675896

  7. Delineating Rearrangements in Single Yeast Artificial Chromosomes by Quantitative DNA Fiber Mapping

    Energy Technology Data Exchange (ETDEWEB)

    Weier, Heinz-Ulrich G.; Greulich-Bode, Karin M.; Wu, Jenny; Duell, Thomas

    2009-09-18

    Cloning of large chunks of human genomic DNA in recombinant systems such as yeast or bacterial artificial chromosomes has greatly facilitated the construction of physical maps, the positional cloning of disease genes or the preparation of patient-specific DNA probes for diagnostic purposes. For this process to work efficiently, the DNA cloning process and subsequent clone propagation need to maintain stable inserts that are neither deleted nor otherwise rearranged. Some regions of the human genome; however, appear to have a higher propensity than others to rearrange in any host system. Thus, techniques to detect and accurately characterize such rearrangements need to be developed. We developed a technique termed 'Quantitative DNA Fiber Mapping (QDFM)' that allows accurate tagging of sequence elements of interest with near kilobase accuracy and optimized it for delineation of rearrangements in recombinant DNA clones. This paper demonstrates the power of this microscopic approach by investigating YAC rearrangements. In our examples, high-resolution physical maps for regions within the immunoglobulin lambda variant gene cluster were constructed for three different YAC clones carrying deletions of 95 kb and more. Rearrangements within YACs could be demonstrated unambiguously by pairwise mapping of cosmids along YAC DNA molecules. When coverage by YAC clones was not available, distances between cosmid clones were estimated by hybridization of cosmids onto DNA fibers prepared from human genomic DNA. In addition, the QDFM technology provides essential information about clone stability facilitating closure of the maps of the human genome as well as those of model organisms.

  8. A Long-Distance Chromatin Affair

    NARCIS (Netherlands)

    Denker, Annette; de Laat, Wouter

    2015-01-01

    Changes in transcription factor binding sequences result in correlated changes in chromatin composition locally and at sites hundreds of kilobases away. New studies demonstrate that this concordance is mediated via spatial chromatin interactions that constitute regulatory modules of the human

  9. Guarding against Collateral Damage during Chromatin Transactions

    DEFF Research Database (Denmark)

    Altmeyer, Matthias; Lukas, Jiri

    2013-01-01

    Signal amplifications are vital for chromatin function, yet they also bear the risk of transforming into unrestrained, self-escalating, and potentially harmful responses. Examples of inbuilt limitations are emerging, revealing how chromatin transactions are confined within physiological boundaries....

  10. Nanodosimetric Simulation of Direct Ion-Induced DNA Damage Using Different Chromatin Geometry Models.

    Science.gov (United States)

    Henthorn, N T; Warmenhoven, J W; Sotiropoulos, M; Mackay, R I; Kirkby, K J; Merchant, M J

    2017-12-01

    Monte Carlo based simulation has proven useful in investigating the effect of proton-induced DNA damage and the processes through which this damage occurs. Clustering of ionizations within a small volume can be related to DNA damage through the principles of nanodosimetry. For simulation, it is standard to construct a small volume of water and determine spatial clusters. More recently, realistic DNA geometries have been used, tracking energy depositions within DNA backbone volumes. Traditionally a chromatin fiber is built within the simulation and identically replicated throughout a cell nucleus, representing the cell in interphase. However, the in vivo geometry of the chromatin fiber is still unknown within the literature, with many proposed models. In this work, the Geant4-DNA toolkit was used to build three chromatin models: the solenoid, zig-zag and cross-linked geometries. All fibers were built to the same chromatin density of 4.2 nucleosomes/11 nm. The fibers were then irradiated with protons (LET 5-80 keV/μm) or alpha particles (LET 63-226 keV/μm). Nanodosimetric parameters were scored for each fiber after each LET and used as a comparator among the models. Statistically significant differences were observed in the double-strand break backbone size distributions among the models, although nonsignificant differences were noted among the nanodosimetric parameters. From the data presented in this article, we conclude that selection of the solenoid, zig-zag or cross-linked chromatin model does not significantly affect the calculated nanodosimetric parameters. This allows for a simulation-based cell model to make use of any of these chromatin models for the scoring of direct ion-induced DNA damage.

  11. Design of single mode spiral photonic crystal fiber for gas sensing applications

    Directory of Open Access Journals (Sweden)

    Md. Ibadul Islam

    2017-04-01

    Full Text Available In this paper, a spiral shape photonic crystal fiber (S-PCF has been suggested as a gas sensor for detecting toxic or colorless gases as well as monitoring the air pollution by metering gas condensate elements in production facilities. Our reported S-PCF is micro-structured where two layers porous core is encircled by a spiral shape cladding. The geometrical parameters have altered to optimize the parameters of the proposed structure. The numerical analysis of the proposed S-PCF is performed by utilizing finite element method (FEM. The relative sensitivity and birefringence of the proposed S-PCF are 55.10% and 7.23 × 10−3 respectively at the 1.33 μm wavelength that lies in the absorption line of toxic gases (methane and hydrogen fluoride. Besides, effective area, nonlinear coefficient and V parameters are also described briefly.

  12. Signal Processing using Nonlinear Optical Eects in Single- and Few-Mode Fibers

    DEFF Research Database (Denmark)

    Friis, Søren Michael Mørk

    The stagnating increase in data transmission capacity in optical communication systems combined with the ever growing demand of transmission bandwidth is leading to an impending capacity crunch, referring to the point in time after which the available bandwidth of the individual user starts...... accounts for multiple effects present in nonlinear fibers such as four-wave mixing, Raman scattering, distributed loss, and dispersion, and it is valid in the depleted pump regime. After validating the model against well-known results of quantum models, the model is used to predict the impacts of Raman...... noise, loss, and pump depletion on the noise properties of parametric frequency conversion and phase-insensitive and phase-sensitive parametric amplification. An important part of realizing space-division multiplexing is the ability of optical signal processing so the second part of this thesis...

  13. Esthetic rehabilitation of single anterior edentulous space using fiber-reinforced composite

    Directory of Open Access Journals (Sweden)

    Hyeon Kim

    2014-08-01

    Full Text Available A fiber-reinforced composite (FRC fixed prosthesis is an innovative alternative to a traditional metal restoration, as it is a conservative treatment method. This case report demonstrates a detailed procedure for restoring a missing anterior tooth with an FRC. A 44-year-old woman visited our department with an avulsed tooth that had fallen out on the previous day and was completely dry. This tooth was replanted, but it failed after one year. A semi-direct technique was used to fabricate a FRC fixed partial prosthesis for its replacement. The FRC framework and the pontic were fabricated using a duplicated cast model and nanofilled composite resin. Later on, interproximal contact, tooth shape, and shade were adjusted at chairside. This technique not only enables the clinician to replace a missing tooth immediately after extraction for minimizing esthetic problems, but it also decreases both tooth reduction and cost.

  14. The steady SRS analysis theory of DWDM transmission system in single-mode silica fiber

    Science.gov (United States)

    Gong, Jia-Min; Zuo, Xu; Zhao, Yun

    2015-09-01

    The formal solution for the couple equations of the stimulated Raman scattering (SRS) with different loss coefficients in the DWDM transmission system was discussed. The variation of each signal photon flux along the transmission distance is shown clearly by the formal solution. Then, the analytical solution is obtained from the formal solution when the loss coefficient is the same. Simultaneously, the analytical solution of the small-signal model is derived, too. We also proposed a novel algorithm according to the formal solution, and verified its correctness by showing that the curves for them are basically in coincidence. The result has a certain significance for study on DWDM transmission system and Raman fiber amplifier.

  15. A Space-Qualified Single Frequency Fiber Laser for LISA Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Single frequency high power lasers have been considered to be an enabling technology for NASA's Laser Interferometer Space Antenna (LISA). PolarOnyx proposes, for...

  16. High Power Compact Single-Frequency Volume Bragg Er-Doped Fiber Laser, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — The purpose of this NASA SBIR Phase I proposal is to develop the prototype of a compact single-frequency mode one longitudinal and one transverse mode laser...

  17. Modeling satellite-Earth quantum channel downlinks with adaptive-optics coupling to single-mode fibers

    Science.gov (United States)

    Gruneisen, Mark T.; Flanagan, Michael B.; Sickmiller, Brett A.

    2017-12-01

    The efficient coupling of photons from a free-space quantum channel into a single-mode optical fiber (SMF) has important implications for quantum network concepts involving SMF interfaces to quantum detectors, atomic systems, integrated photonics, and direct coupling to a fiber network. Propagation through atmospheric turbulence, however, leads to wavefront errors that degrade mode matching with SMFs. In a free-space quantum channel, this leads to photon losses in proportion to the severity of the aberration. This is particularly problematic for satellite-Earth quantum channels, where atmospheric turbulence can lead to significant wavefront errors. This report considers propagation from low-Earth orbit to a terrestrial ground station and evaluates the efficiency with which photons couple either through a circular field stop or into an SMF situated in the focal plane of the optical receiver. The effects of atmospheric turbulence on the quantum channel are calculated numerically and quantified through the quantum bit error rate and secure key generation rates in a decoy-state BB84 protocol. Numerical simulations include the statistical nature of Kolmogorov turbulence, sky radiance, and an adaptive-optics system under closed-loop control.

  18. Research on the speed of light transmission in a dual-frequency laser pumped single fiber with two directions

    Science.gov (United States)

    Qiu, Wei; Liu, Jianjun; Wang, Yuda; Yang, Yujing; Gao, Yuan; Lv, Pin; Jiang, Qiuli

    2018-01-01

    In this article a general theory of the coherent population oscillation effect in an erbium-doped fiber at room temperature is presented. We use dual pumping light waves with a simplified two-level system. Thus the time delay equations can be calculated from rate equations and the transmission equation. Using numerical simulation, in the case of dual-frequency pump light waves (1480 nm and 980 nm) with two directions, we analyze the influence of the pump power ratio on the group speed of light propagation. In addition, we compare slow light propagation with a single-pumping light and slow light propagation with a dual-pumping light at room temperature. The discussion shows that a larger time delay of slow light propagation can be obtained with a dual-frequency pumping laser. Compared to previous research methods, a dual-frequency laser pumped fiber with two directions is more controllable. Moreover, we conclude that the group velocity of light can be varied by changing the pump ratio.

  19. Relationship of Physical Function to Single Muscle Fiber Contractility in Older Adults: Effects of Resistance Training with and without Caloric Restriction.

    Science.gov (United States)

    Wang, Zhong-Min; Leng, Xiaoyan; Messi, María Laura; Choi, Seung J; Marsh, Anthony P; Nicklas, Barbara; Delbono, Osvaldo

    2018-03-13

    Previous studies support beneficial effects of both resistance exercise training (RT) and caloric restriction (CR) on skeletal muscle strength and physical performance. The goal of this study was to determine the effects of adding CR to RT on single-muscle fiber contractility responses to RT in older overweight and obese adults. We analyzed contractile properties in 1,253 single myofiber from muscle biopsies of the vastus lateralis, as well as physical performance and thigh muscle volume, in 31 older (65-80 yrs), overweight or obese (body mass index= 27-35 kg/m2) men (n=19) and women (n=12) who were randomly assigned to a standardized, progressive RT intervention with CR (RT+CR; n=15) or without CR (RT; n=16) for 5 months. Both interventions evoked an increase in force normalized to CSA, in type-I and type-II fibers and knee extensor quality. However, these improvements were not different between intervention groups. In the RT group, changes in total thigh fat volume inversely correlated with changes in type-II fiber force (r = -0.691; p=0.019). Within the RT+CR group, changes in gait speed correlated positively with changes in type-I fiber CSA (r=0.561; p=0.030). In addition, increases in type-I normalized fiber force were related to decreases in thigh intermuscular fat volume (r= -0.539; p= 0.038). Single muscle fiber force and knee extensor quality improve with RT and RT+CR; however, CR does not enhance improvements in single muscle fiber contractility or whole muscle in response to RT in older overweight and obese men and women.

  20. Transcription Through Chromatin - Dynamic Organization of Genes

    Indian Academy of Sciences (India)

    In this article, we discuss the dynamic organization of eukaryotic genes into chromatin. Remodeling of chromatin confers it the ability for dynamic change. Remodeling is essential for transcriptional regulation, the first step of gene expression. Chromatin Structure and Gene Expression. Transcription is the first step of gene ...

  1. Chd1 remodelers maintain open chromatin and regulate the epigenetics of differentiation

    Energy Technology Data Exchange (ETDEWEB)

    Persson, Jenna [Department of Biosciences and Nutrition, Center for Biosciences, Karolinska Institutet (Sweden); Ekwall, Karl, E-mail: karl.ekwall@ki.se [Department of Biosciences and Nutrition, Center for Biosciences, Karolinska Institutet (Sweden); School of Life Sciences, University College Sodertorn, NOVUM, Huddinge (Sweden)

    2010-05-01

    Eukaryotic DNA is packaged around octamers of histone proteins into nucleosomes, the basic unit of chromatin. In addition to enabling meters of DNA to fit within the confines of a nucleus, the structure of chromatin has functional implications for cell identity. Covalent chemical modifications to the DNA and to histones, histone variants, ATP-dependent chromatin remodelers, small noncoding RNAs and the level of chromatin compaction all contribute to chromosomal structure and to the activity or silencing of genes. These chromatin-level alterations are defined as epigenetic when they are heritable from mother to daughter cell. The great diversity of epigenomes that can arise from a single genome permits a single, totipotent cell to generate the hundreds of distinct cell types found in humans. Two recent studies in mouse and in fly have highlighted the importance of Chd1 chromatin remodelers for maintaining an open, active chromatin state. Based on evidence from fission yeast as a model system, we speculate that Chd1 remodelers are involved in the disassembly of nucleosomes at promoter regions, thus promoting active transcription and open chromatin. It is likely that these nucleosomes are specifically marked for disassembly by the histone variant H2A.Z.

  2. Optical frequency comb generation for DWDM transmission over 25- to 50-km standard single-mode fiber

    Science.gov (United States)

    Ullah, Rahat; Bo, Liu; Yaya, Mao; Ullah, Sibghat; Khan, Muhammad Saad; Tian, Feng; Ali, Amjad; Ahmad, Ibrar; Xiangjun, Xin

    2018-01-01

    Dense wavelength division multiplexed (DWDM) transmission equal to 1.2 Tbps over 25 to 50 km across standard single-mode fiber (SSMF) in the C band is performed based on an optical frequency comb generator. Sixty-one flattened optical frequency tones were realized with 30-GHz frequency spacing, high side-mode suppression ratio over 35 dB, and minimum amplitude difference was realized using amplitude modulator for first time in cascade mode with two Mach-Zehnder modulators (MZMs) where all the modulators were tailored by RF signals. 20×61 Gbps DWDM-based differential quadrature phase shift keying modulated signals were successfully transmitted over SSMF and analyze its transmission capability for range of 25 to 50 km with acceptable power penalties and bit error rates.

  3. Fabrication, characterization and electrochemical performance of single strand carbon fiber prepared by catalytic chemical vapor decomposition method

    Energy Technology Data Exchange (ETDEWEB)

    Joshi, Vrushali S. [Department of Chemistry, University of Pune, Ganeshkhind, Pune 411007, Maharashtra (India); Gokhale, Suresh P.; Patil, Kashinath R. [Physical and Material Chemistry Division, National Chemical Laboratory, Pune (India); Haram, Santosh K., E-mail: haram@chem.unipune.ernet.i [Department of Chemistry, University of Pune, Ganeshkhind, Pune 411007, Maharashtra (India)

    2010-02-15

    Preparation, fabrication and voltammetric characterizations of a single strand of carbon fiber (SSCF) electrode and their potential applications for biosensor are presented. SSCFs of diameter ca. 10 +- 2 mum and few millimeters in length are prepared by catalytic chemical vapor decomposition (CCVD) method. Voltammetry with potassium ferricyanide, alpha-methylferrocene methanol and hexaammineruthenium(III) chloride on SSCF electrode are used as bench marks to validate the electrode properties. Quasi-steady state voltammograms obtained were fitted into a cylindrical diffusion model. From which, the standard rate constant (k{sup 0}) and electron transfer coefficient (alpha) are obtained. The use of SSCF electrode is demonstrated for the voltammetric detection of the micromolar quantity of dopamine in the presence of large excess (ca. 200 times) of ascorbic acid, without any fouling of electrode surface. The kinetics of electron transfer are investigated.

  4. Fabrication, characterization and electrochemical performance of single strand carbon fiber prepared by catalytic chemical vapor decomposition method

    International Nuclear Information System (INIS)

    Joshi, Vrushali S.; Gokhale, Suresh P.; Patil, Kashinath R.; Haram, Santosh K.

    2010-01-01

    Preparation, fabrication and voltammetric characterizations of a single strand of carbon fiber (SSCF) electrode and their potential applications for biosensor are presented. SSCFs of diameter ca. 10 ± 2 μm and few millimeters in length are prepared by catalytic chemical vapor decomposition (CCVD) method. Voltammetry with potassium ferricyanide, α-methylferrocene methanol and hexaammineruthenium(III) chloride on SSCF electrode are used as bench marks to validate the electrode properties. Quasi-steady state voltammograms obtained were fitted into a cylindrical diffusion model. From which, the standard rate constant (k 0 ) and electron transfer coefficient (α) are obtained. The use of SSCF electrode is demonstrated for the voltammetric detection of the micromolar quantity of dopamine in the presence of large excess (ca. 200 times) of ascorbic acid, without any fouling of electrode surface. The kinetics of electron transfer are investigated.

  5. Statistical properties of single-mode fiber coupling of satellite-to-ground laser links partially corrected by adaptive optics.

    Science.gov (United States)

    Canuet, Lucien; Védrenne, Nicolas; Conan, Jean-Marc; Petit, Cyril; Artaud, Geraldine; Rissons, Angelique; Lacan, Jerome

    2018-01-01

    In the framework of satellite-to-ground laser downlinks, an analytical model describing the variations of the instantaneous coupled flux into a single-mode fiber after correction of the incoming wavefront by partial adaptive optics (AO) is presented. Expressions for the probability density function and the cumulative distribution function as well as for the average fading duration and fading duration distribution of the corrected coupled flux are given. These results are of prime interest for the computation of metrics related to coded transmissions over correlated channels, and they are confronted by end-to-end wave-optics simulations in the case of a geosynchronous satellite (GEO)-to-ground and a low earth orbit satellite (LEO)-to-ground scenario. Eventually, the impact of different AO performances on the aforementioned fading duration distribution is analytically investigated for both scenarios.

  6. Simultaneous measurement of temperature and pressure by a single fiber Bragg grating with a broadened reflection spectrum.

    Science.gov (United States)

    Guo, Tuan; Qiao, Xueguang; Jia, Zhenan; Zhao, Qida; Dong, Xiaoyi

    2006-05-01

    Simultaneous measurement of temperature and pressure with a single fiber Bragg grating (FBG) based on a broadened reflection spectrum is proposed and experimentally demonstrated. A novel double-hole structure of a cantilever beam is designed, and a FBG is affixed on the nonuniform strain area of the cantilever beam. The Bragg reflection bandwidth is sensitive to the spatially gradient strain but is free from the spatially uniform temperature. The wavelength peak shift and the bandwidth broadening of the FBG with a change of temperature and pressure allow for simultaneous discrimination between the temperature and the pressure effects. Standard deviation errors of 1.4 degrees C and 1.8 kPa were obtained with temperature and pressure ranges of 20 degrees C-100 degrees C and 0-80 kPa, respectively. This novel and low-cost sensor approach has considerable potential applications for temperature-insensitive strain measurement.

  7. WDM-Coherent OCDMA over one single device based on short chip Super Structured Fiber Bragg Gratings.

    Science.gov (United States)

    Amaya, Waldimar; Pastor, Daniel; Baños, Rocio; Garcia-Munoz, Victor

    2011-11-21

    We theoretically propose and demonstrate experimentally a Coherent Direct Sequence OCDMA en/decoder for multi-channel WDM operation based on a single device. It presents a broadband spectral envelope and a periodic spectral pattern that can be employed for en/decoding multiple sub-bands simultaneously. Multi-channel operation is verified experimentally by means of Multi-Band Super Structured Fiber Bragg Gratings with binary phase encoded chips fabricated with 1mm inter-chip separation that provides 4x100 GHz ITU sub-band separation at 1.25 Gbps. The WDM-OCDMA system verification was carried out employing simultaneous encoding of four adjacent sub-bands and two different OCDMA codes. © 2011 Optical Society of America

  8. Efficient fiber-coupled single-photon sources based on quantum dots

    DEFF Research Database (Denmark)

    Daveau, Raphaël Sura

    This thesis presents the study of solid-state quantum emitters in two dierent forms. The rst part of the thesis deals with quantum dot based single-photon sources with an emphasis on ecient photon extraction into an optical ber. The second part of the thesis covers a theoretical study of optical...... refrigeration with coupled quantum wells. Many photonic quantum information processing applications would benet from a highbrightness, ber-coupled source of triggered single photons. This thesis presents a study of such sources based on quantum dots coupled to unidirectional photonic-crystal waveguide devices...... the characterization of single quantum dots. The second method, evanescent coupling from a tapered waveguide to a microber, demonstrates a chip-to-ber coupling eciency exceeding 80 % in passive re- ection measurements. The characterization of quantum dots from this device establishes a ber-coupled source eciency of 15...

  9. Semi-guiding high-aspect-ratio core (SHARC) fiber providing single-mode operation and an ultra-large core area in a compact coilable package

    Science.gov (United States)

    Rockwell, David A.; Shkunov, Vladimir V.; Marciante, John R.

    2011-07-01

    A new class of optical fiber is presented that departs from the circular-core symmetry common to conventional fibers. By using a high-aspect-ratio (~30:1) rectangular core, the mode area can be significantly expanded well beyond 10,000 μm2. Moreover, by also specifying a very small refractive-index step at the narrow core edges, the core becomes ``semi-guiding,'' i.e. it guides in the narrow dimension and is effectively un-guiding in the wide mm-scale dimension. The mode dependence of the resulting Fresnel leakage loss in the wide dimension strongly favors the fundamental mode, promoting single-mode operation. Since the modal loss ratios are independent of mode area, this core structure offers nearly unlimited scalability. The implications of using such a fiber in fiber laser and amplifier systems are also discussed.

  10. Stable and High OSNR Compound Linear-Cavity Single-Longitudinal-Mode Erbium-Doped Silica Fiber Laser Based on an Asymmetric Four-Cavity Structure

    International Nuclear Information System (INIS)

    Feng Ting; Yan Feng-Ping; Li Qi; Peng Wan-Jing; Feng Su-Chun; Wen Xiao-Dong; Tan Si-Yu; Liu Peng

    2012-01-01

    We propose a stable and high optical signal-to-noise ratio (OSNR) compound linear-cavity single-longitudinal-mode (SLM) erbium-doped silica fiber laser. It consists of three uniform fiber Bragg gratings (FBGs) and two fiber couplers to form a simple asymmetric four-cavity structure to select the longitudinal mode. The stable SLM operation at the wavelength of 1544.053 nm with a 3 dB bandwidth of 0.014 nm and an OSNR of ∼60 dB was verified experimentally. Under laboratory conditions, a power fluctuation performance of less than 0.05 dB for 5 h and wavelength variation of less than 0.01 nm for about 150 min is demonstrated. Finally, the characteristic of laser output power as a function of pump power is investigated. The proposed system provides a simple and cost-effective approach to realize a stable SLM fiber laser

  11. Tunable and switchable dual-wavelength single polarization narrow linewidth SLM erbium-doped fiber laser based on a PM-CMFBG filter.

    Science.gov (United States)

    Yin, Bin; Feng, Suchun; Liu, Zhibo; Bai, Yunlong; Jian, Shuisheng

    2014-09-22

    A tunable and switchable dual-wavelength single polarization narrow linewidth single-longitudinal-mode (SLM) erbium-doped fiber (EDF) ring laser based on polarization-maintaining chirped moiré fiber Bragg grating (PM-CMFBG) filter is proposed and demonstrated. For the first time as we know, the CMFBG inscribed on the PM fiber is applied for the wavelength-tunable and-switchable dual-wavelength laser. The PM-CMFBG filter with ultra-narrow transmission band (0.1 pm) and a uniform polarization-maintaining fiber Bragg grating (PM-FBG) are used to select the laser longitudinal mode. The stable single polarization SLM operation is guaranteed by the PM-CMFBG filter and polarization controller. A tuning range of about 0.25 nm with about 0.075 nm step is achieved by stretching the uniform PM-FBG. Meanwhile, the linewidth of the fiber laser for each wavelength is approximate 6.5 and 7.1 kHz with a 20 dB linewidth, which indicates the laser linewidth is approximate 325 Hz and 355 Hz FWHM.

  12. Effect of twist on single-mode fiber-optic 3 × 3 couplers

    Science.gov (United States)

    Chen, Dandan; Ji, Minning; Peng, Lei

    2018-01-01

    In the fabricating process of a 3 × 3 fused tapered coupler, the three fibers are usually twisted to be close-contact. The effect of twist on 3 × 3 fused tapered couplers is investigated in this paper. It is found that though a linear 3 × 3 coupler may realize equal power splitting ratio theoretically by twisting a special angle, it is hard to be fabricated actually because the twist angle and the coupler's length must be determined in advance. While an equilateral 3 × 3 coupler can not only realize approximate equal power splitting ratio theoretically but can also be fabricated just by controlling the elongation length. The effect of twist on the equilateral 3 × 3 coupler lies in the relationship between the equal ratio error and the twist angle. The more the twist angle is, the larger the equal ratio error may be. The twist angle usually should be no larger than 90° on one coupling period length in order to keep the equal ratio error small enough. The simulation results agree well with the experimental data.

  13. A simple optical fiber device for quantitative fluorescence microscopy of single living cells

    NARCIS (Netherlands)

    van Graft, M.; van Graft, Marja; Oosterhuis, B.; Oosterhuis, Bernard; van der Werf, Kees; de Grooth, B.G.; Greve, Jan

    1993-01-01

    simple and relatively inexpensive system is described for obtaining quantitative fluorescence measurements on single living cells loaded with a fluorescent probe to study cell physiological processes. The light emitted from the fluorescent cells is captured by and transported through an optical

  14. Intrinsic pressure response of a single mode cyclo olefin polymer fiber bragg grating

    DEFF Research Database (Denmark)

    Pedersen, Jens Kristian Mølgaard; Woyessa, Getinet; Nielsen, Kristian

    2016-01-01

    The intrinsic pressure response of a Fibre Bragg Grating (FBG) inscribed in a single-mode cyclo olefin polymer (COP) microstructured polymer optical fibre (mPOF) in the range 0-200 bar is investigated for the first time. In order to efficiently suppress the effects from changes in temperature...

  15. Bromodomain proteins: repairing DNA damage within chromatin.

    Science.gov (United States)

    Chiu, Li-Ya; Gong, Fade; Miller, Kyle M

    2017-10-05

    Genome surveillance and repair, termed the DNA damage response (DDR), functions within chromatin. Chromatin-based DDR mechanisms sustain genome and epigenome integrity, defects that can disrupt cellular homeostasis and contribute to human diseases. An important chromatin DDR pathway is acetylation signalling which is controlled by histone acetyltransferase (HAT) and histone deacetylase (HDAC) enzymes, which regulate acetylated lysines within proteins. Acetylated proteins, including histones, can modulate chromatin structure and provide molecular signals that are bound by acetyl-lysine binders, including bromodomain (BRD) proteins. Acetylation signalling regulates several DDR pathways, as exemplified by the preponderance of HATs, HDACs and BRD proteins that localize at DNA breaks to modify chromatin for lesion repair. Here, we explore the involvement of acetylation signalling in the DDR, focusing on the involvement of BRD proteins in promoting chromatin remodelling to repair DNA double-strand breaks. BRD proteins have widespread DDR functions including chromatin remodelling, chromatin modification and transcriptional regulation. We discuss mechanistically how BRD proteins read acetylation signals within chromatin to trigger DDR and chromatin activities to facilitate genome-epigenome maintenance. Thus, DDR pathways involving BRD proteins represent key participants in pathways that preserve genome-epigenome integrity to safeguard normal genome and cellular functions.This article is part of the themed issue 'Chromatin modifiers and remodellers in DNA repair and signalling'. © 2017 The Author(s).

  16. Dynamics of Nonlinear Excitation of the High-Order Mode in a Single-Mode Step-Index Optical Fiber

    Science.gov (United States)

    Burdin, V.; Bourdine, A.

    2018-04-01

    This work is concerned with approximate model of higher-order mode nonlinear excitation in a singlemode silica optical fiber. We present some results of simulation for step-index optical fiber under femtosecond optical pulse launching, which confirm ability of relatively stable higher-order mode excitation in such singlemode optical fiber over sufficiently narrow range of launched optical power variation.

  17. Low-temperature evaporative glass scoring using a single-mode ytterbium fiber laser

    Science.gov (United States)

    Tu, J. F.; Riley, P. E. B.

    2013-06-01

    Glass cutting is increasingly important in industry to cut glass into various sizes for high definition televisions, cell phones, laptops, and tablet computers. A conventional mechanical cutter is usually used to score the glass before a bending force is applied to separate the glass along the scoring mark. This paper presents a laser glass scoring technique aimed at replacing the mechanical cutter to reduce cracks. This scoring technique, denoted as the Low-temperature Evaporative Glass Scoring process (LEGS), is different because laser energy is not directly absorbed by the glass. To achieve the proposed laser scoring, a laser beam is focused through the glass onto a metal substrate. The metal substrate absorbs the laser energy to generate a metal vapor to etch the glass, forming a scoring mark. The feasibility of this glass scoring technique is demonstrated using a continuous-wave fiber laser, at a low power of 60 W, and a 7075-T6 Aluminum alloy plate as the metal substrate. When the laser beam scans across the substrate, the laser energy creates a quasi-static aluminum molten pool, covered by an aluminum vapor at a temperature about 3000 K. At an optimal setting of 51 μm gap distance, 60 W laser power, and 6 mm/s scoring speed, a uniform scoring mark of 37 μm width and 120 μm depth was successfully generated on a piece of soda-lime glass without visible micro-cracks. The paper also discussed the uncertainties and their remedies involved in the LEGS process. To facilitate the process design, a model for predicting the aluminum vapor temperature was developed. This model accounted for the laser focus, reflection, absorption and transmission, laser energy distribution, and the aluminum melting and vaporization processes. Finally, this model was validated by comparing the actual melt depth of the aluminum substrate with the one predicted by the model.

  18. Open chromatin in plant genomes.

    Science.gov (United States)

    Zhang, Wenli; Zhang, Tao; Wu, Yufeng; Jiang, Jiming

    2014-01-01

    Sensitivity to DNase I digestion is an indicator of the accessibility and configuration of chromatin in eukaryotic genomes. Open chromatin exhibits high sensitivity to DNase I cleavage. DNase I hypersensitive sites (DHSs) in eukaryotic genomes can be identified through DNase I treatment followed by sequencing (DNase-seq). DHSs are most frequently associated with various cis-regulatory DNA elements, including promoters, enhancers, and silencers in both animal and plant genomes. Genome-wide identification of DHSs provides an efficient method to interpret previously un-annotated regulatory DNA sequences. In this review, we provide an overview of the historical perspective of DHS research in eukaryotes. We summarize the main achievements of DHS research in model animal species and review the recent progress of DHS research in plants. We finally discuss possible future directions of using DHS as a tool in plant genomics research. © 2014 S. Karger AG, Basel.

  19. Nuclear phosphoinositide regulation of chromatin.

    Science.gov (United States)

    Hamann, Bree L; Blind, Raymond D

    2018-01-01

    Phospholipid signaling has clear connections to a wide array of cellular processes, particularly in gene expression and in controlling the chromatin biology of cells. However, most of the work elucidating how phospholipid signaling pathways contribute to cellular physiology have studied cytoplasmic membranes, while relatively little attention has been paid to the role of phospholipid signaling in the nucleus. Recent work from several labs has shown that nuclear phospholipid signaling can have important roles that are specific to this cellular compartment. This review focuses on the nuclear phospholipid functions and the activities of phospholipid signaling enzymes that regulate metazoan chromatin and gene expression. In particular, we highlight the roles that nuclear phosphoinositides play in several nuclear-driven physiological processes, such as differentiation, proliferation, and gene expression. Taken together, the recent discovery of several specifically nuclear phospholipid functions could have dramatic impact on our understanding of the fundamental mechanisms that enable tight control of cellular physiology. © 2017 Wiley Periodicals, Inc.

  20. Bidirectional single-longitudinal mode SOA-fiber ring laser based on optical filter assisted gain starvation

    Science.gov (United States)

    Khalil, Kamal; Al-Arifi, Fares; Al-Otaibi, Mohammed; Sabry, Yasser M.; Khalil, Diaa

    2015-03-01

    Generation of a single-longitudinal mode (SLM) in bidirectional ring lasers has direct impact on the laser linewidth and dynamic range of operation, when used in rotation sensing applications. Besides, operating at a specific wavelength helps in optimizing the performance of the system components. In this work, we report a novel method for generating SLM in bidirectional SOA-fiber ring laser using mechanically tunable Fabry-Perot filter with 1-nm bandwidth. The method is based on gain starvation by tuning the central wavelength of the filter in the blue edge of the gain-wavelength response. By adjusting the SOA driving current, the oscillation condition is satisfied mainly for single mode and bidirectional operation can be achieved simultaneously. The SLM operation is verified by monitoring the beating signal between the modes on an RF spectrum analyzer. Using an SOA with a small-signal gain of 20 dB at 300 mA pumping current and a gain bandwidth of 100 nm centered around 1490 nm; the central wavelength of the ring laser could be tuned from 1440 nm to 1480 nm with a side-mode suppression ratio of 25 dB.

  1. Optical parametric generation by a simultaneously Q-switched mode-locked single-oscillator thulium-doped fiber laser in orientation-patterned gallium arsenide.

    Science.gov (United States)

    Donelan, Brenda; Kneis, Christian; Scurria, Giuseppe; Cadier, Benoît; Robin, Thierry; Lallier, Eric; Grisard, Arnaud; Gérard, Bruno; Eichhorn, Marc; Kieleck, Christelle

    2016-11-01

    Optical parametric generation is demonstrated in orientation-patterned gallium arsenide, pumped by a novel single-oscillator simultaneously Q-switched and mode-locked thulium-doped fiber laser, downconverting the pump radiation into the mid-infrared wavelength regime. The maximum output energy reached is greater than 2.0 μJ per pump pulse.

  2. Experimental investigation of saturation effect on pump-to-signal intensity modulation transfer in single-pump phase-insensitive fiber optic parametric amplifiers

    DEFF Research Database (Denmark)

    Cristofori, Valentina; Lali-Dastjerdi, Zohreh; Lund-Hansen, Toke

    2013-01-01

    We present an experimental characterization of how signal gain saturation affects the transfer of intensity modulation from the pump to the signal in single-pump, phase-insensitive fiber optic parametric amplifiers (FOPAs). In this work, we demonstrate experimentally for the first time, to our...

  3. Chromatin organisation of transgenes in Dictyostelium.

    Science.gov (United States)

    Windhof, I M; Dubin, M J; Nellen, W

    2013-07-01

    The introduction of transgenes in Dictyostelium discoideum typically results in the integration of the transformation vector into the genome at one or a few insertion sites as tandem arrays of approximately 100 copies. Exceptions are extrachromosomal vectors, which do not integrate into chromosomes, and vectors containing resistance markers such as blasticidin, which integrate as single copies at one or a few sites. Here we report that low copy number vector inserts display typical euchromatic features while high copy number insertions are enriched for modifications associate with heterochromatin. Interestingly, high copy number insertions also colocalise with heterochromatin, are enriched for the centromeric histone CenH3 and display centromere-like behaviour during mitosis. We also found that the chromatin organisation on extrachromosmal transgenes is different from those integrated into the chromosomes.

  4. Spatial and frequency domain ring source models for the single muscle fiber action potential

    DEFF Research Database (Denmark)

    Henneberg, Kaj-åge; R., Plonsey

    1994-01-01

    In the paper, single-fibre models for the extracellular action potential are developed that will allow the potential to the evaluated at an arbitrary field point in the extracellular space. Fourier-domain models are restricted in that they evaluate potentials at equidistant points along a line...... parallel to the fibre axis. Consequently, they cannot easily evaluate the potential at the boundary nodes of a boundary-element electrode model. The Fourier-domain models employ axial-symmetric ring source models, and thereby provide higher accuracy that the line source model, where the source is lumped...... including anisotropy show that the spatial models require extreme care in the integration procedure owing to the singularity in the weighting functions. With adequate sampling, the spatial models can evaluate extracellular potentials with high accuracy....

  5. Selective generation of two pulse modes in a single all normal dispersion fiber laser oscillator and analysis of their optical characteristics

    Science.gov (United States)

    Kim, S.; Choi, M.; Song, J. Y.; Lee, J. H.; Kim, Y.

    2017-02-01

    Fiber ultrafast pulses such as mode-locked and noise-like pulses have useful optical characteristics for high precision metrology applications. In this study, we develop an ytterbium doped fiber laser with all normal dispersion which can selectively generate two pulse modes, mode-locked and noise-like pulses, by a turn-key system including polarization control and selective detection parts. The spectral and temporal characteristics of two pulses generated from the single oscillator are analyzed and compared with each other through optical spectrum, RF spectrum and autocorrelation. Furthermore, spectral coherence characteristics are verified through interference signals generated by balanced and unbalanced arm interferometers.

  6. Widely tunable single-/dual-wavelength fiber lasers with ultra-narrow linewidth and high OSNR using high quality passive subring cavity and novel tuning method.

    Science.gov (United States)

    Feng, Ting; Ding, Dongliang; Yan, Fengping; Zhao, Ziwei; Su, Hongxin; Yao, X Steve

    2016-08-22

    High stability single- and dual-wavelength compound cavity erbium-doped fiber lasers (EDFLs) with ultra-narrow linewidth, high optical signal to noise ratio (OSNR) and widely tunable range are demonstrated. Different from using traditional cascaded Type-1/Type-2 fiber rings as secondary cavities, we nest a Type-1 ring inside a Type-2 ring to form a passive subring cavity to achieve single-longitudinal-mode (SLM) lasing with ultra-narrow linewidth for the first time. We also show that the SLM lasing stability can be further improved by inserting a length of polarization maintaining fiber in the Type-2 ring. Using a uniform fiber Bragg grating (FBG) and two superimposed FBGs as mode restricting elements, respectively, we obtain a single-wavelength EDFL with a linewidth as narrow as 715 Hz and an OSNR as high as 73 dB, and a dual-wavelength EDFL with linewidths less than 1 kHz and OSNRs higher than 68 dB for both lasing wavelengths. Finally, by employing a novel self-designed strain adjustment device capable of applying both the compression and tension forces to the FBGs for wavelength tuning, we achieve the tuning range larger than 10 nm for both of the EDFLs.

  7. The size of the thyroid hormone receptor in chromatin

    International Nuclear Information System (INIS)

    Gruol, D.J.; Kempner, E.S.

    1982-01-01

    We have used radiation inactivation and target theory to determine the size of the functional unit for T 3 binding in rat liver chromatin. The process involves exposure of frozen chromatin samples to a beam of high energy electrons produced in a linear accelerator and subsequent measurement of the residual capacity to bind hormone. Our experiments were carried out using three forms of solubilized chromatin: 1) sonicated, containing the receptor in fragments which sedimented faster than 30 S; 2) digested by nuclease, containing the receptor in a form which sedimented at 5-6 S; 3) digested by nuclease and made 0.5 M in KCl, containing the receptor in a form which sedimented at 3.8 S. We have shown that in each sample preparation the receptor retained the ability to bind T 3 with the same capacity and affinity that had previously been measured with high molecular weith chromatin. Irradiation caused a reduction in the capacity to bind T 3 but did not change the affinity of the remaining receptors for the hormone. In each preparation, the radiation resulted in a simple exponential loss of binding capacity with dose, indicating that a single target size was detected. Within the variation of the measurements, the target size for each form of the receptor was the same, 59,000 daltons

  8. UV-induced structural changes in chromatin

    International Nuclear Information System (INIS)

    Lang, H.; Zimmer, C.; Vengerov, Yu.Yu.

    1985-01-01

    UV-induced structural alterations of chromatin were studied by means of CD, electron microscopic, and gel electrophoretic measurements. The results indicate that chromatin undergoes serious structural changes after irradiation even at very low fluences. In the low fluence range the structural transitions from the higher ordered chromatin structure to the unfolded state occur without detectable changes in the content of histone H1 and of the core histones. Histone H1 disappears only at fluences above 10 kJ/m 2 . Furthermore, DNA in chromatin is much more sensitive against UV-irradiation and shows a higher degree of strand scission relative to free DNA. While fragmentation in free DNA occurs at fluences above 15 kJ/m 2 , it occurs even at 5.5 kJ/m 2 in the case of chromatin. The biological meaning of the observed UV-induced structural alterations of chromatin is discussed. (author)

  9. Tensile Properties of Dyneema SK76 Single Fibers at Multiple Loading Rates Using a Direct Gripping Method

    Science.gov (United States)

    2014-06-01

    higher tensile modulus and good resistance to chemical and physical degradation . Due to an increasing need for numerical modeling capability of...grip are tightened until the fiber is squeezed with enough force by the polycarbonate clamping blocks to ensure that the fiber will not slip out...629–636. 20 26. Liu, X.; Yu, W. Evaluation of the Tensile Properties and Thermal Stability of Ultrahigh- Molecular-Weight Polyethylene Fibers

  10. Gene expression changes of single skeletal muscle fibers in response to modulation of the mitochondrial calcium uniporter (MCU

    Directory of Open Access Journals (Sweden)

    Francesco Chemello

    2015-09-01

    Full Text Available The mitochondrial calcium uniporter (MCU gene codifies for the inner mitochondrial membrane (IMM channel responsible for mitochondrial Ca2+ uptake. Cytosolic Ca2+ transients are involved in sarcomere contraction through cycles of release and storage in the sarcoplasmic reticulum. In addition cytosolic Ca2+ regulates various signaling cascades that eventually lead to gene expression reprogramming. Mitochondria are strategically placed in close contact with the ER/SR, thus cytosolic Ca2+ transients elicit large increases in the [Ca2+] of the mitochondrial matrix ([Ca2+]mt. Mitochondrial Ca2+ uptake regulates energy production and cell survival. In addition, we recently showed that MCU-dependent mitochondrial Ca2+ uptake controls skeletal muscle trophism. In the same report, we dissected the effects of MCU-dependent mitochondrial Ca2+ uptake on gene expression through microarray gene expression analysis upon modulation of MCU expression by in vivo AAV infection. Analyses were performed on single skeletal muscle fibers at two time points (7 and 14 days post-AAV injection. Raw and normalized data are available on the GEO database (http://www.ncbi.nlm.nih.gov/geo/ (GSE60931.

  11. Chromatin dynamics during DSB repair

    Czech Academy of Sciences Publication Activity Database

    Falk, Martin; Lukášová, Emilie; Gabrielová, Barbora; Ondřej, Vladan; Kozubek, Stanislav

    2007-01-01

    Roč. 1773, č. 10 (2007), s. 1534-1545 ISSN 0167-4889 R&D Projects: GA ČR(CZ) GP204/06/P349; GA ČR(CZ) 1QS500040508; GA AV ČR(CZ) IAA1065203; GA MŠk(CZ) 1P05OC084 Institutional research plan: CEZ:AV0Z50040507; CEZ:AV0Z50040702 Keywords : chromatin structure * double- strand breaks (DSB) * DNA repair Subject RIV: BO - Biophysics Impact factor: 4.374, year: 2007

  12. Transcriptional networks and chromatin remodeling controlling adipogenesis

    DEFF Research Database (Denmark)

    Siersbæk, Rasmus; Nielsen, Ronni; Mandrup, Susanne

    2012-01-01

    Adipocyte differentiation is tightly controlled by a transcriptional cascade, which directs the extensive reprogramming of gene expression required to convert fibroblast-like precursor cells into mature lipid-laden adipocytes. Recent global analyses of transcription factor binding and chromatin...... remodeling have revealed 'snapshots' of this cascade and the chromatin landscape at specific time-points of differentiation. These studies demonstrate that multiple adipogenic transcription factors co-occupy hotspots characterized by an open chromatin structure and specific epigenetic modifications....... Such transcription factor hotspots are likely to represent key signaling nodes which integrate multiple adipogenic signals at specific chromatin sites, thereby facilitating coordinated action on gene expression....

  13. Use of analyte-modulated modal power distribution in multimode optical fibers for simultaneous single-wavelength evanescent-wave refractometry and spectrometry.

    Science.gov (United States)

    Potyrailo, R A; Ruddy, V P; Hieftje, G M

    1999-11-01

    A new method is described for the simultaneous determination of absorbance and refractive index of a sample medium. The method is based on measurement of the analyte-modulated modal power distribution (MPD) in a multimode waveguide. In turn, the MPD is quantified by the far-field spatial pattern and intensity of light, i.e., the Fraunhofer diffraction pattern (registered on a CCD camera), that emerges from a multimode optical fiber. Operationally, light that is sent down the fiber interacts with the surrounding analyte-containing medium by means of the evanescent wave at the fiber boundary. The light flux in the propagating beam and the internal reflection angles within the fiber are both affected by optical absorption connected with the analyte and by the refractive index of the analyte-containing medium. In turn, these angles are reflected in the angular divergence of the beam as it leaves the fiber. As a result, the Fraunhofer diffraction pattern of that beam yields two parameters that can, together, be used to deduce refractive index and absorbance. This MPD based detection offers important advantages over traditional evanescent-wave detection strategies which rely on recording only the total transmitted optical power or its lost fraction. First, simultaneous determination of sample refractive index and absorbance is possible at a single probe wavelength. Second, the sensitivity of refractometric and absorption measurements can be controlled simply, either by adjusting the distance between the end face of the fiber and the CCD detector or by monitoring selected modal groups at the fiber output. As a demonstration of these capabilities, several weakly absorbing solutions were examined, with refractive indices in the range from 1.3330 to 1.4553 and with absorption coefficients in the range 0-16 cm-1. The new detection strategy is likely to be important in applications in which sample coloration varies and when it is necessary to compensate for variations in the

  14. The architects of crenarchaeal chromatin : A biophysical characterization of chromatin proteins from Sulfolobus solfataricus

    NARCIS (Netherlands)

    Driessen, Rosalie Paula Catharina

    2014-01-01

    Understanding of chromatin organization and compaction in Archaea is currently limited. The genome of several megabasepairs long is folded by a set of small chromatin proteins to fit into the micron-sized cell. A first step in understanding archaeal chromatin organization is to study the action of

  15. Nascent chromatin capture proteomics determines chromatin dynamics during DNA replication and identifies unknown fork components

    DEFF Research Database (Denmark)

    Alabert, Constance; Bukowski-Wills, Jimi-Carlo; Lee, Sung-Po

    2014-01-01

    replication in human cells. NCC relies on biotin-dUTP labelling of replicating DNA, affinity purification and quantitative proteomics. Comparing nascent chromatin with mature post-replicative chromatin, we provide association dynamics for 3,995 proteins. The replication machinery and 485 chromatin factors...

  16. Contribution of transposable elements and distal enhancers to evolution of human-specific features of interphase chromatin architecture in embryonic stem cells.

    Science.gov (United States)

    Glinsky, Gennadi V

    2018-03-01

    Transposable elements have made major evolutionary impacts on creation of primate-specific and human-specific genomic regulatory loci and species-specific genomic regulatory networks (GRNs). Molecular and genetic definitions of human-specific changes to GRNs contributing to development of unique to human phenotypes remain a highly significant challenge. Genome-wide proximity placement analysis of diverse families of human-specific genomic regulatory loci (HSGRL) identified topologically associating domains (TADs) that are significantly enriched for HSGRL and designated rapidly evolving in human TADs. Here, the analysis of HSGRL, hESC-enriched enhancers, super-enhancers (SEs), and specific sub-TAD structures termed super-enhancer domains (SEDs) has been performed. In the hESC genome, 331 of 504 (66%) of SED-harboring TADs contain HSGRL and 68% of SEDs co-localize with HSGRL, suggesting that emergence of HSGRL may have rewired SED-associated GRNs within specific TADs by inserting novel and/or erasing existing non-coding regulatory sequences. Consequently, markedly distinct features of the principal regulatory structures of interphase chromatin evolved in the hESC genome compared to mouse: the SED quantity is 3-fold higher and the median SED size is significantly larger. Concomitantly, the overall TAD quantity is increased by 42% while the median TAD size is significantly decreased (p = 9.11E-37) in the hESC genome. Present analyses illustrate a putative global role for transposable elements and HSGRL in shaping the human-specific features of the interphase chromatin organization and functions, which are facilitated by accelerated creation of novel transcription factor binding sites and new enhancers driven by targeted placement of HSGRL at defined genomic coordinates. A trend toward the convergence of TAD and SED architectures of interphase chromatin in the hESC genome may reflect changes of 3D-folding patterns of linear chromatin fibers designed to enhance both

  17. Dietary polyphenols and chromatin remodeling.

    Science.gov (United States)

    Russo, Gian Luigi; Vastolo, Viviana; Ciccarelli, Marco; Albano, Luigi; Macchia, Paolo Emidio; Ungaro, Paola

    2017-08-13

    Polyphenols are the most abundant phytochemicals in fruits, vegetables, and plant-derived beverages. Recent findings suggest that polyphenols display the ability to reverse adverse epigenetic regulation involved in pathological conditions, such as obesity, metabolic disorder, cardiovascular and neurodegenerative diseases, and various forms of cancer. Epigenetics, defined as heritable changes to the transcriptome, independent from those occurring in the genome, includes DNA methylation, histone modifications, and posttranscriptional gene regulation by noncoding RNAs. Sinergistically and cooperatively, these processes regulate gene expression by changing chromatin organization and DNA accessibility. Such induced epigenetic changes can be inherited during cell division, resulting in permanent maintenance of the acquired phenotype, but they may also occur throughout an individual life-course and may ultimately influence phenotypic outcomes (health and disease risk). In the last decade, a number of studies have shown that nutrients can affect metabolic traits by altering the structure of chromatin and directly regulate both transcription and translational processes. In this context, dietary polyphenol-targeted epigenetics becomes an attractive approach for disease prevention and intervention. Here, we will review how polyphenols, including flavonoids, curcuminoids, and stilbenes, modulate the establishment and maintenance of key epigenetic marks, thereby influencing gene expression and, hence, disease risk and health.

  18. Citrullination regulates pluripotency and histone H1 binding to chromatin

    Science.gov (United States)

    Christophorou, Maria A.; Castelo-Branco, Gonçalo; Halley-Stott, Richard P.; Oliveira, Clara Slade; Loos, Remco; Radzisheuskaya, Aliaksandra; Mowen, Kerri A.; Bertone, Paul; Silva, José C. R.; Zernicka-Goetz, Magdalena; Nielsen, Michael L.; Gurdon, John B.; Kouzarides, Tony

    2014-03-01

    Citrullination is the post-translational conversion of an arginine residue within a protein to the non-coded amino acid citrulline. This modification leads to the loss of a positive charge and reduction in hydrogen-bonding ability. It is carried out by a small family of tissue-specific vertebrate enzymes called peptidylarginine deiminases (PADIs) and is associated with the development of diverse pathological states such as autoimmunity, cancer, neurodegenerative disorders, prion diseases and thrombosis. Nevertheless, the physiological functions of citrullination remain ill-defined, although citrullination of core histones has been linked to transcriptional regulation and the DNA damage response. PADI4 (also called PAD4 or PADV), the only PADI with a nuclear localization signal, was previously shown to act in myeloid cells where it mediates profound chromatin decondensation during the innate immune response to infection. Here we show that the expression and enzymatic activity of Padi4 are also induced under conditions of ground-state pluripotency and during reprogramming in mouse. Padi4 is part of the pluripotency transcriptional network, binding to regulatory elements of key stem-cell genes and activating their expression. Its inhibition lowers the percentage of pluripotent cells in the early mouse embryo and significantly reduces reprogramming efficiency. Using an unbiased proteomic approach we identify linker histone H1 variants, which are involved in the generation of compact chromatin, as novel PADI4 substrates. Citrullination of a single arginine residue within the DNA-binding site of H1 results in its displacement from chromatin and global chromatin decondensation. Together, these results uncover a role for citrullination in the regulation of pluripotency and provide new mechanistic insights into how citrullination regulates chromatin compaction.

  19. Recognition imaging of chromatin and chromatin-remodeling complexes in the atomic force microscope.

    Science.gov (United States)

    Lohr, Dennis; Wang, Hongda; Bash, Ralph; Lindsay, Stuart M

    2009-01-01

    Atomic force microscopy (AFM) can directly visualize single molecules in solution, which makes it an extremely powerful technique for carrying out studies of biological complexes and the processes in which they are involved. A recent development, called Recognition Imaging, allows the identification of a specific type of protein in solution AFM images, a capability that greatly enhances the power of the AFM approach for studies of complex biological materials. In this technique, an antibody against the protein of interest is attached to an AFM tip. Scanning a sample with this tip generates a typical topographic image simultaneously and in exact spatial registration with a "recognition image." The latter identifies the locations of antibody-antigen binding events and thus the locations of the protein of interest in the image field. The recognition image can be electronically superimposed on the topographic image, providing a very accurate map of specific protein locations in the topographic image. This technique has been mainly used in in vitro studies of biological complexes and reconstituted chromatin, but has great potential for studying chromatin and protein complexes isolated from nuclei.

  20. Chromatin Remodelers: From Function to Dysfunction

    Directory of Open Access Journals (Sweden)

    Gernot Längst

    2015-06-01

    Full Text Available Chromatin remodelers are key players in the regulation of chromatin accessibility and nucleosome positioning on the eukaryotic DNA, thereby essential for all DNA dependent biological processes. Thus, it is not surprising that upon of deregulation of those molecular machines healthy cells can turn into cancerous cells. Even though the remodeling enzymes are very abundant and a multitude of different enzymes and chromatin remodeling complexes exist in the cell, the particular remodeling complex with its specific nucleosome positioning features must be at the right place at the right time in order to ensure the proper regulation of the DNA dependent processes. To achieve this, chromatin remodeling complexes harbor protein domains that specifically read chromatin targeting signals, such as histone modifications, DNA sequence/structure, non-coding RNAs, histone variants or DNA bound interacting proteins. Recent studies reveal the interaction between non-coding RNAs and chromatin remodeling complexes showing importance of RNA in remodeling enzyme targeting, scaffolding and regulation. In this review, we summarize current understanding of chromatin remodeling enzyme targeting to chromatin and their role in cancer development.

  1. Transcription Through Chromatin - Dynamic Organization of Genes

    Indian Academy of Sciences (India)

    Remodeling of chromatin confers it the ability for dynamic change. Remodeling is essential for transcriptional regulation, the first step of gene expression. Chromatin Structure and Gene Expression. Transcription is the first step of gene expression in which RNA synthesis occurs from the DNA (gene) template in a series of.

  2. Molecular structures guide the engineering of chromatin.

    Science.gov (United States)

    Tekel, Stefan J; Haynes, Karmella A

    2017-07-27

    Chromatin is a system of proteins, RNA, and DNA that interact with each other to organize and regulate genetic information within eukaryotic nuclei. Chromatin proteins carry out essential functions: packing DNA during cell division, partitioning DNA into sub-regions within the nucleus, and controlling levels of gene expression. There is a growing interest in manipulating chromatin dynamics for applications in medicine and agriculture. Progress in this area requires the identification of design rules for the chromatin system. Here, we focus on the relationship between the physical structure and function of chromatin proteins. We discuss key research that has elucidated the intrinsic properties of chromatin proteins and how this information informs design rules for synthetic systems. Recent work demonstrates that chromatin-derived peptide motifs are portable and in some cases can be customized to alter their function. Finally, we present a workflow for fusion protein design and discuss best practices for engineering chromatin to assist scientists in advancing the field of synthetic epigenetics. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

  3. Chromatin-modifying proteins in cancer

    DEFF Research Database (Denmark)

    Fog, Cathrine K; Jensen, Klaus T; Lund, Anders Henrik

    2007-01-01

    -despite the fact that all cells in the organism contain the same genetic information. A large amount of data gathered over the last decades has demonstrated that deregulation of chromatin-modifying proteins is etiologically involved in the development and progression of cancer. Here we discuss how epigenetic...... alterations influence cancer development and review known cancer-associated alterations in chromatin-modifying proteins....

  4. A microscopic analysis of Arabidopsis chromatin

    NARCIS (Netherlands)

    Willemse, J.J.

    2007-01-01

    Genetic information of eukaryotic organisms is stored as DNA in the nuclei of their cells. Nuclear DNA is associated with several proteins, which together form chromatin. The most abundant chromatin proteins arehistones,they arrange the initial packaging step of the DNA. DNA

  5. Metaphase chromosome analysis by ligation-mediated PCR: heritable chromatin structure and a comparison of active and inactive X chromosomes.

    Science.gov (United States)

    Hershkovitz, M; Riggs, A D

    1995-03-14

    We report that ligation-mediated PCR (LMPCR) can be used for high-resolution study of metaphase chromosomes, and we discuss the role of metaphase chromatin structure in the preservation of differentiated cell states. The X chromosome-linked human PGK1 (phosphoglycerate kinase 1) promoter region was investigated, and euchromatic active X chromosome (Xa) metaphase chromatin was compared with interphase Xa chromatin and to heterochromatic inactive X chromosome (Xi) metaphase and interphase chromatin. We find that (i) good-quality data at single-nucleotide resolution can be obtained by LMPCR analysis of dimethyl sulfate-treated intact metaphase cells; (ii) transcription factors present on the Xa promoter of interphase chromatin are not present on metaphase chromatin, establishing that the transcription complex on the PGK1 promoter must form de novo each cell generation; and (iii) the dimethyl sulfate reactivity pattern of Xa and Xi chromatin at metaphase is very similar to that of naked DNA. These results are discussed in the context of models for heritable chromatin structure and epigenetic mechanisms for cell memory, and they are also relevant to more general aspects of chromatin structure and differences between euchromatin and heterochromatin.

  6. TOPICAL REVIEW: The physics of chromatin

    Science.gov (United States)

    Schiessel, Helmut

    2003-05-01

    Recent progress has been made in the understanding of the physical properties of chromatin - the dense complex of DNA and histone proteins that occupies the nuclei of plant and animal cells. Here I will focus on the two lowest levels of the hierarchy of DNA folding into the chromatin complex. (i) The nucleosome, the chromatin repeating unit consisting of a globular aggregate of eight histone proteins with the DNA wrapped around it: its overcharging, the DNA unwrapping transition, the 'sliding' of the octamer along the DNA. (ii) The 30 nm chromatin fibre, the necklace-like structure of nucleosomes connected via linker DNA: its geometry, its mechanical properties under stretching and its response to changing ionic conditions. I will stress that chromatin combines two seemingly contradictory features: (1) high compaction of DNA within the nuclear envelope and, at the same time, (2) accessibility to genes, promoter regions and gene regulatory sequences.

  7. Genome-Wide Analysis of Chromatin Accessibility in Arabidopsis Infected with Pseudomonas syringae.

    Science.gov (United States)

    Bordiya, Yogendra; Kang, Hong-Gu

    2017-01-01

    Changes in chromatin accessibility are an important aspect of the molecular changes that occur in eukaryotic cells responding to stress, and they appear to play a critical role in stress-induced transcriptional activation/reprogramming and epigenetic changes. In plants, pathogen infection has been shown to induce rapid and drastic transcriptional reprogramming; growing evidence suggests that chromatin remodeling plays an essential role in this phenomenon. The recent development of genomic tools to assess chromatin accessibility presents a significant opportunity to investigate the relationship between chromatin dynamicity and gene expression. In this protocol, we have adopted a popular chromatin accessibility assay, DNase-seq, to measure chromatin accessibility in Arabidopsis infected with the bacterial pathogen Pseudomonas syringae pv. tomato (Pst). DNase-seq provides information on chromatin accessibility through the sequencing of DNA fragments generated by DNase I digestion of open chromatin, followed by mapping these sequences on a reference genome. Of the two popular DNase-seq approaches, we based our method on the Stamatoyannopoulos protocol, which involves two DNase cleavages rather than a single cleavage, followed by size fractionation. Please note that this two-cleavage approach is widely accepted and has been used extensively by ENCODE (Encyclopedia of DNA Elements) project, a public research consortium investigating cis- and trans-elements in the transcriptional regulation in animal cells. To enhance the quality of the chromatin accessibility assay, we modified this protocol by including two centrifugation steps for nuclear enrichment and size fractionation and an extra washing step for removal of chloroplasts and Pst. The outcomes obtained by this approach are also discussed.

  8. Modeling of single mode optical fiber having a complicated refractive index profile by using modified scalar finite element method

    OpenAIRE

    Raghuwanshi, S.K.; Rahman, B. M.

    2016-01-01

    A numerical method based on modified scalar finite element method (SC-FEM) is presented and programmed on MATLAB platform for optical fiber modeling purpose. We have estimated the dispersion graph, mode cut off condition, and group delay and waveguide dispersion for highly complicated chirped type refractive index profile fiber. The convergence study of our FEM formulation is carried out with respect to the number of division in core. It has been found that the numerical error becomes less th...

  9. Lingual traction to facilitate fiber-optic intubation of difficult airways: a single-anesthesiologist randomized trial.

    Science.gov (United States)

    Ching, Yiu-Hei; Karlnoski, Rachel A; Chen, Henian; Camporesi, Enrico M; Shah, Vimal V; Padhya, Tapan A; Mangar, Devanand

    2015-04-01

    Flexible fiber-optic bronchoscope-guided orotracheal intubation is a valuable technique with demonstrated benefits in the management of difficult airways. Despite its popularity with anesthesia providers, the technique is not fail-safe and airway-related complications secondary to failed intubation attempts remain an important problem. We sought to determine the effect of incorporating lingual traction on the success rate of fiber-optic bronchoscope-guided intubation in patients with anticipated difficult airways. In this prospective, randomized, cohort study, we enrolled 91 adult patients with anticipated difficult airways scheduled for elective surgery to undergo fiber-optic bronchoscope-guided orotracheal intubation alone or with lingual traction by an individual anesthesiologist after induction of general anesthesia and neuromuscular blockade. A total of 78 patients were randomized: 39 patients to the fiber-optic bronchoscope-guided intubation with lingual traction group and 39 patients to the fiber-optic bronchoscope-guided intubation alone group. The primary endpoint was the rate of successful first attempt intubations. The secondary outcome was sore throat grade on post-operative day 1. Fiber-optic intubation with lingual traction compared to fiber-optic intubation alone resulted in a higher success rate (92.3 vs. 74.4 %, χ (2) = 4.523, p = 0.033) and greater odds for successful first attempt intubation (OR 4.138, 95 % CI 1.041-16.444, p = 0.044). Sore throat severity on post-operative day 1 was not significantly different but trended towards worsening grades with lingual traction. In this study, lingual traction was shown to be a valuable maneuver for facilitating fiber-optic bronchoscope-guided intubation in the management of patients with anticipated difficult airways.

  10. From single fiber to macro-level mechanics: A structural finite-element model for elastomeric fibrous biomaterials.

    Science.gov (United States)

    D'Amore, Antonio; Amoroso, Nicholas; Gottardi, Riccardo; Hobson, Christopher; Carruthers, Christopher; Watkins, Simon; Wagner, William R; Sacks, Michael S

    2014-11-01

    In the present work, we demonstrate that the mesoscopic in-plane mechanical behavior of membrane elastomeric scaffolds can be simulated by replication of actual quantified fibrous geometries. Elastomeric electrospun polyurethane (ES-PEUU) scaffolds, with and without particulate inclusions, were utilized. Simulations were developed from experimentally-derived fiber network geometries, based on a range of scaffold isotropic and anisotropic behaviors. These were chosen to evaluate the effects on macro-mechanics based on measurable geometric parameters such as fiber intersections, connectivity, orientation, and diameter. Simulations were conducted with only the fiber material model parameters adjusted to match the macro-level mechanical test data. Fiber model validation was performed at the microscopic level by individual fiber mechanical tests using AFM. Results demonstrated very good agreement to the experimental data, and revealed the formation of extended preferential fiber orientations spanning the entire model space. We speculate that these emergent structures may be responsible for the tissue-like macroscale behaviors observed in electrospun scaffolds. To conclude, the modeling approach has implications for (1) gaining insight on the intricate relationship between fabrication variables, structure, and mechanics to manufacture more functional devices/materials, (2) elucidating the effects of cell or particulate inclusions on global construct mechanics, and (3) fabricating better performing tissue surrogates that could recapitulate native tissue mechanics. Copyright © 2014 Elsevier Ltd. All rights reserved.

  11. Identification of singles bar as a direct transcriptional target of Drosophila Myocyte enhancer factor-2 and a regulator of adult myoblast fusion

    OpenAIRE

    Brunetti, Tonya M.; Fremin, Brayon J.; Cripps, Richard M.

    2015-01-01

    In Drosophila, myoblast fusion is a conserved process in which founder cells (FCs) and fusion competent myoblasts (FCMs) fuse to form a syncytial muscle fiber. Mutants for the myogenic regulator Myocyte enhancer factor-2 (MEF2) show a failure of myoblast fusion, indicating that MEF2 regulates the fusion process. Indeed, chromatin immunoprecipitation studies show that several genes involved in myoblast fusion are bound by MEF2 during embryogenesis. Of these, the MARVEL domain gene singles bar ...

  12. SiO2/ZnO Composite Hollow Sub-Micron Fibers: Fabrication from Facile Single Capillary Electrospinning and Their Photoluminescence Properties

    Directory of Open Access Journals (Sweden)

    Guanying Song

    2017-02-01

    Full Text Available In this work, SiO2/ZnO composite hollow sub-micron fibers were fabricated by a facile single capillary electrospinning technique followed by calcination, using tetraethyl orthosilicate (TEOS, polyvinylpyrrolidone (PVP and ZnO nanoparticles as raw materials. The characterization results of the scanning electron microscopy (SEM, transmission electron microscopy (TEM, X-ray diffraction (XRD and Fourier transform infrared spectroscopy (FT-IR spectra indicated that the asprepared composite hollow fibers consisted of amorphous SiO2 and hexagonal wurtzite ZnO. The products revealed uniform tubular structure with outer diameters of 400–500 nm and wall thickness of 50–60 nm. The gases generated and the directional escaped mechanism was proposed to illustrate the formation of SiO2/ZnO composite hollow sub-micron fibers. Furthermore, a broad blue emission band was observed in the photoluminescence (PL of SiO2/ZnO composite hollow sub-micron fibers, exhibiting great potential applications as blue light-emitting candidate materials.

  13. Basic study of single crystal fibers of Pr:Lu{sub 3}Al{sub 5}O{sub 12} scintillator for gamma-ray imaging applications

    Energy Technology Data Exchange (ETDEWEB)

    Yanagida, Takayuki, E-mail: t_yanagi@tagen.tohoku.ac.jp [IMRAM, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi 980-8577 (Japan); Kamada, Kei [Materials Research Laboratory, Furukawa Co., Ltd., 1-25-13 Kannondai, Tukuba Ibaragi 305-0856 (Japan); Kawaguchi, Noriaki [IMRAM, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi 980-8577 (Japan); Tokuyama Corporation, Shibuya 3-chome, Shibuya-ku, Tokyo 150-8383 (Japan); Fujimoto, Yutaka [IMRAM, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi 980-8577 (Japan); Fukuda, Kentaro [IMRAM, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi 980-8577 (Japan); Tokuyama Corporation, Shibuya 3-chome, Shibuya-ku, Tokyo 150-8383 (Japan); Yokota, Yuui; Chani, Valery; Yoshikawa, Akira [IMRAM, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi 980-8577 (Japan)

    2011-10-01

    Single-crystalline fibers were grown from 0.25, 0.70, and 1.50 mol% Pr-doped Lu{sub 3}Al{sub 5}O{sub 12} (LuAG) melts by the micro-pulling down ({mu}-PD) method with a diameter of 0.3-0.5 mm and a length of about 200 mm. They were cut to 10 mm long specimens, and their scintillation properties, including light yield and decay time profile, were examined. These results were compared with corresponding properties of the specimens (0.8x0.8x10 mm{sup 3}) cut from the bulk crystals produced by conventional Czochralski (CZ) growth. The {mu}-PD-grown fibers demonstrated relatively low light yield and had the same decay time constant when compared with those of the samples cut from the CZ-grown crystals. The fiber crystals were used to assemble scintillating arrays with dimensions of O 0.5x10 mm{sup 2}x20 pixels and O 0.3x10 mm{sup 2}x30 pixels coated by a BaSO{sub 4} reflector. After optical coupling with a position sensitive photomultiplier tube, the fiber-based arrays demonstrated acceptable imaging capability with a spatial resolution of about 0.5 mm.

  14. Basic study of single crystal fibers of Pr:Lu3Al5O12 scintillator for gamma-ray imaging applications

    International Nuclear Information System (INIS)

    Yanagida, Takayuki; Kamada, Kei; Kawaguchi, Noriaki; Fujimoto, Yutaka; Fukuda, Kentaro; Yokota, Yuui; Chani, Valery; Yoshikawa, Akira

    2011-01-01

    Single-crystalline fibers were grown from 0.25, 0.70, and 1.50 mol% Pr-doped Lu 3 Al 5 O 12 (LuAG) melts by the micro-pulling down (μ-PD) method with a diameter of 0.3-0.5 mm and a length of about 200 mm. They were cut to 10 mm long specimens, and their scintillation properties, including light yield and decay time profile, were examined. These results were compared with corresponding properties of the specimens (0.8x0.8x10 mm 3 ) cut from the bulk crystals produced by conventional Czochralski (CZ) growth. The μ-PD-grown fibers demonstrated relatively low light yield and had the same decay time constant when compared with those of the samples cut from the CZ-grown crystals. The fiber crystals were used to assemble scintillating arrays with dimensions of O 0.5x10 mm 2 x20 pixels and O 0.3x10 mm 2 x30 pixels coated by a BaSO 4 reflector. After optical coupling with a position sensitive photomultiplier tube, the fiber-based arrays demonstrated acceptable imaging capability with a spatial resolution of about 0.5 mm.

  15. [Effect of grain-bean package, grain-bean package dietary fiber and single whole grain dietary fiber on dyslipidemia rats].

    Science.gov (United States)

    Liu, Yang; Zhai, Chengkai; Sun, Guiju; Zhang, Hong; Jiang, Mingxia; Zhang, Haifeng; Guo, Junling; Lan, Xi

    2014-05-01

    To observe and compare the effects of grain-bean package, dietary fiber (DF) extracted from grain-bean package, and DF from grain corn on the blood lipids and fatty acid synthase (FAS) activity in high-fat, high-cholesterol feeding induced dyslipidemia rats, and observe its effects on regulation of sterol regulatory element protein-1c (SREBP-1c) mRNA expression in rat liver. Consolidation 50 SD rats of clean grade feeding adaptation for one week, randomly assigned into normal control group, hyperlipidemia model group, grain-bean package group, grain-bean package DF group and grain corn group. Feed with corresponding diets for 8 weeks, and measure the total cholesterol (TC), triglyceridaemia (TG), high density lipoprotein cholesterol (HDL-C), fasting blood glucose (FBG), FAS, SREBP-1c mRNA of all groups. Compared with control group, TC, TG, FBG levels of hyperlipidemia model group were significantly increased (P dietary fiber can improve blood lipids levels of dyslipidemia rats, and decrease FAS activity and SREBP-1c mRNA expression.

  16. Sensitivity analysis of stress state and bond strength of fiber-reinforced polymer/concrete interface to boundary conditions in single shear pull-out test

    Directory of Open Access Journals (Sweden)

    Tayyebeh Mohammadi

    2015-05-01

    Full Text Available The bond between fiber-reinforced polymer and concrete substrate plays a key role in the performance of concrete structures after strengthened by externally bonded fiber-reinforced polymer composite materials. The single shear pull-out test is generally used to determine the interface characteristics, and various bond–slip models have been proposed based on the results of this test. However, the sensitivity of the bond strength to the boundary conditions has not yet been considered in the available models in the literatures. This article presents an experimental and numerical study targeted at understanding the influence of the boundary conditions on the bond strength of the fiber-reinforced polymer/concrete interface in the single shear pull-out test. The validated finite element analysis by experimental results is used for the sensitivity study of the bond strength and stress state of the interface to the boundary conditions of the concrete block. It is found that the constraint height of the concrete block at the loaded side is an influential parameter on the stress state of the interface and the bond strength.

  17. Binding of DNA-bending non-histone proteins destabilizes regular 30-nm chromatin structure

    Science.gov (United States)

    Bajpai, Gaurav; Jain, Ishutesh; Inamdar, Mandar M.; Das, Dibyendu; Padinhateeri, Ranjith

    2017-01-01

    Why most of the in vivo experiments do not find the 30-nm chromatin fiber, well studied in vitro, is a puzzle. Two basic physical inputs that are crucial for understanding the structure of the 30-nm fiber are the stiffness of the linker DNA and the relative orientations of the DNA entering/exiting nucleosomes. Based on these inputs we simulate chromatin structure and show that the presence of non-histone proteins, which bind and locally bend linker DNA, destroys any regular higher order structures (e.g., zig-zag). Accounting for the bending geometry of proteins like nhp6 and HMG-B, our theory predicts phase-diagram for the chromatin structure as a function of DNA-bending non-histone protein density and mean linker DNA length. For a wide range of linker lengths, we show that as we vary one parameter, that is, the fraction of bent linker region due to non-histone proteins, the steady-state structure will show a transition from zig-zag to an irregular structure—a structure that is reminiscent of what is observed in experiments recently. Our theory can explain the recent in vivo observation of irregular chromatin having co-existence of finite fraction of the next-neighbor (i + 2) and neighbor (i + 1) nucleosome interactions. PMID:28135276

  18. Extensive Variation in Chromatin States Across Humans

    KAUST Repository

    Kasowski, M.

    2013-10-17

    The majority of disease-associated variants lie outside protein-coding regions, suggesting a link between variation in regulatory regions and disease predisposition. We studied differences in chromatin states using five histone modifications, cohesin, and CTCF in lymphoblastoid lines from 19 individuals of diverse ancestry. We found extensive signal variation in regulatory regions, which often switch between active and repressed states across individuals. Enhancer activity is particularly diverse among individuals, whereas gene expression remains relatively stable. Chromatin variability shows genetic inheritance in trios, correlates with genetic variation and population divergence, and is associated with disruptions of transcription factor binding motifs. Overall, our results provide insights into chromatin variation among humans.

  19. Chromatin-modifying proteins in cancer

    DEFF Research Database (Denmark)

    Fog, Cathrine K; Jensen, Klaus T; Lund, Anders Henrik

    2007-01-01

    Chromatin-modifying proteins mold the genome into areas that are accessible for transcriptional activity and areas that are transcriptionally silent. This epigenetic gene regulation allows for different transcriptional programs to be conducted in different cell types at different timepoints......-despite the fact that all cells in the organism contain the same genetic information. A large amount of data gathered over the last decades has demonstrated that deregulation of chromatin-modifying proteins is etiologically involved in the development and progression of cancer. Here we discuss how epigenetic...... alterations influence cancer development and review known cancer-associated alterations in chromatin-modifying proteins....

  20. Transverse UV-laser irradiation-induced defects and absorption in a single-mode erbium-doped optical fiber

    International Nuclear Information System (INIS)

    Tortech, B.; Ouerdane, Y.; Boukenter, A.; Meunier, J. P.; Girard, S.; Van Uffelen, M.; Berghmans, F.; Regnier, E.; Berghmans, F.; Thienpont, H.

    2009-01-01

    Near UV-visible absorption coefficients of an erbium-doped optical fiber were investigated through an original technique based on a transverse cw UV-laser irradiation operating at 244 nm. Such irradiation leads to the generation of a quite intense guided luminescence signal in near UV spectral range. This photoluminescence probe source combined with a longitudinal translation of the fiber sample (at a constant velocity) along the UV-laser irradiation, presents several major advantages: (i) we bypass and avoid the procedures classically used to study the radiation induced attenuation which are not adapted to our case mainly because the samples present a very strong absorption with significant difficulties due to the injection of adequate UV-light levels in a small fiber diameter: (ii) the influence of the laser irradiation on the host matrix of the optical fiber is directly correlated to the evolution of the generated photoluminescence signal and (iii) in our experimental conditions, short fiber sample lengths (typically 20-30 cm) suffice to determine the associated absorption coefficients over the entire studied spectral domain. The generated photoluminescence signal is also used to characterize the absorption of the erbium ions in the same wavelength range with no cut-back method needed. (authors)

  1. Optimization of a DPP-BOTDA sensor with 25 cm spatial resolution over 60 km standard single-mode fiber using Simplex codes and optical pre-amplification.

    Science.gov (United States)

    Soto, Marcelo A; Taki, Mohammad; Bolognini, Gabriele; Di Pasquale, Fabrizio

    2012-03-26

    Sub-meter distributed optical fiber sensing based on Brillouin optical time-domain analysis with differential pulse-width pairs (DPP-BOTDA) is combined with the use of optical pre-amplification and pulse coding. In order to provide significant measurement SNR enhancement and to avoid distortions in the Brillouin gain spectrum due to acoustic-wave pre-excitation, the pulse width and duty cycle of Simplex coding based on return-to-zero pulses are optimized through simulations. In addition, the use of linear optical pre-amplification increases the receiver sensitivity and the overall dynamic range of DPP-BOTDA measurements. Experimental results demonstrate for first time a spatial resolution of ~25 cm over a 60 km standard single-mode fiber (equivalent to ~240 k discrete sensing points) with temperature resolution of 1.2°C and strain resolution of 24 με.

  2. Proposal for arbitrary-order temporal integration of ultrafast optical signals using a single uniform-period fiber Bragg grating.

    Science.gov (United States)

    Asghari, Mohammad H; Azaña, José

    2008-07-01

    A simple and practical all-fiber design for implementing arbitrary-order temporal integration of ultrafast optical waveforms is proposed and numerically investigated. We demonstrate that an ultrafast photonics integrator of any desired integration order can be implemented using a uniform-period fiber Bragg grating (FBG) with a properly designed amplitude-only grating apodization profile. In particular, the grating coupling strength must vary according to the (N-1) power of the fiber distance for implementing an Nth-order photonics integrator (N=1,2,...). This approach requires the same level of practical difficulty for realizing any given integration order. The proposed integration devices operate over a limited time window, which is approximately fixed by the round-trip propagation time in the FBG. Ultrafast arbitrary-order all-optical integrators capable of accurate operation over nanosecond time windows can be implemented using readily feasible FBGs.

  3. Experimental study on the statistic characteristics of a 3x3 RF MIMO channel over a single conventional multimode fiber.

    Science.gov (United States)

    Lei, Yi; Li, Jianqiang; Wu, Rui; Fan, Yuting; Fu, Songnian; Yin, Feifei; Dai, Yitang; Xu, Kun

    2017-06-01

    Based on the observed random fluctuation phenomenon of speckle pattern across multimode fiber (MMF) facet and received optical power distribution across three output ports, we experimentally investigate the statistic characteristics of a 3×3 radio frequency multiple-input multiple-output (MIMO) channel enabled by mode division multiplexing in a conventional 50 µm MMF using non-mode-selective three-dimensional waveguide photonic lanterns as mode multiplexer and demultiplexer. The impacts of mode coupling on the MIMO channel coefficients, channel matrix, and channel capacity have been analyzed over different fiber lengths. The results indicate that spatial multiplexing benefits from the greater fiber length with stronger mode coupling, despite a higher optical loss.

  4. Phosphorylation-dependent regulation of plant chromatin and chromatin-associated proteins

    KAUST Repository

    Bigeard, Jean

    2014-07-10

    In eukaryotes, most of the DNA is located in the nucleus where it is organized with histone proteins in a higher order structure as chromatin. Chromatin and chromatin-associated proteins contribute to DNA-related processes such as replication and transcription as well as epigenetic regulation. Protein functions are often regulated by PTMs among which phosphorylation is one of the most abundant PTM. Phosphorylation of proteins affects important properties, such as enzyme activity, protein stability, or subcellular localization. We here describe the main specificities of protein phosphorylation in plants and review the current knowledge on phosphorylation-dependent regulation of plant chromatin and chromatin-associated proteins. We also outline some future challenges to further elucidate protein phosphorylation and chromatin regulation.

  5. Single crystal fibers growth of double lithium, lanthanium molybdate and adjustment of a micro-pulling down furnace for high vacuum setup

    International Nuclear Information System (INIS)

    Silva, Fernando Rodrigues da

    2013-01-01

    In this work we investigated crystal growth procedures aiming the development of single crystal fiber (SCF) for laser applications. For quality optimization in the fabrication of fluorides SCF a new growth chamber for a micro-pulling down furnace (μ-PD) was constructed targeting the fibers fabrication with strict atmosphere control (high vacuum, gas flux and static atmospheres). Simultaneously, the SCF growth process of rare earth double molybdates was studied. The growth of pure and Nd 3+ -doped SCF of LiLa(MoO 4 ) 2 (LLM) was studied in the range of 0,5 - 10mol% doping. The designed furnace growth chamber with controlled atmosphere was successfully constructed and tested under different conditions. Specially, it was tested with the growth of LiF SFC under CF 4 atmosphere showing the expected results. Transparent and homogeneous SCF of Nd:LLM were grown. In the pure fibers was observed facets formation, however, these defects were minimized after tuning of the growth parameters and additionally with the fibers doping. X-ray analysis showed the crystallization of a single phase (space group I4 1 /a); the optical coherence tomography showed the presence of scattering centers only in regions were some growth stability occurred due to the manual process control. The measured Nd 3+ distribution showed uniform incorporation, indicative of a segregation coefficient close to unity in LLM. The potential laser gain of the system was determined using a numerical solution of the rate equations system for the 805nm, CW pumping regime, showing the maximum laser emission gain at 1.064 μm for a Nd 3+ -doping of 5mol%. (author)

  6. Single-Fiber Reflectance Spectroscopy of Isotropic-Scattering Medium: An Analytic Perspective to the Ratio-of-Remission in Steady-State Measurements

    Directory of Open Access Journals (Sweden)

    Daqing Piao

    2014-12-01

    Full Text Available Recent focused Monte Carlo and experimental studies on steady-state single-fiber reflectance spectroscopy (SfRS from a biologically relevant scattering medium have revealed that, as the dimensionless reduced scattering of the medium increases, the SfRS intensity increases monotonically until reaching a plateau. The SfRS signal is semi-empirically decomposed to the product of three contributing factors, including a ratio-of-remission (RoR term that refers to the ratio of photons remitting from the medium and crossing the fiber-medium interface over the total number of photons launched into the medium. The RoR is expressed with respect to the dimensionless reduced scattering parameter , where  is the reduced scattering coefficient of the medium and  is the diameter of the probing fiber. We develop in this work, under the assumption of an isotropic-scattering medium, a method of analytical treatment that will indicate the pattern of RoR as a function of the dimensionless reduced scattering of the medium. The RoR is derived in four cases, corresponding to in-medium (applied to interstitial probing of biological tissue or surface-based (applied to contact-probing of biological tissue SfRS measurements using straight-polished or angle-polished fiber. The analytically arrived surface-probing RoR corresponding to single-fiber probing using a 15° angle-polished fiber over the range of  agrees with previously reported similarly configured experimental measurement from a scattering medium that has a Henyey–Greenstein scattering phase function with an anisotropy factor of 0.8. In cases of a medium scattering light anisotropically, we propose how the treatment may be furthered to account for the scattering anisotropy using the result of a study of light scattering close to the point-of-entry by Vitkin et al. (Nat. Commun. 2011, doi:10.1038/ncomms1599.

  7. Chromatin Pioneers | Center for Cancer Research

    Science.gov (United States)

    Taking advantage of their ability to explore provocative ideas, NCI investigators pioneered the study of chromatin to demonstrate its functional importance and lay the groundwork for understanding its role in cancer and other diseases.

  8. Chromatin dynamics coupled to DNA repair.

    Science.gov (United States)

    Huertas, Dori; Sendra, Ramon; Muñoz, Purificación

    2009-01-01

    In order to protect and preserve the integrity of the genome, eukaryotic cells have developed accurate DNA repair pathways involving a coordinated network of DNA repair and epigenetic factors. The DNA damage response has to proceed in the context of chromatin, a packaged and compact structure that is flexible enough to regulate the accession of the DNA repair machinery to DNA-damaged sites. Chromatin modifications and ATP-remodeling activities are both necessary to ensure efficient DNA repair. Here we review the current progress of research into the importance of chromatin modifications and the ATP-remodeling complex to the DNA damage response, with respect to the sensing and signaling of DNA lesions, DNA repair and the processes that restore chromatin structure.

  9. Probabilistic modelling of chromatin code landscape reveals functional diversity of enhancer-like chromatin states

    Science.gov (United States)

    Zhou, Jian; Troyanskaya, Olga G.

    2016-01-01

    Interpreting the functional state of chromatin from the combinatorial binding patterns of chromatin factors, that is, the chromatin codes, is crucial for decoding the epigenetic state of the cell. Here we present a systematic map of Drosophila chromatin states derived from data-driven probabilistic modelling of dependencies between chromatin factors. Our model not only recapitulates enhancer-like chromatin states as indicated by widely used enhancer marks but also divides these states into three functionally distinct groups, of which only one specific group possesses active enhancer activity. Moreover, we discover a strong association between one specific enhancer state and RNA Polymerase II pausing, linking transcription regulatory potential and chromatin organization. We also observe that with the exception of long-intron genes, chromatin state transition positions in transcriptionally active genes align with an absolute distance to their corresponding transcription start site, regardless of gene length. Using our method, we provide a resource that helps elucidate the functional and spatial organization of the chromatin code landscape. PMID:26841971

  10. Enhanced chromatin accessibility of the dosage compensated Drosophila male X-chromosome requires the CLAMP zinc finger protein.

    Science.gov (United States)

    Urban, Jennifer; Kuzu, Guray; Bowman, Sarah; Scruggs, Benjamin; Henriques, Telmo; Kingston, Robert; Adelman, Karen; Tolstorukov, Michael; Larschan, Erica

    2017-01-01

    The essential process of dosage compensation is required to equalize gene expression of X-chromosome genes between males (XY) and females (XX). In Drosophila, the conserved Male-specific lethal (MSL) histone acetyltransferase complex mediates dosage compensation by increasing transcript levels from genes on the single male X-chromosome approximately two-fold. Consistent with its increased levels of transcription, the male X-chromosome has enhanced chromatin accessibility, distinguishing it from the autosomes. Here, we demonstrate that the non-sex-specific CLAMP (Chromatin-linked adaptor for MSL proteins) zinc finger protein that recognizes GA-rich sequences genome-wide promotes the specialized chromatin environment on the male X-chromosome and can act over long genomic distances (~14 kb). Although MSL complex is required for increasing transcript levels of X-linked genes, it is not required for enhancing global male X-chromosome chromatin accessibility, and instead works cooperatively with CLAMP to facilitate an accessible chromatin configuration at its sites of highest occupancy. Furthermore, CLAMP regulates chromatin structure at strong MSL complex binding sites through promoting recruitment of the Nucleosome Remodeling Factor (NURF) complex. In contrast to the X-chromosome, CLAMP regulates chromatin and gene expression on autosomes through a distinct mechanism that does not involve NURF recruitment. Overall, our results support a model where synergy between a non-sex-specific transcription factor (CLAMP) and a sex-specific cofactor (MSL) creates a specialized chromatin domain on the male X-chromosome.

  11. Infrared imaging of cotton fiber bundles using a focal plane array detector and a single reflectance accessory

    Science.gov (United States)

    Infrared imaging is gaining attention as a technique used in the examination of cotton fibers. This type of imaging combines spectral analysis with spatial resolution to create visual images that examine sample composition and distribution. Herein, we report the use of an infrared instrument equippe...

  12. A 250-Mbit/s ring local computer network using 1.3-microns single-mode optical fibers

    Science.gov (United States)

    Eng, S. T.; Tell, R.; Andersson, T.; Eng, B.

    1985-01-01

    A 250-Mbit/s three-station fiber-optic ring local computer network was built and successfully demonstrated. A conventional token protocol was employed for bus arbitration to maximize the bus efficiency under high loading conditions, and a non-return-to-zero (NRS) data encoding format was selected for simplicity and maximum utilization of the ECL-circuit bandwidth.

  13. Production of high-titer human influenza A virus with adherent and suspension MDCK cells cultured in a single-use hollow fiber bioreactor.

    Science.gov (United States)

    Tapia, Felipe; Vogel, Thomas; Genzel, Yvonne; Behrendt, Ilona; Hirschel, Mark; Gangemi, J David; Reichl, Udo

    2014-02-12

    Hollow fiber bioreactors (HFBRs) have been widely described as capable of supporting the production of highly concentrated monoclonal antibodies and recombinant proteins. Only recently HFBRs have been proposed as new single-use platforms for production of high-titer influenza A virus. These bioreactors contain multiple hollow fiber capillary tubes that separate the bioreactor in an intra- and an extra-capillary space. Cells are usually cultured in the extra-capillary space and can grow to a very high cell concentration. This work describes the evaluation of the single-use hollow fiber bioreactor PRIMER HF (Biovest International Inc., USA) for production of influenza A virus. The process was setup, characterized and optimized by running a total of 15 cultivations. The HFBRs were seeded with either adherent or suspension MDCK cells, and infected with influenza virus A/PR/8/34 (H1N1), and the pandemic strain A/Mexico/4108/2009 (H1N1). High HA titers and TCID₅₀ of up to 3.87 log₁₀(HA units/100 μL) and 1.8 × 10(10)virions/mL, respectively, were obtained for A/PR/8/34 influenza strain. Influenza virus was collected by performing multiple harvests of the extra-capillary space during a virus production time of up to 12 days. Cell-specific virus yields between 2,000 and 8,000 virions/cell were estimated for adherent MDCK cells, and between 11,000 and 19,000 virions/cell for suspension MDCK.SUS2 cells. These results do not only coincide with the cell-specific virus yields obtained with cultivations in stirred tank bioreactors and other high cell density systems, but also demonstrate that HFBRs are promising and competitive single-use platforms that can be considered for commercial production of influenza virus. Copyright © 2013 Elsevier Ltd. All rights reserved.

  14. L-arginine supplementation protects exercise performance and structural integrity of muscle fibers after a single bout of eccentric exercise in rats.

    Directory of Open Access Journals (Sweden)

    Yulia N Lomonosova

    Full Text Available Eccentric exercise is known to disrupt sarcolemmal integrity and induce damage of skeletal muscle fibers. We hypothesized that L-arginine (L-Arg; nitric oxide synthase (NOS substrate supplementation prior to a single bout of eccentric exercise would diminish exercise-induced damage. In addition, we used N-nitro-L-arginine methyl ester hydrochloride (L-NAME; NOS inhibitor to clarify the role of native NOS activity in the development of exercise-induced muscle damage. Rats were divided into four groups: non-treated control (C, downhill running with (RA or without (R L-Arg supplementation and downhill running with L-NAME supplementation (RN. Twenty four hours following eccentric exercise seven rats in each group were sacrificed and soleus muscles were dissected and frozen for further analysis. The remaining seven rats in each group were subjected to the exercise performance test. Our experiments showed that L-Arg supplementation prior to a single bout of eccentric exercise improved subsequent exercise performance capacity tests in RA rats when compared with R, RN and C rats by 37%, 27% and 13%, respectively. This outcome is mediated by L-Arg protection against post-exercise damage of sarcolemma (2.26- and 0.87-fold less than R and RN groups, respectively, reduced numbers of damaged muscle fibers indicated by the reduced loss of desmin content in the muscle (15% and 25% less than R and RN groups, respectively, and diminished µ-calpain mRNA up-regulation (42% and 30% less than R and RN groups, respectively. In conclusion, our study indicates that L-Arg supplementation prior to a single bout of eccentric exercise alleviates muscle fiber damage and preserves exercise performance capacity.

  15. L-arginine supplementation protects exercise performance and structural integrity of muscle fibers after a single bout of eccentric exercise in rats.

    Science.gov (United States)

    Lomonosova, Yulia N; Shenkman, Boris S; Kalamkarov, Grigorii R; Kostrominova, Tatiana Y; Nemirovskaya, Tatyana L

    2014-01-01

    Eccentric exercise is known to disrupt sarcolemmal integrity and induce damage of skeletal muscle fibers. We hypothesized that L-arginine (L-Arg; nitric oxide synthase (NOS) substrate) supplementation prior to a single bout of eccentric exercise would diminish exercise-induced damage. In addition, we used N-nitro-L-arginine methyl ester hydrochloride (L-NAME; NOS inhibitor) to clarify the role of native NOS activity in the development of exercise-induced muscle damage. Rats were divided into four groups: non-treated control (C), downhill running with (RA) or without (R) L-Arg supplementation and downhill running with L-NAME supplementation (RN). Twenty four hours following eccentric exercise seven rats in each group were sacrificed and soleus muscles were dissected and frozen for further analysis. The remaining seven rats in each group were subjected to the exercise performance test. Our experiments showed that L-Arg supplementation prior to a single bout of eccentric exercise improved subsequent exercise performance capacity tests in RA rats when compared with R, RN and C rats by 37%, 27% and 13%, respectively. This outcome is mediated by L-Arg protection against post-exercise damage of sarcolemma (2.26- and 0.87-fold less than R and RN groups, respectively), reduced numbers of damaged muscle fibers indicated by the reduced loss of desmin content in the muscle (15% and 25% less than R and RN groups, respectively), and diminished µ-calpain mRNA up-regulation (42% and 30% less than R and RN groups, respectively). In conclusion, our study indicates that L-Arg supplementation prior to a single bout of eccentric exercise alleviates muscle fiber damage and preserves exercise performance capacity.

  16. Fast adaptive OFDM-PON over single fiber loopback transmission using dynamic rate adaptation-based algorithm for channel performance improvement

    Science.gov (United States)

    Kartiwa, Iwa; Jung, Sang-Min; Hong, Moon-Ki; Han, Sang-Kook

    2014-03-01

    In this paper, we propose a novel fast adaptive approach that was applied to an OFDM-PON 20-km single fiber loopback transmission system to improve channel performance in term of stabilized BER below 2 × 10-3 and higher throughput beyond 10 Gb/s. The upstream transmission is performed through light source-seeded modulation using 1-GHz RSOA at the ONU. Experimental results indicated that the dynamic rate adaptation algorithm based on greedy Levin-Campello could be an effective solution to mitigate channel instability and data rate degradation caused by the Rayleigh back scattering effect and inefficient resource subcarrier allocation.

  17. Determining spatial chromatin organization of large genomic regions using 5C technology.

    Science.gov (United States)

    van Berkum, Nynke L; Dekker, Job

    2009-01-01

    Spatial organization of chromatin plays an important role at multiple levels of genome regulation. On a global scale, its function is evident in processes like metaphase and chromosome segregation. On a detailed level, long-range interactions between regulatory elements and promoters are essential for proper gene regulation. Microscopic techniques like FISH can detect chromatin contacts, although the resolution is generally low making detection of enhancer-promoter interaction difficult. The 3C methodology allows for high-resolution analysis of chromatin interactions. 3C is now widely used and has revealed that long-range looping interactions between genomic elements are widespread. However, studying chromatin interactions in large genomic regions by 3C is very labor intensive. This limitation is overcome by the 5C technology. 5C is an adaptation of 3C, in which the concurrent use of thousands of primers permits the simultaneous detection of millions of chromatin contacts. The design of the 5C primers is critical because this will determine which and how many chromatin interactions will be examined in the assay. Starting material for 5C is a 3C template. To make a 3C template, chromatin interactions in living cells are cross-linked using formaldehyde. Next, chromatin is digested and subsequently ligated under conditions favoring ligation events between cross-linked fragments. This yields a genome-wide 3C library of ligation products representing all chromatin interactions in vivo. 5C then employs multiplex ligation-mediated amplification to detect, in a single assay, up to millions of unique ligation products present in the 3C library. The resulting 5C library can be analyzed by microarray analysis or deep sequencing. The observed abundance of a 5C product is a measure of the interaction frequency between the two corresponding chromatin fragments. The power of the 5C technique described in this chapter is the high-throughput, high-resolution, and quantitative way

  18. 175 fs-long pulses from a high-power single-mode Er-doped fiber laser at 1550 nm

    Science.gov (United States)

    Elahi, Parviz; Kalaycıoğlu, Hamit; Li, Huihui; Akçaalan, Önder; Ilday, F. Ömer

    2017-11-01

    Development of Er-doped ultrafast lasers have lagged behind the corresponding developments in Yb- and Tm-doped lasers, in particular, fiber lasers. Various applications benefit from operation at a central wavelength of 1.5 μm and its second harmonic, including emerging applications such as 3D processing of silicon and 3D printing based on two-photon polymerization. We report a simple, robust fiber master oscillator power amplifier operating at 1.55 μm, implementing chirp pulse amplification using single-mode fibers for diffraction-limited beam quality. The laser generates 80 nJ pulses at a repetition rate of 43 MHz, corresponding to an average power of 3.5 W, which can be compressed down to 175 fs. The generation of short pulses was achieved using a design which is guided by numerical simulations of pulse propagation and amplification and manages to overturn gain narrowing with self-phase modulation, without invoking excessive Raman scattering processes. The seed source for the two-stage amplifier is a dispersion-managed passively mode-locked oscillator, which generates a ∼40 nm-wide spectrum and 1.7-ps linearly chirped pulses.

  19. Chromatin Dynamics during Lytic Infection with Herpes Simplex Virus 1

    Science.gov (United States)

    Conn, Kristen L.; Schang, Luis M.

    2013-01-01

    Latent HSV-1 genomes are chromatinized with silencing marks. Since 2004, however, there has been an apparent inconsistency in the studies of the chromatinization of the HSV-1 genomes in lytically infected cells. Nuclease protection and chromatin immunoprecipitation assays suggested that the genomes were not regularly chromatinized, having only low histone occupancy. However, the chromatin modifications associated with transcribed and non-transcribed HSV-1 genes were those associated with active or repressed transcription, respectively. Moreover, the three critical HSV-1 transcriptional activators all had the capability to induce chromatin remodelling, and interacted with critical chromatin modifying enzymes. Depletion or overexpression of some, but not all, chromatin modifying proteins affected HSV-1 transcription, but often in unexpected manners. Since 2010, it has become clear that both cellular and HSV-1 chromatins are highly dynamic in infected cells. These dynamics reconcile the weak interactions between HSV-1 genomes and chromatin proteins, detected by nuclease protection and chromatin immunoprecipitation, with the proposed regulation of HSV-1 gene expression by chromatin, supported by the marks in the chromatin in the viral genomes and the abilities of the HSV-1 transcription activators to modulate chromatin. It also explains the sometimes unexpected results of interventions to modulate chromatin remodelling activities in infected cells. PMID:23863878

  20. Mouse sperm chromatin proteins: quantitative isolation and partial characterization. [Mice

    Energy Technology Data Exchange (ETDEWEB)

    Balhorn, R.; Gledhill, B.L.; Wyrobek, A.J.

    1977-09-06

    Conditions are described that permit the quantitative extraction of chromatin proteins from the epididymal sperm of the mouse. These proteins have been isolated free of contaminating tail proteins following removal of the tails with cetyltrimethylammonium bromide (CTAB). Without this treatment, numerous acid-soluble tail proteins coextract with the nuclear proteins isolated from partially purified heads. The proteins isolated in this manner do not require prior modification with iodoacetamide and show no evidence of proteolytic degradation. In acid-urea polyacrylamide gels, 99% of the sperm protein migrates as one electrophoretic band. Evidence is presented that suggests that this single band contains two protamine-like proteins.

  1. Effect of speed endurance training and reduced training volume on running economy and single muscle fiber adaptations in trained runners

    DEFF Research Database (Denmark)

    Skovgaard, Casper; Christiansen, Danny; Christensen, Peter Møller

    2018-01-01

    The aim of the present study was to examine whether improved running economy with a period of speed endurance training and reduced training volume could be related to adaptations in specific muscle fibers. Twenty trained male (n = 14) and female (n = 6) runners (maximum oxygen consumption (VO2 -max...... was performed. In addition, running at 60% vVO2 -max, and a 10-km run was performed in a normal and a muscle slow twitch (ST) glycogen-depleted condition. After compared to before the intervention, expression of mitochondrial uncoupling protein 3 (UCP3) was lower (P ....05) in ST muscle fibers, and sarcoplasmic reticulum calcium ATPase 1 (SERCA1) was lower (P VO2 -max (11.6 ± 0.2 km/h) and at v10-km (13.7 ± 0.3 km/h) was ~2% better (P

  2. Field trial of a quantum secured 10 Gb/s DWDM transmission system over a single installed fiber.

    Science.gov (United States)

    Choi, Iris; Zhou, Yu Rong; Dynes, James F; Yuan, Zhiliang; Klar, Andreas; Sharpe, Andrew; Plews, Alan; Lucamarini, Marco; Radig, Christian; Neubert, Jörg; Griesser, Helmut; Eiselt, Michael; Chunnilall, Christopher; Lepert, Guillaume; Sinclair, Alastair; Elbers, Jörg-Peter; Lord, Andrew; Shields, Andrew

    2014-09-22

    We present results from the first field-trial of a quantum-secured DWDM transmission system, in which quantum key distribution (QKD) is combined with 4 × 10 Gb/s encrypted data and transmitted simultaneously over 26 km of field installed fiber. QKD is used to frequently refresh the key for AES-256 encryption of the 10 Gb/s data traffic. Scalability to over 40 DWDM channels is analyzed.

  3. A Computer Lab Exploring Evolutionary Aspects of Chromatin Structure and Dynamics for an Undergraduate Chromatin Course

    Science.gov (United States)

    Eirin-Lopez, Jose M.

    2013-01-01

    The study of chromatin constitutes one of the most active research fields in life sciences, being subject to constant revisions that continuously redefine the state of the art in its knowledge. As every other rapidly changing field, chromatin biology requires clear and straightforward educational strategies able to efficiently translate such a…

  4. A computer lab exploring evolutionary aspects of chromatin structure and dynamics for an undergraduate chromatin course*.

    Science.gov (United States)

    Eirín-López, José M

    2013-01-01

    The study of chromatin constitutes one of the most active research fields in life sciences, being subject to constant revisions that continuously redefine the state of the art in its knowledge. As every other rapidly changing field, chromatin biology requires clear and straightforward educational strategies able to efficiently translate such a vast body of knowledge to the classroom. With this aim, the present work describes a multidisciplinary computer lab designed to introduce undergraduate students to the dynamic nature of chromatin, within the context of the one semester course "Chromatin: Structure, Function and Evolution." This exercise is organized in three parts including (a) molecular evolutionary biology of histone families (using the H1 family as example), (b) histone structure and variation across different animal groups, and (c) effect of histone diversity on nucleosome structure and chromatin dynamics. By using freely available bioinformatic tools that can be run on common computers, the concept of chromatin dynamics is interactively illustrated from a comparative/evolutionary perspective. At the end of this computer lab, students are able to translate the bioinformatic information into a biochemical context in which the relevance of histone primary structure on chromatin dynamics is exposed. During the last 8 years this exercise has proven to be a powerful approach for teaching chromatin structure and dynamics, allowing students a higher degree of independence during the processes of learning and self-assessment. Copyright © 2013 International Union of Biochemistry and Molecular Biology, Inc.

  5. Dose-related Increased Binding of Nickel to Chromatin Proteins; and Changes to DNA Concentration in the Liver of Guinea Pigs Treated with Nigerian Light Crude Oil

    Directory of Open Access Journals (Sweden)

    Lauretta Idabor

    2007-09-01

    Full Text Available The alteration in nuclear DNA concentration and the concomitant binding of xenobiotics (alkylating agents, heavy metals, etc. to chromatin constituents may adversely affect gene structure and/or function, and thus initiate carcinogenesis. Binding of nickel to chromatin DNA has been reported to cause DNA damage (cross-links, single-strand breaks, and although many soluble nickel compounds and complexes have been shown to bind to chromatin, porphyrin-complexed nickel (PCN in crude oils has not been studied. We have determined the doserelated increases in total and chromatin DNA concentrations, and the differential distribution (binding of PCN (crude oil nickel-CON to chromatin constituents in livers of adult male guinea pigs treated with 1.25, 2.50 and 5.0 ml/kg bw Nigerian Bonny light crude oil (BLCO by intraperitoneal injection. The results showed large BLCO-induced increases in total DNA concentrations of 424%, 632% and 436% at 1.25, 2.50 and 5.0 ml/kg bw BLCO respectively over the untreated controls; while it induced equally large increases in chromatin DNA concentrations of 585% and 200% at 2.50 and 5.0 ml/kg bw respectively. In both cases, maximum increases occurred at 2.50 ml/kg bw BLCO. The distribution of PCN in BLCO between chromatin DNA and chromatin proteins (histones and non-histones showed that at 2.50 and 5.0 ml/kg bw BLCO, nickel content in chromatin DNA reduced by 25% and 12.5% respectively over the controls; while its content in chromatin proteins also reduced by 26%; but increased by 166% at 2.50 and 5.0 ml/kg bw BLCO, respectively over the untreated controls. However, in intra-chromatin comparison, 38.8% more PCN bound to chromatin DNA than to chromatin proteins at 2.50 ml/kg bw; but at 5.0 ml/kg bw BLCO, 90.4% more PCN bound to chromatin proteins than to chromatin DNA. These results show a greater affinity of PCN in BLCO for chromatin proteins over chromatin DNA which may have played a role in the increased DNA concentrations

  6. Ligation-mediated PCR for chromatin-structure analysis of interphase and metaphase chromatin.

    Science.gov (United States)

    Hershkovitz, M; Riggs, A D

    1997-02-01

    Chromatin structure is becoming increasingly recognized as important for a full understanding of gene function and cell memory. With regard to cell memory, which involves the transfer of chromatin-encoded epigenetic information from one cell generation to another, the detailed structure of metaphase chromatin is of crucial importance. In this paper we describe methods for the use of dimethyl sulfate, DNase I, and potassium permanganate for in vivo footprinting and chromatin analysis, with special emphasis on studies of metaphase cells. We review the use of ligation-mediated PCR for the analysis of chromatin, including the human phosphoglycerate kinase promoter, and also report initial studies of a matrix attachment region near the human beta-interferon gene.

  7. Muscle power failure in mobility-limited older adults: preserved single fiber function despite lower whole muscle size, quality and rate of neuromuscular activation.

    Science.gov (United States)

    Reid, Kieran F; Doros, Gheorghe; Clark, David J; Patten, Carolynn; Carabello, Robert J; Cloutier, Gregory J; Phillips, Edward M; Krivickas, Lisa S; Frontera, Walter R; Fielding, Roger A

    2012-06-01

    This study investigated the physiological and gender determinants of the age-related loss of muscle power in 31 healthy middle-aged adults (aged 40-55 years), 28 healthy older adults (70-85 years) and 34 mobility-limited older adults (70-85 years). We hypothesized that leg extensor muscle power would be significantly lower in mobility-limited elders relative to both healthy groups and sought to characterize the physiological mechanisms associated with the reduction of muscle power with aging. Computed tomography was utilized to assess mid-thigh body composition and calculate specific muscle power and strength. Surface electromyography was used to assess rate of neuromuscular activation and muscle biopsies were taken to evaluate single muscle fiber contractile properties. Peak muscle power, strength, muscle cross-sectional area, specific muscle power and rate of neuromuscular activation were significantly lower among mobility-limited elders compared to both healthy groups (P ≤ 0.05). Mobility-limited older participants had greater deposits of intermuscular adipose tissue (P mobility-limited elders relative to both healthy groups. Male gender was associated with greater decrements in peak and specific muscle power among mobility-limited participants. Impairments in the rate of neuromuscular activation and concomitant reductions in muscle quality are important physiological mechanisms contributing to muscle power deficits and mobility limitations. The dissociation between age-related changes at the whole muscle and single fiber level suggest that, even among older adults with overt mobility problems, contractile properties of surviving muscle fibers are preserved in an attempt to maintain overall muscle function.

  8. 10 mJ single-frequency, injection-seeded Q-switched Er:YAG laser pumped by a 1470 nm fiber-coupled LD

    Science.gov (United States)

    Gao, C. Q.; Shi, Y.; Ye, Q.; Wang, S.; Na, Q. X.; Wang, Q.; Gao, M. W.

    2018-02-01

    A 1645 nm injection-seeded Q-switched Er:YAG laser resonantly pumped by a 1470 nm fiber-coupled laser diode is demonstrated with a non-planar ring oscillator as a seed laser to realize the single-frequency operation. The maximum output pulse energy of the laser is 10.1 mJ, corresponding to a pulse width of 205 ns at a repetition rate of 200 Hz. The half-width of the pulse spectrum is 2.44 MHz measured by a heterodyne technique. The fluctuation of the center frequency of the pulsed laser is 1.43 MHz (RMS) in 1 h. To the best of our knowledge, this is highest energy obtained from a single-frequency, injection-seeded Er:YAG laser pumped by a laser diode.

  9. Single pulse two-photon fluorescence lifetime imaging (SP-FLIM) with MHz pixel rate and an all fiber based setup

    Science.gov (United States)

    Eibl, Matthias; Karpf, Sebastian; Hakert, Hubertus; Weng, Daniel; Pfeiffer, Tom; Kolb, Jan Philip; Huber, Robert

    2017-07-01

    Newly developed microscopy methods have the goal to give researches in bio-molecular science a better understanding of processes ongoing on a cellular level. Especially two-photon excited fluorescence (TPEF) microscopy is a readily applied and widespread modality. Compared to one photon fluorescence imaging, it is possible to image not only the surface but also deeper lying structures. Together with fluorescence lifetime imaging (FLIM), which provides information on the chemical composition of a specimen, deeper insights on a molecular level can be gained. However, the need for elaborate light sources for TPEF and speed limitations for FLIM hinder an even wider application. In this contribution, we present a way to overcome this limitations by combining a robust and inexpensive fiber laser for nonlinear excitation with a fast analog digitization method for rapid FLIM imaging. The applied sub nanosecond pulsed laser source is perfectly suited for fiber delivery as typically limiting non-linear effects like self-phase or cross-phase modulation (SPM, XPM) are negligible. Furthermore, compared to the typically applied femtosecond pulses, our longer pulses produce much more fluorescence photons per single shot. In this paper, we show that this higher number of fluorescence photons per pulse combined with a high analog bandwidth detection makes it possible to not only use a single pulse per pixel for TPEF imaging but also to resolve the exponential time decay for FLIM. To evaluate our system, we acquired FLIM images of a dye solution with single exponential behavior to assess the accuracy of our lifetime determination and also FLIM images of a plant stem at a pixel rate of 1 MHz to show the speed performance of our single pulse two-photon FLIM (SP-FLIM) system.

  10. Chromatin proteins: key responders to stress.

    Directory of Open Access Journals (Sweden)

    Karen T Smith

    Full Text Available Environments can be ever-changing and stresses are commonplace. In order for organisms to survive, they need to be able to respond to change and adapt to new conditions. Fortunately, many organisms have systems in place that enable dynamic adaptation to immediate stresses and changes within the environment. Much of this cellular response is coordinated by modulating the structure and accessibility of the genome. In eukaryotic cells, the genome is packaged and rolled up by histone proteins to create a series of DNA/histone core structures known as nucleosomes; these are further condensed into chromatin. The degree and nature of the condensation can in turn determine which genes are transcribed. Histones can be modified chemically by a large number of proteins that are thereby responsible for dynamic changes in gene expression. In this Primer we discuss findings from a study published in this issue of PLoS Biology by Weiner et al. that highlight how chromatin structure and chromatin binding proteins alter transcription in response to environmental changes and stresses. Their study reveals the importance of chromatin in mediating the speed and amplitude of stress responses in cells and suggests that chromatin is a critically important component of the cellular response to stress.

  11. New mitotic regulators released from chromatin

    Directory of Open Access Journals (Sweden)

    Hideki eYokoyama

    2013-12-01

    Full Text Available Faithful action of the mitotic spindle segregates duplicated chromosomes into daughter cells. Perturbations of this process result in chromosome mis-segregation, leading to chromosomal instability and cancer development. Chromosomes are not simply passengers segregated by spindle microtubules but rather play a major active role in spindle assembly. The GTP bound form of the Ran GTPase (RanGTP, produced around chromosomes, locally activates spindle assembly factors. Recent studies have uncovered that chromosomes organize mitosis beyond spindle formation. They distinctly regulate other mitotic events, such as spindle maintenance in anaphase, which is essential for chromosome segregation. Furthermore, the direct function of chromosomes is not only to produce RanGTP but, in addition, to release key mitotic regulators from chromatin. Chromatin-remodeling factors and nuclear pore complex proteins, which have established functions on chromatin in interphase, dissociate from mitotic chromatin and function in spindle assembly or maintenance. Thus, chromosomes actively organize their own segregation using chromatin-releasing mitotic regulators as well as RanGTP.

  12. Neutron-scattering studies of chromatin

    International Nuclear Information System (INIS)

    Bradbury, E.M.; Baldwin, J.P.; Carpenter, B.G.; Hjelm, R.P.; Hancock, R.; Ibel, K.

    1976-01-01

    It is clear that a knowledge of the basic molecular structure of chromatin is a prerequisite for any progress toward an understanding of chromosome organization. With a two-component system, protein and nucleic acid, neutrons have a particularly powerful application to studies of the spatial arrangements of these components because of the ability, by contrast matching with H 2 O-D 2 O mixtures, to obtain neutron-scattering data on the individual components. With this approach it has been shown that the neutron diffraction of chromatin is consistent with a ''beads on a string'' model in which the bead consists of a protein core with DNA coiled on the outside. However, because chromatin is a gel and gives limited structural data, confirmation of such a model requires extension of the neutron studies by deuteration of specific chromatin components and the isolation of chromatin subunits. Although these studies are not complete, the neutron results so far obtained support the subunit model described above

  13. Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes.

    Science.gov (United States)

    Sanborn, Adrian L; Rao, Suhas S P; Huang, Su-Chen; Durand, Neva C; Huntley, Miriam H; Jewett, Andrew I; Bochkov, Ivan D; Chinnappan, Dharmaraj; Cutkosky, Ashok; Li, Jian; Geeting, Kristopher P; Gnirke, Andreas; Melnikov, Alexandre; McKenna, Doug; Stamenova, Elena K; Lander, Eric S; Aiden, Erez Lieberman

    2015-11-24

    We recently used in situ Hi-C to create kilobase-resolution 3D maps of mammalian genomes. Here, we combine these maps with new Hi-C, microscopy, and genome-editing experiments to study the physical structure of chromatin fibers, domains, and loops. We find that the observed contact domains are inconsistent with the equilibrium state for an ordinary condensed polymer. Combining Hi-C data and novel mathematical theorems, we show that contact domains are also not consistent with a fractal globule. Instead, we use physical simulations to study two models of genome folding. In one, intermonomer attraction during polymer condensation leads to formation of an anisotropic "tension globule." In the other, CCCTC-binding factor (CTCF) and cohesin act together to extrude unknotted loops during interphase. Both models are consistent with the observed contact domains and with the observation that contact domains tend to form inside loops. However, the extrusion model explains a far wider array of observations, such as why loops tend not to overlap and why the CTCF-binding motifs at pairs of loop anchors lie in the convergent orientation. Finally, we perform 13 genome-editing experiments examining the effect of altering CTCF-binding sites on chromatin folding. The convergent rule correctly predicts the affected loops in every case. Moreover, the extrusion model accurately predicts in silico the 3D maps resulting from each experiment using only the location of CTCF-binding sites in the WT. Thus, we show that it is possible to disrupt, restore, and move loops and domains using targeted mutations as small as a single base pair.

  14. Chromatin and nucleosome dynamics in DNA damage and repair.

    Science.gov (United States)

    Hauer, Michael H; Gasser, Susan M

    2017-11-15

    Chromatin is organized into higher-order structures that form subcompartments in interphase nuclei. Different categories of specialized enzymes act on chromatin and regulate its compaction and biophysical characteristics in response to physiological conditions. We present an overview of the function of chromatin structure and its dynamic changes in response to genotoxic stress, focusing on both subnuclear organization and the physical mobility of DNA. We review the requirements and mechanisms that cause chromatin relocation, enhanced mobility, and chromatin unfolding as a consequence of genotoxic lesions. An intriguing link has been established recently between enhanced chromatin dynamics and histone loss. © 2017 Hauer and Gasser; Published by Cold Spring Harbor Laboratory Press.

  15. Effect of speed endurance training and reduced training volume on running economy and single muscle fiber adaptations in trained runners.

    Science.gov (United States)

    Skovgaard, Casper; Christiansen, Danny; Christensen, Peter M; Almquist, Nicki W; Thomassen, Martin; Bangsbo, Jens

    2018-02-01

    The aim of the present study was to examine whether improved running economy with a period of speed endurance training and reduced training volume could be related to adaptations in specific muscle fibers. Twenty trained male (n = 14) and female (n = 6) runners (maximum oxygen consumption (VO 2 -max): 56.4 ± 4.6 mL/min/kg) completed a 40-day intervention with 10 sessions of speed endurance training (5-10 × 30-sec maximal running) and a reduced (36%) volume of training. Before and after the intervention, a muscle biopsy was obtained at rest, and an incremental running test to exhaustion was performed. In addition, running at 60% vVO 2 -max, and a 10-km run was performed in a normal and a muscle slow twitch (ST) glycogen-depleted condition. After compared to before the intervention, expression of mitochondrial uncoupling protein 3 (UCP3) was lower (P < 0.05) and dystrophin was higher (P < 0.05) in ST muscle fibers, and sarcoplasmic reticulum calcium ATPase 1 (SERCA1) was lower (P < 0.05) in fast twitch muscle fibers. Running economy at 60% vVO 2 -max (11.6 ± 0.2 km/h) and at v10-km (13.7 ± 0.3 km/h) was ~2% better (P < 0.05) after the intervention in the normal condition, but unchanged in the ST glycogen-depleted condition. Ten kilometer performance was improved (P < 0.01) by 3.2% (43.7 ± 1.0 vs. 45.2 ± 1.2 min) and 3.9% (45.8 ± 1.2 vs. 47.7 ± 1.3 min) in the normal and the ST glycogen-depleted condition, respectively. VO 2 -max was the same, but vVO 2 -max was 2.0% higher (P < 0.05; 19.3 ± 0.3 vs. 18.9 ± 0.3 km/h) after than before the intervention. Thus, improved running economy with intense training may be related to changes in expression of proteins linked to energy consuming processes in primarily ST muscle fibers. © 2018 The Authors. Physiological Reports published by Wiley Periodicals, Inc. on behalf of The Physiological Society and the American Physiological Society.

  16. Autism genes keep turning up chromatin.

    Science.gov (United States)

    Lasalle, Janine M

    2013-06-19

    Autism-spectrum disorders (ASD) are complex genetic disorders collectively characterized by impaired social interactions and language as well as repetitive and restrictive behaviors. Of the hundreds of genes implicated in ASD, those encoding proteins acting at neuronal synapses have been most characterized by candidate gene studies. However, recent unbiased genome-wide analyses have turned up a multitude of novel candidate genes encoding nuclear factors implicated in chromatin remodeling, histone demethylation, histone variants, and the recognition of DNA methylation. Furthermore, the chromatin landscape of the human genome has been shown to influence the location of de novo mutations observed in ASD as well as the landscape of DNA methylation underlying neurodevelopmental and synaptic processes. Understanding the interactions of nuclear chromatin proteins and DNA with signal transduction pathways and environmental influences in the developing brain will be critical to understanding the relevance of these ASD candidate genes and continued uncovering of the "roots" of autism etiology.

  17. The dynamics of chromatin remodeling at promoters.

    Science.gov (United States)

    Mellor, Jane

    2005-07-22

    The nucleosome, the structural unit of chromatin, is known to play a central role in regulating gene transcription from promoters. The last seven years have spawned a vast amount of data on the enzymes that remodel and modify nucleosomes and the rules governing how transcription factors interact with the epigenetic code on histones. Yet despite this effort, there has yet to emerge a unifying mechanism by which nucleosomes are remodeled during gene regulation. Recent advances have allowed nucleosome dynamics on promoters to be studied in real time, dramatically changing how we think about gene regulation on chromatin templates.

  18. Dynamics of Histone Tails within Chromatin

    Science.gov (United States)

    Bernier, Morgan; North, Justin; Page, Michael; Jaroniec, Christopher; Hammel, Christopher; Poirier, Michael

    2012-02-01

    Genetic information in humans is encoded within DNA molecules that is wrapped around histone octamer proteins and compacted into a highly conserved structural polymer, chromatin. The physical and material properties of chromatin appear to influence gene expression by altering the accessibility of proteins to the DNA. The tails of the histones are flexible domains that are thought to play a role in regulating DNA accessibility and compaction; however the molecular mechanisms for these phenomena are not understood. I will present CW-EPR studies on site directed spin labeled nucleosomes that probe the structure and dynamics of these histone tails within nucleosomes.

  19. Myosin content of single muscle fibers following short-term disuse and active recovery in young and old healthy men

    DEFF Research Database (Denmark)

    Hvid, Lars G; Brocca, Lorenza; Ørtenblad, Niels

    2017-01-01

    Short-term disuse and subsequent recovery affect whole muscle and single myofiber contractile function in young and old. While the loss and recovery of single myofiber specific force (SF) following disuse and rehabilitation has been shown to correlate with alterations in myosin concentrations...

  20. Proteome Characterization of a Chromatin Locus Using the Proteomics of Isolated Chromatin Segments Approach.

    Science.gov (United States)

    Kan, Sophie L; Saksouk, Nehmé; Déjardin, Jérome

    2017-01-01

    The biological functions of given genomic regions are ruled by the local chromatin composition. The Proteomics of Isolated Chromatin segments approach (PICh) is a powerful and unbiased method to analyze the composition of chosen chromatin segments, provided they are abundant (repeated) or that the organism studied has a small genome. PICh can be used to identify novel and unexpected regulatory factors, or when combined with quantitative mass spectrometric approaches, to characterize the function of a defined factor at the chosen locus, by quantifying composition changes at the locus upon removal/addition of that factor.

  1. The use of nylon and glass fiber filter separators with different pore sizes in air-cathode single-chamber microbial fuel cells

    KAUST Repository

    Zhang, Xiaoyuan

    2010-01-01

    Separators are needed in microbial fuel cells (MFCs) to reduce electrode spacing and preventing electrode short circuiting. The use of nylon and glass fiber filter separators in single-chamber, air-cathode MFCs was examined for their effect on performance. Larger pore nylon mesh were used that had regular mesh weaves with pores ranging from 10 to 160 μm, while smaller pore-size nylon filters (0.2-0.45 μm) and glass fiber filters (0.7-2.0 μm) had a more random structure. The pore size of both types of nylon filters had a direct and predictable effect on power production, with power increasing from 443 ± 27 to 650 ± 7 mW m-2 for pore sizes of 0.2 and 0.45 μm, and from 769 ± 65 to 941 ± 47 mW m-2 for 10 to 160 μm. In contrast, changes in pore sizes of the glass fiber filters resulted in a relatively narrow change in power (732 ± 48 to 779 ± 43 mW m-2) for pore sizes of 0.7 to 2 μm. An ideal separator should increase both power density and Coulombic efficiency (CE). However, CEs measured for the different separators were inversely correlated with power production, demonstrating that materials which reduced the oxygen diffusion into the reactor also hindered proton transport to the cathode, reducing power production through increased internal resistance. Our results highlight the need to develop separators that control oxygen transfer and facilitate proton transfer to the cathode. © 2010 The Royal Society of Chemistry.

  2. Single molecule fluorescence image patterns linked to dipole orientation and axial position: application to myosin cross-bridges in muscle fibers.

    Directory of Open Access Journals (Sweden)

    Thomas P Burghardt

    2011-02-01

    Full Text Available Photoactivatable fluorescent probes developed specifically for single molecule detection extend advantages of single molecule imaging to high probe density regions of cells and tissues. They perform in the native biomolecule environment and have been used to detect both probe position and orientation.Fluorescence emission from a single photoactivated probe captured in an oil immersion, high numerical aperture objective, produces a spatial pattern on the detector that is a linear combination of 6 independent and distinct spatial basis patterns with weighting coefficients specifying emission dipole orientation. Basis patterns are tabulated for single photoactivated probes labeling myosin cross-bridges in a permeabilized muscle fiber undergoing total internal reflection illumination. Emitter proximity to the glass/aqueous interface at the coverslip implies the dipole near-field and dipole power normalization are significant affecters of the basis patterns. Other characteristics of the basis patterns are contributed by field polarization rotation with transmission through the microscope optics and refraction by the filter set. Pattern recognition utilized the generalized linear model, maximum likelihood fitting, for Poisson distributed uncertainties. This fitting method is more appropriate for treating low signal level photon counting data than χ(2 minimization.Results indicate that emission dipole orientation is measurable from the intensity image except for the ambiguity under dipole inversion. The advantage over an alternative method comparing two measured polarized emission intensities using an analyzing polarizer is that information in the intensity spatial distribution provides more constraints on fitted parameters and a single image provides all the information needed. Axial distance dependence in the emission pattern is also exploited to measure relative probe position near focus. Single molecule images from axial scanning fitted

  3. Fragmentation of chromatin DNA in mouse thymus cells after whole body γ-irradiation

    International Nuclear Information System (INIS)

    Wei Kang; Liu Xueying; Zhu Xuefen

    1984-01-01

    The characteristics of soluble chromatin in mouse thymus nuclei after whole body γ-irradiation were investigated by means of polyacrylamide gel electrophoresis. After deproteinization and electrophoresis eight regular DNA bands were revealed. The molecular weights of these bands were estimated by comparing their migration rates with those of the standard fragments obtained from PBR 322 digested completely by restrictive endonuclease Hae III. The molecular weight of the first band was calculated to be 186 base pairs corresponding approximately to the size of DNA fragment from a single nucleosome, and those of other bands appeared to be its multiples. The results suggested that the disintegration of chromatin DNA after γ-irradiation might have occurred at the linkage regions of chromatin. The autolysis product of normal thymus chromatin under sterile condition were also analyzed and its electrophoretic pattern was found to be just the same as that of the postirradiation product. It seems, therefore, that the endonuclease existing in normal tissues might be responsible for the postirradiation chromatin degradation. The mechanism of this kind of enzymatic digestion remains to be elucidated in further investigation. (author)

  4. Variability in Chromatin Architecture and Associated DNA Repair at Genomic Positions Containing Somatic Mutations.

    Science.gov (United States)

    Lim, Byungho; Mun, Jihyeob; Kim, Yong Sung; Kim, Seon-Young

    2017-06-01

    Dynamic chromatin structures result in differential chemical reactivity to mutational processes throughout the genome. To identify chromatin features responsible for mutagenesis, we compared chromatin architecture around single-nucleotide variants (SNV), insertion/deletions (indels), and their context-matched, nonmutated positions. We found epigenetic differences between genomic regions containing missense SNVs and those containing frameshift indels across multiple cancer types. Levels of active histone marks were higher around frameshift indels than around missense SNV, whereas repressive histone marks exhibited the reverse trend. Accumulation of repressive histone marks and nucleosomes distinguished mutated positions (both SNV and indels) from the context-matched, nonmutated positions, whereas active marks were associated with substitution- and cancer type-specific mutagenesis. We also explained mutagenesis based on genome maintenance mechanisms, including nucleotide excision repair (NER), mismatch repair (MMR), and DNA polymerase epsilon (POLE). Regional NER variation correlated strongly with chromatin features; NER machineries exhibited shifted or depleted binding around SNV, resulting in decreased NER at mutation positions, especially at sites of recurrent mutations. MMR-deficient tumors selectively acquired SNV in regions with high active histone marks, especially H3K36me3, whereas POLE-deficient tumors selectively acquired indels and SNV in regions with low active histone marks. These findings demonstrate the importance of fine-scaled chromatin structures and associated DNA repair mechanisms in mutagenesis. Cancer Res; 77(11); 2822-33. ©2017 AACR . ©2017 American Association for Cancer Research.

  5. The Impact of Chromatin Dynamics on Cas9-Mediated Genome Editing in Human Cells.

    Science.gov (United States)

    Daer, René M; Cutts, Josh P; Brafman, David A; Haynes, Karmella A

    2017-03-17

    In order to efficiently edit eukaryotic genomes, it is critical to test the impact of chromatin dynamics on CRISPR/Cas9 function and develop strategies to adapt the system to eukaryotic contexts. So far, research has extensively characterized the relationship between the CRISPR endonuclease Cas9 and the composition of the RNA-DNA duplex that mediates the system's precision. Evidence suggests that chromatin modifications and DNA packaging can block eukaryotic genome editing by custom-built DNA endonucleases like Cas9; however, the underlying mechanism of Cas9 inhibition is unclear. Here, we demonstrate that closed, gene-silencing-associated chromatin is a mechanism for the interference of Cas9-mediated DNA editing. Our assays use a transgenic cell line with a drug-inducible switch to control chromatin states (open and closed) at a single genomic locus. We show that closed chromatin inhibits binding and editing at specific target sites and that artificial reversal of the silenced state restores editing efficiency. These results provide new insights to improve Cas9-mediated editing in human and other mammalian cells.

  6. Chromatin and RNA Maps Reveal Regulatory Long Noncoding RNAs in Mouse.

    Science.gov (United States)

    Bogu, Gireesh K; Vizán, Pedro; Stanton, Lawrence W; Beato, Miguel; Di Croce, Luciano; Marti-Renom, Marc A

    2015-12-28

    Discovering and classifying long noncoding RNAs (lncRNAs) across all mammalian tissues and cell lines remains a major challenge. Previously, mouse lncRNAs were identified using transcriptome sequencing (RNA-seq) data from a limited number of tissues or cell lines. Additionally, associating a few hundred lncRNA promoters with chromatin states in a single mouse cell line has identified two classes of chromatin-associated lncRNA. However, the discovery and classification of lncRNAs is still pending in many other tissues in mouse. To address this, we built a comprehensive catalog of lncRNAs by combining known lncRNAs with high-confidence novel lncRNAs identified by mapping and de novo assembling billions of RNA-seq reads from eight tissues and a primary cell line in mouse. Next, we integrated this catalog of lncRNAs with multiple genome-wide chromatin state maps and found two different classes of chromatin state-associated lncRNAs, including promoter-associated (plncRNAs) and enhancer-associated (elncRNAs) lncRNAs, across various tissues. Experimental knockdown of an elncRNA resulted in the downregulation of the neighboring protein-coding Kdm8 gene, encoding a histone demethylase. Our findings provide 2,803 novel lncRNAs and a comprehensive catalog of chromatin-associated lncRNAs across different tissues in mouse. Copyright © 2016, American Society for Microbiology. All Rights Reserved.

  7. Classical and Nonclassical Estrogen Receptor Action on Chromatin Templates

    National Research Council Canada - National Science Library

    Nordeen, Steven

    2000-01-01

    .... Using newly-developed approaches, I investigated mechanisms of estrogen/estrogen receptor action on chromatin templates in vitro in order to better understand the role of chromatin in steroid-regulated gene expression...

  8. Chromatin Repressive Complexes in Stem Cells, Development, and Cancer

    DEFF Research Database (Denmark)

    Laugesen, Anne; Helin, Kristian

    2014-01-01

    The chromatin environment is essential for the correct specification and preservation of cell identity through modulation and maintenance of transcription patterns. Many chromatin regulators are required for development, stem cell maintenance, and differentiation. Here, we review the roles...

  9. Classical and Nonclassical Estrogen Receptor Action on Chromatin Templaces

    National Research Council Canada - National Science Library

    Nordeen, Steve

    2001-01-01

    .... Using newly-developed approaches, I investigated mechanisms of estrogen/estrogen receptor action on chromatin templates in vitro in order to better understand the role of chromatin in steroid-regulated gene expression...

  10. Dietary Fiber

    Science.gov (United States)

    ... label as soluble fiber or insoluble fiber. Both types have important health benefits. Good sources of dietary fiber include Whole grains Nuts and seeds Fruit and vegetables Dietary fiber adds bulk to ...

  11. Analysis of Signal-to-Crosstalk Ratio Variations due to Four-Wave Mixing in Dense Wavelength Division Multiplexing Systems Implemented with Standard Single-Mode Fibers

    Directory of Open Access Journals (Sweden)

    Sait Eser KARLIK

    2016-10-01

    Full Text Available In this paper, variation of the signal-to-crosstalk ratio (SXR due to effects of four-wave mixing (FWM has been analyzed on center channels of 5-, 7-, 9-channel dense wavelength division multiplexing (DWDM systems implemented with G.652 standard single-mode fibers (SSMFs for 12.5 GHz, 25 GHz, 50 GHz and 100 GHz equal channel spacing values. Center channels on such systems are the most severely impacted channels by FWM. Therefore, results obtained are the worst-case values for the DWDM system performance and important for system design. Simulations have been performed for systems using three different commercially available SMFs having different design parameter values for chromatic dispersion, dispersion slope, nonlinearity coefficient and attenuation coefficient which are all in the scope of the G.652 Recommendation of Telecommunication Standardization Sector of International Telecommunication Union (ITU-T for SSMFs. In those simulations, under the impact of FWM, variation of SXR with variations in input powers, channel spacings and link lengths have been observed. Simulation results display the combined effect of the optical fiber and system design parameters on FWM performance of DWDM systems and give important clues for not only long-haul but also access network implementations of DWDM systems.

  12. Fiber Lasers V

    DEFF Research Database (Denmark)

    Hansen, Kim P.; Olausson, Christina Bjarnal Thulin; Broeng, Jes

    2008-01-01

    High-power fiber lasers and amplifiers have gained tremendous momentum in the last five years, and many of the traditional manufactures of gas and solid-state lasers are pursuing the attractive fiber-based systems, which are now displacing the old technology in many areas. High-power fiber laser...... systems require specially designed fibers with large cores and good power handling capabilities – requirements that are all met by the airclad fiber technology. In the present paper we go through many of the building blocks needed to build high-power systems and we show an example of a complete airclad...... laser system. We present the latest advancements within airclad fiber technology including a new 70 μm single-mode polarization-maintaining rod-type fiber capable of amplifying to MW power levels. Furthermore we describe the novel airclad based pump combiners and their use in a completely monolithic 350...

  13. Airclad fiber laser technology

    DEFF Research Database (Denmark)

    Hansen, Kim P.; Olausson, Christina Bjarnal Thulin; Broeng, Jes

    2008-01-01

    High-power fiber lasers and amplifiers have gained tremendous momentum in the last five years, and many of the traditional manufactures of gas and solid-state lasers are pursuing the attractive fiber-based systems, which are now displacing the old technology in many areas. High-power fiber laser...... systems require specially designed fibers with large cores and good power handling capabilities - requirements that are all met by the airclad fiber technology. In the present paper we go through many of the building blocks needed to build high-power systems and we show an example of a complete airclad...... laser system. We present the latest advancements within airclad fiber technology including a new 70 μm single-mode polarization-maintaining rod-type fiber capable of amplifying to MW power levels. Furthermore we describe the novel airclad based pump combiners and their use in a completely monolithic 350...

  14. Study on Mechanical Properties of Hybrid Fiber Reinforced Concrete

    Science.gov (United States)

    He, Dongqing; Wu, Min; Jie, Pengyu

    2017-12-01

    Several common high elastic modulus fibers (steel fibers, basalt fibers, polyvinyl alcohol fibers) and low elastic modulus fibers (polypropylene fiber) are incorporated into the concrete, and its cube compressive strength, splitting tensile strength and flexural strength are studied. The test result and analysis demonstrate that single fiber and hybrid fiber will improve the integrity of the concrete at failure. The mechanical properties of hybrid steel fiber-polypropylene fiber reinforced concrete are excellent, and the cube compressive strength, splitting tensile strength and flexural strength respectively increase than plain concrete by 6.4%, 3.7%, 11.4%. Doped single basalt fiber or polypropylene fiber and basalt fibers hybrid has little effect on the mechanical properties of concrete. Polyvinyl alcohol fiber and polypropylene fiber hybrid exhibit ‘negative confounding effect’ on concrete, its splitting tensile and flexural strength respectively are reduced by 17.8% and 12.9% than the single-doped polyvinyl alcohol fiber concrete.

  15. Chromatin conformation capture strategies in molecular diagnostics

    NARCIS (Netherlands)

    de Vree, Pauline J.P.

    2015-01-01

    In this thesis I have explored the clinical potential of the 4C-technology and worked on development of a novel chromatin conformation capture based technology, called TLA. In chapter 2 I describe how the 4C-technology can be applied as a targeted strategy to identify putative fusion-genes or

  16. Keystone Symposia on Epigenomics and Chromatin Dynamics

    DEFF Research Database (Denmark)

    Ravnskjær, Kim

    2012-01-01

    Keystone Symposia kicked off the start of 2012 with two joint meetings on Epigenomics and Chromatin Dynamics and a star-studded list of speakers. Held in Keystone, CO, January 17-22, and organized by Steven Jacobsen and Steven Henikoff and by Bradley Cairns and Geneviève Almouzni, respectively...

  17. EBV Latency Types Adopt Alternative Chromatin Conformations

    Science.gov (United States)

    Tempera, Italo; Klichinsky, Michael; Lieberman, Paul M.

    2011-01-01

    Epstein-Barr Virus (EBV) can establish latent infections with distinct gene expression patterns referred to as latency types. These different latency types are epigenetically stable and correspond to different promoter utilization. Here we explore the three-dimensional conformations of the EBV genome in different latency types. We employed Chromosome Conformation Capture (3C) assay to investigate chromatin loop formation between the OriP enhancer and the promoters that determine type I (Qp) or type III (Cp) gene expression. We show that OriP is in close physical proximity to Qp in type I latency, and to Cp in type III latency. The cellular chromatin insulator and boundary factor CTCF was implicated in EBV chromatin loop formation. Combining 3C and ChIP assays we found that CTCF is physically associated with OriP-Qp loop formation in type I and OriP-Cp loop formation in type III latency. Mutations in the CTCF binding site located at Qp disrupt loop formation between Qp and OriP, and lead to the activation of Cp transcription. Mutation of the CTCF binding site at Cp, as well as siRNA depletion of CTCF eliminates both OriP-associated loops, indicating that CTCF plays an integral role in loop formation. These data indicate that epigenetically stable EBV latency types adopt distinct chromatin architectures that depend on CTCF and mediate alternative promoter targeting by the OriP enhancer. PMID:21829357

  18. EBV latency types adopt alternative chromatin conformations.

    Directory of Open Access Journals (Sweden)

    Italo Tempera

    2011-07-01

    Full Text Available Epstein-Barr Virus (EBV can establish latent infections with distinct gene expression patterns referred to as latency types. These different latency types are epigenetically stable and correspond to different promoter utilization. Here we explore the three-dimensional conformations of the EBV genome in different latency types. We employed Chromosome Conformation Capture (3C assay to investigate chromatin loop formation between the OriP enhancer and the promoters that determine type I (Qp or type III (Cp gene expression. We show that OriP is in close physical proximity to Qp in type I latency, and to Cp in type III latency. The cellular chromatin insulator and boundary factor CTCF was implicated in EBV chromatin loop formation. Combining 3C and ChIP assays we found that CTCF is physically associated with OriP-Qp loop formation in type I and OriP-Cp loop formation in type III latency. Mutations in the CTCF binding site located at Qp disrupt loop formation between Qp and OriP, and lead to the activation of Cp transcription. Mutation of the CTCF binding site at Cp, as well as siRNA depletion of CTCF eliminates both OriP-associated loops, indicating that CTCF plays an integral role in loop formation. These data indicate that epigenetically stable EBV latency types adopt distinct chromatin architectures that depend on CTCF and mediate alternative promoter targeting by the OriP enhancer.

  19. Chromatin proteins and modifications as drug targets

    DEFF Research Database (Denmark)

    Helin, Kristian; Dhanak, Dashyant

    2013-01-01

    is a frequent event in disease, and the first epigenetic-based therapies for cancer treatment have been approved. A generation of new classes of potent and specific inhibitors for several chromatin-associated proteins have shown promise in preclinical trials. Although the biology of epigenetic regulation...

  20. Chromatin remodeling effects on enhancer activity.

    Science.gov (United States)

    García-González, Estela; Escamilla-Del-Arenal, Martín; Arzate-Mejía, Rodrigo; Recillas-Targa, Félix

    2016-08-01

    During organism development, a diversity of cell types emerges with disparate, yet stable profiles of gene expression with distinctive cellular functions. In addition to gene promoters, the genome contains enhancer regulatory sequences, which are implicated in cellular specialization by facilitating cell-type and tissue-specific gene expression. Enhancers are DNA binding elements characterized by highly sophisticated and various mechanisms of action allowing for the specific interaction of general and tissue-specific transcription factors (TFs). However, eukaryotic organisms package their genetic material into chromatin, generating a physical barrier for TFs to interact with their cognate sequences. The ability of TFs to bind DNA regulatory elements is also modulated by changes in the chromatin structure, including histone modifications, histone variants, ATP-dependent chromatin remodeling, and the methylation status of DNA. Furthermore, it has recently been revealed that enhancer sequences are also transcribed into a set of enhancer RNAs with regulatory potential. These interdependent processes act in the context of a complex network of chromatin interactions, which together contributes to a renewed vision of how gene activation is coordinated in a cell-type-dependent manner. In this review, we describe the interplay between genetic and epigenetic aspects associated with enhancers and discuss their possible roles on enhancer function.

  1. The Chromatin Scaffold Protein SAFB1 Renders Chromatin Permissive for DNA Damage Signaling

    DEFF Research Database (Denmark)

    Altmeyer, Matthias; Toledo Lazaro, Luis Ignacio; Gudjonsson, Thorkell

    2013-01-01

    the chromatin-associated scaffold attachment factor SAFB1 as a component of the DNA damage response and show that SAFB1 cooperates with histone acetylation to allow for efficient γH2AX spreading and genotoxic stress signaling. SAFB1 undergoes a highly dynamic exchange at damaged chromatin in a poly......Although the general relevance of chromatin modifications for genotoxic stress signaling, cell-cycle checkpoint activation, and DNA repair is well established, how these modifications reach initial thresholds in order to trigger robust responses remains largely unexplored. Here, we identify...... barriers by making chromatin permissive for DNA damage signaling, whereas the ensuing exclusion of SAFB1 may help prevent excessive signaling....

  2. VCSEL Transmission at 10 Gb/s for 20 km Single Mode Fiber WDM-PON without Dispersion Compensation or Injection Locking

    DEFF Research Database (Denmark)

    Gibbon, Timothy Braidwood; Prince, Kamau; Pham, Tien Thang

    2011-01-01

    how off-center wavelength filtering of the VCSEL spectrum at an array waveguide grating can be used to mitigate the effect of chirp and the dispersion penalty. Transmission at 10Gb/s VCSEL over 23.6 km of single mode fiber is experimentally demonstrated, with a dispersion penalty of only 2.9 d......B. Simulated results are also presented which show that off-center wavelength filtering can extend the 10 Gb/s network reach from 11.7 km to 25.8 km for a 4 dB dispersion penalty. This allows for cheap and simple dispersion mitigation in next generation VCSEL based optical access networks....

  3. Fiber webs

    Science.gov (United States)

    Roger M. Rowell; James S. Han; Von L. Byrd

    2005-01-01

    Wood fibers can be used to produce a wide variety of low-density three-dimensional webs, mats, and fiber-molded products. Short wood fibers blended with long fibers can be formed into flexible fiber mats, which can be made by physical entanglement, nonwoven needling, or thermoplastic fiber melt matrix technologies. The most common types of flexible mats are carded, air...

  4. Chromatin Dynamics of the mouse β-globin locus

    NARCIS (Netherlands)

    M.P.C. van de Corput (Mariëtte); E. de Boer (Ernie); T.A. Knoch (Tobias); W.A. van Cappellen (Gert); M. Lesnussa (Michael); H.J.F.M.M. Eussen (Bert)

    2010-01-01

    textabstractLately it has become more clear that (subtle) changes in 3D organization of chromatin can either trigger transcription or silence genes or gene clusters. It has also been postulated that due to changes in chromatin structure, a change in chromatin accessibility of transcription factors

  5. Dynamic reorganization of open chromatin underlies diverse transcriptomes during spermatogenesis

    Science.gov (United States)

    Maezawa, So; Yukawa, Masashi; Alavattam, Kris G; Barski, Artem

    2018-01-01

    Abstract During spermatogenesis, germ cells undergo massive cellular reconstruction and dynamic chromatin remodeling to facilitate highly diverse transcriptomes, which are required for the production of functional sperm. However, it remains unknown how germline chromatin is organized to promote the dynamic, complex transcriptomes of spermatogenesis. Here, using ATAC-seq, we establish the varied landscape of open chromatin during spermatogenesis. We identify the reorganization of accessible chromatin in intergenic and intronic regions during the mitosis-to-meiosis transition. During the transition, mitotic-type open chromatin is closed while the de novo formation of meiotic-type open chromatin takes place. Contrastingly, differentiation processes such as spermatogonial differentiation and the meiosis-to-postmeiosis transition involve chromatin closure without the de novo formation of accessible chromatin. In spermiogenesis, the germline-specific Polycomb protein SCML2 promotes the closure of open chromatin at autosomes for gene suppression. Paradoxically, we identify the massive de novo formation of accessible chromatin when the sex chromosomes undergo meiotic sex chromosome inactivation, and this is also mediated by SCML2. These results reveal meiotic sex chromosome inactivation as an active process for chromatin organization. Together, our results unravel the genome-wide, dynamic reorganization of open chromatin and reveal mechanisms that underlie diverse transcriptomes during spermatogenesis. PMID:29126117

  6. DNA breaks and repair in interstitial telomere sequences: Influence of chromatin structure

    International Nuclear Information System (INIS)

    Revaud, D.

    2009-06-01

    Interstitial Telomeric Sequences (ITS) are over-involved in spontaneous and radiationinduced chromosome aberrations in chinese hamster cells. We have performed a study to investigate the origin of their instability, spontaneously or after low doses irradiation. Our results demonstrate that ITS have a particular chromatin structure: short nucleotide repeat length, less compaction of the 30 nm chromatin fiber, presence of G-quadruplex structures. These features would modulate breaks production and would favour the recruitment of alternative DNA repair mechanisms, which are prone to produce chromosome aberrations. These pathways could be at the origin of chromosome aberrations in ITS whereas NHEJ and HR Double Strand Break repair pathways are rather required for a correct repair in these regions. (author)

  7. Genome-wide overlap in the binding location and function of chromatin-remodeling proteins | Center for Cancer Research

    Science.gov (United States)

    A single strand of DNA can stretch several meters. Yet dozens of these strands, which can be one-tenth as thin as a human hair, need to fit into the cell’s nucleus. To pack those strands into such a small space, DNA tightly winds itself around histone proteins, forming nucleosomes that are strung together into complexes called chromatin. Beyond efficiently packaging DNA, chromatin also regulates how and when DNA is used. The condensed coiling of the genome makes it inaccessible to proteins such as RNA polymerases and transcription factors that control the expression of specific genes. For DNA to become accessible local chromatin regions need to be “opened” up. This process is called chromatin remodeling, and involves the ATP-dependent removal, ejection, or restructuring of nucleosomes by large, multiprotein enzymes.

  8. CTCF and CohesinSA-1 Mark Active Promoters and Boundaries of Repressive Chromatin Domains in Primary Human Erythroid Cells.

    Directory of Open Access Journals (Sweden)

    Laurie A Steiner

    Full Text Available CTCF and cohesinSA-1 are regulatory proteins involved in a number of critical cellular processes including transcription, maintenance of chromatin domain architecture, and insulator function. To assess changes in the CTCF and cohesinSA-1 interactomes during erythropoiesis, chromatin immunoprecipitation coupled with high throughput sequencing and mRNA transcriptome analyses via RNA-seq were performed in primary human hematopoietic stem and progenitor cells (HSPC and primary human erythroid cells from single donors.Sites of CTCF and cohesinSA-1 co-occupancy were enriched in gene promoters in HSPC and erythroid cells compared to single CTCF or cohesin sites. Cell type-specific CTCF sites in erythroid cells were linked to highly expressed genes, with the opposite pattern observed in HSPCs. Chromatin domains were identified by ChIP-seq with antibodies against trimethylated lysine 27 histone H3, a modification associated with repressive chromatin. Repressive chromatin domains increased in both number and size during hematopoiesis, with many more repressive domains in erythroid cells than HSPCs. CTCF and cohesinSA-1 marked the boundaries of these repressive chromatin domains in a cell-type specific manner.These genome wide data, changes in sites of protein occupancy, chromatin architecture, and related gene expression, support the hypothesis that CTCF and cohesinSA-1 have multiple roles in the regulation of gene expression during erythropoiesis including transcriptional regulation at gene promoters and maintenance of chromatin architecture. These data from primary human erythroid cells provide a resource for studies of normal and perturbed erythropoiesis.

  9. Sequence-specific packaging of DNA in human sperm chromatin

    Energy Technology Data Exchange (ETDEWEB)

    Gatewood, J.M.; Cook, G.R.; Balhorn, R.; Bradbury, E.M.; Schmid, C.W.

    1987-05-22

    The DNA in human sperm chromatin is packaged into nucleoprotamine (approx.85%) and nucleohistone (approx.15%). Whether these two chromatin fractions are sequence-specific subsets of the spermatozoon genome is the question addressed in this report. Sequence-specific packaging would suggest distinct structural and functional roles for nucleohistone and nucleoprotamine in late spermatogenesis or early development or both. After removal of histones with 0.65 M NaCl, exposed DNA was cleaved with Bam HI restriction endonuclease and separated by centrifugation from insoluble nucleoprotamine. The DNA sequence distribution of nucleohistone DNA in the supernatant and nucleoprotamine DNA in the pellet was compared by cloning size-selected single-copy sequences and by using the derived clones as probes of nucleohistone DNA and nucleoprotamine DNA. Two clones derived from nucleohistone DNA preferentially hybridized to nucleohistone DNA, and two clones derived from nucleoprotamine DNA preferentially hybridized to nucleoprotamine DNA, which demonstrated the existence of sequence-specific nucleohistone and nucleoprotamine components within the human spermatozoon.

  10. Chromatin conformation of the H19 epigenetic mark.

    Science.gov (United States)

    Hark, A T; Tilghman, S M

    1998-11-01

    Genomic imprinting in mammals is an epigenetic process that results in differential expression of the two parental alleles. The tightly linked murine H19 and Igf2 genes are reciprocally imprinted: H19 is expressed from the maternal chromosome while Igf2 is expressed from the paternal chromosome. A single regulatory region in the 5' flank of the H19 gene has been implicated in silencing both genes. On the paternal chromosome, this region is heavily methylated at CpG residues, leading to repression of the H19 gene. The mechanism by which the same region in an unmethylated state on the maternal chromosome silences Igf2 is less well understood. We have probed the chromatin structure of the region by assessing its sensitivity to nuclease digestion. Two regions of nuclease hypersensitivity that are specific to the maternal chromosome were identified. These coincide with the region that is most heavily methylated on the paternal chromosome. As is the case with paternal methylation, hypersensitivity is present in all tissues surveyed, irrespective of H19 expression. We suggest that the chromatin structure of the maternal 5' flank of the H19 gene may represent an epigenetic mark involved in the silencing of Igf2.

  11. Quantification of chromatin condensation level by image processing.

    Science.gov (United States)

    Irianto, Jerome; Lee, David A; Knight, Martin M

    2014-03-01

    The level of chromatin condensation is related to the silencing/activation of chromosomal territories and therefore impacts on gene expression. Chromatin condensation changes during cell cycle, progression and differentiation, and is influenced by various physicochemical and epigenetic factors. This study describes a validated experimental technique to quantify chromatin condensation. A novel image processing procedure is developed using Sobel edge detection to quantify the level of chromatin condensation from nuclei images taken by confocal microscopy. The algorithm was developed in MATLAB and used to quantify different levels of chromatin condensation in chondrocyte nuclei achieved through alteration in osmotic pressure. The resulting chromatin condensation parameter (CCP) is in good agreement with independent multi-observer qualitative visual assessment. This image processing technique thereby provides a validated unbiased parameter for rapid and highly reproducible quantification of the level of chromatin condensation. Copyright © 2013 IPEM. Published by Elsevier Ltd. All rights reserved.

  12. Advance chromatin extraction improves capture performance of protein A affinity chromatography.

    Science.gov (United States)

    Nian, Rui; Zhang, Wei; Tan, Lihan; Lee, Jeremy; Bi, Xeuzhi; Yang, Yuansheng; Gan, Hui Theng; Gagnon, Pete

    2016-01-29

    Practical effects of advance chromatin removal on performance of protein A affinity chromatography were evaluated using a caprylic acid-allantoin-based extraction method. Lacking this treatment, the practice of increasing loading residence time to increase capacity was shown to increase host protein contamination of the eluted IgG. Advance chromatin extraction suspended that compromise. Protein A ligand leakage from columns loaded with chromatin-extracted harvest was half the level observed on protein A columns loaded with non-extracted harvest. Columns loaded with chromatin-extracted harvest were cleaned more effectively by 50-100mM NaOH than columns loaded with non-extracted harvest that were cleaned with 250-500mM NaOH. Two protein A media with IgG capacities in excess of 50g/L were loaded with chromatin-extracted harvest, washed with 2.0M NaCl before elution, and the eluted IgG fraction titrated to pH 5.5 before microfiltration. Host protein contamination in the filtrate was reduced to protein A leakage to 0.5ppm, and aggregates to 1.0%. Caprylic acid and allantoin were both reduced below 5ppm. Step recovery of IgG was 99.4%. Addition of a single polishing step reduced residual protein A beneath the level of detection and aggregates to <0.1%. Overall process recovery including chromatin extraction was 90%. Copyright © 2015 The Authors. Published by Elsevier B.V. All rights reserved.

  13. Replicating chromatin: a tale of histones

    DEFF Research Database (Denmark)

    Groth, Anja

    2009-01-01

    framework of chromatin and carry information to specify higher-order organization and gene expression. When replication forks traverse the chromosomes, nucleosomes are transiently disrupted, allowing the replication machinery to gain access to DNA. Histone recycling, together with new deposition, ensures...... reassembly on nascent DNA strands. The aim of this review is to discuss how histones - new and old - are handled at the replication fork, highlighting new mechanistic insights and revisiting old paradigms....

  14. HMGB proteins: Interactions with DNA and chromatin

    Czech Academy of Sciences Publication Activity Database

    Štros, Michal

    2010-01-01

    Roč. 1799, 1-2 (2010), s. 101-113 ISSN 1874-9399 R&D Projects: GA ČR(CZ) GA204/08/1530; GA AV ČR(CZ) IAA400040702 Institutional research plan: CEZ:AV0Z50040507; CEZ:AV0Z50040702 Keywords : HMG-box * DNA-protein interaction * chromatin Subject RIV: BO - Biophysics Impact factor: 4.000, year: 2010

  15. Fundamental and harmonic soliton mode-locked erbium-doped fiber laser using single-walled carbon nanotubes embedded in poly (ethylene oxide) film saturable absorber

    Science.gov (United States)

    Rosdin, R. Z. R. R.; Zarei, A.; Ali, N. M.; Arof, H.; Ahmad, H.; Harun, S. W.

    2015-01-01

    This paper presents a simple, compact and low cost mode-locked Erbium-doped fiber laser (EDFL) using a single-walled carbon nanotubes (SWCNTs) embedded in poly(ethylene oxide) (PEO) film as a passive saturable absorber. The film was fabricated using a prepared homogeneous SWCNT solution, which was mixed with a diluted PEO solution and casted onto a glass petri dish to form a thin film by evaporation technique. The film, with a thickness of 50 μm, is sandwiched between two fiber connectors to construct a saturable absorber, which is then integrated in an EDFL cavity to generate a self-started stable soliton pulses operating at 1560.8 nm. The soliton pulse starts to lase at 1480 nm pup power threshold of 12.3 mW to produce pulse train with repetition rate of 11.21 MHz, pulse width of 1.02 ps, average output power of 0.65 mW and pulse energy of 57.98 pJ. Then, we observed the 4th, 7th and 15th harmonic of fundamental cavity frequency start to occur when the pump powers are further increased to 14.9, 17.5 and 20.1 mW, respectively. The 4th harmonic pulses are characterized in detail with a repetition rate of 44.84 MHz, a transform-limited pulse width of 1.19 ps, side-mode suppression ratio of larger than 20 dB and pulse energy of 9.14 pJ.

  16. Titration and hysteresis in epigenetic chromatin silencing

    Science.gov (United States)

    Dayarian, Adel; Sengupta, Anirvan M.

    2013-06-01

    Epigenetic mechanisms of silencing via heritable chromatin modifications play a major role in gene regulation and cell fate specification. We consider a model of epigenetic chromatin silencing in budding yeast and study the bifurcation diagram and characterize the bistable and the monostable regimes. The main focus of this paper is to examine how the perturbations altering the activity of histone modifying enzymes affect the epigenetic states. We analyze the implications of having the total number of silencing proteins, given by the sum of proteins bound to the nucleosomes and the ones available in the ambient, to be constant. This constraint couples different regions of chromatin through the shared reservoir of ambient silencing proteins. We show that the response of the system to perturbations depends dramatically on the titration effect caused by the above constraint. In particular, for a certain range of overall abundance of silencing proteins, the hysteresis loop changes qualitatively with certain jump replaced by continuous merger of different states. In addition, we find a nonmonotonic dependence of gene expression on the rate of histone deacetylation activity of Sir2. We discuss how these qualitative predictions of our model could be compared with experimental studies of the yeast system under anti-silencing drugs.

  17. Titration and hysteresis in epigenetic chromatin silencing

    International Nuclear Information System (INIS)

    Dayarian, Adel; Sengupta, Anirvan M

    2013-01-01

    Epigenetic mechanisms of silencing via heritable chromatin modifications play a major role in gene regulation and cell fate specification. We consider a model of epigenetic chromatin silencing in budding yeast and study the bifurcation diagram and characterize the bistable and the monostable regimes. The main focus of this paper is to examine how the perturbations altering the activity of histone modifying enzymes affect the epigenetic states. We analyze the implications of having the total number of silencing proteins, given by the sum of proteins bound to the nucleosomes and the ones available in the ambient, to be constant. This constraint couples different regions of chromatin through the shared reservoir of ambient silencing proteins. We show that the response of the system to perturbations depends dramatically on the titration effect caused by the above constraint. In particular, for a certain range of overall abundance of silencing proteins, the hysteresis loop changes qualitatively with certain jump replaced by continuous merger of different states. In addition, we find a nonmonotonic dependence of gene expression on the rate of histone deacetylation activity of Sir2. We discuss how these qualitative predictions of our model could be compared with experimental studies of the yeast system under anti-silencing drugs. (paper)

  18. Higher order chromatin organization in cancer

    Science.gov (United States)

    Reddy, Karen L.; Feinberg, Andrew P.

    2013-01-01

    In spite of our increased understanding of how genomes are dysregulated in cancer and a plethora of molecular diagnostic tools, the front line and ‘gold standard’ detection of cancer remains the pathologist’s detection of gross changes in cellular and tissue structure, most strikingly nuclear dis-organization. In fact, for over 140 years it has been noted that nuclear morphology is often disrupted in cancer. Even today, nuclear morphology measures include nuclear size, shape, DNA content (ploidy) and ‘chromatin organization’. Given the importance of nuclear shape to diagnoses of cancer phenotypes, it is surprising and frustrating that we currently lack a detailed understanding to explain these changes and how they might arise and relate to molecular events in the cell. It is an implicit hypothesis that perturbation of chromatin and epigenetic signatures may lead to alterations in nuclear structure (or vice versa) and that these perturbations lie at the heart of cancer genesis. In this review, we attempt to synthesize research leading to our current understanding on how chromatin interactions at the nuclear lamina, epigenetic modulation and gene regulation may intersect in cancer and offer a perspective on critical experiments that would help clarify how nuclear architecture may contribute to the cancerous phenotype. We also discuss the historical understanding of nuclear structure in normal cells and as a diagnostic in cancer. PMID:23266653

  19. Natural fibers

    Science.gov (United States)

    Craig M. Clemons; Daniel F. Caulfield

    2005-01-01

    The term “natural fibers” covers a broad range of vegetable, animal, and mineral fibers. However, in the composites industry, it usually refers to wood fiber and agrobased bast, leaf, seed, and stem fibers. These fibers often contribute greatly to the structural performance of the plant and, when used in plastic composites, can provide significant reinforcement. Below...

  20. A SWI/SNF Chromatin Remodelling Protein Controls Cytokinin Production through the Regulation of Chromatin Architecture

    KAUST Repository

    Jégu, Teddy

    2015-10-12

    Chromatin architecture determines transcriptional accessibility to DNA and consequently gene expression levels in response to developmental and environmental stimuli. Recently, chromatin remodelers such as SWI/SNF complexes have been recognized as key regulators of chromatin architecture. To gain insight into the function of these complexes during root development, we have analyzed Arabidopsis knock-down lines for one sub-unit of SWI/SNF complexes: BAF60. Here, we show that BAF60 is a positive regulator of root development and cell cycle progression in the root meristem via its ability to down-regulate cytokinin production. By opposing both the deposition of active histone marks and the formation of a chromatin regulatory loop, BAF60 negatively regulates two crucial target genes for cytokinin biosynthesis (IPT3 and IPT7) and one cell cycle inhibitor (KRP7). Our results demonstrate that SWI/SNF complexes containing BAF60 are key factors governing the equilibrium between formation and dissociation of a chromatin loop controlling phytohormone production and cell cycle progression.

  1. A SWI/SNF Chromatin Remodelling Protein Controls Cytokinin Production through the Regulation of Chromatin Architecture.

    Science.gov (United States)

    Jégu, Teddy; Domenichini, Séverine; Blein, Thomas; Ariel, Federico; Christ, Aurélie; Kim, Soon-Kap; Crespi, Martin; Boutet-Mercey, Stéphanie; Mouille, Grégory; Bourge, Mickaël; Hirt, Heribert; Bergounioux, Catherine; Raynaud, Cécile; Benhamed, Moussa

    2015-01-01

    Chromatin architecture determines transcriptional accessibility to DNA and consequently gene expression levels in response to developmental and environmental stimuli. Recently, chromatin remodelers such as SWI/SNF complexes have been recognized as key regulators of chromatin architecture. To gain insight into the function of these complexes during root development, we have analyzed Arabidopsis knock-down lines for one sub-unit of SWI/SNF complexes: BAF60. Here, we show that BAF60 is a positive regulator of root development and cell cycle progression in the root meristem via its ability to down-regulate cytokinin production. By opposing both the deposition of active histone marks and the formation of a chromatin regulatory loop, BAF60 negatively regulates two crucial target genes for cytokinin biosynthesis (IPT3 and IPT7) and one cell cycle inhibitor (KRP7). Our results demonstrate that SWI/SNF complexes containing BAF60 are key factors governing the equilibrium between formation and dissociation of a chromatin loop controlling phytohormone production and cell cycle progression.

  2. Chromatin in fractal globule state: evidence from comet assay

    Directory of Open Access Journals (Sweden)

    Afanasieva K. S.

    2015-04-01

    Full Text Available At higher order levels chromatin is organized into loops that appear as a result of contacts between distant loci. The aim of this work was to investigate the length distribution of the DNA loops in nucleoids obtained after lysis of either whole cells or isolated cell nuclei. Methods. We used single cell gel electrophoresis to analyze the kinetics of the DNA loop migration from the two nucleoid types. Results. The kinetics of the DNA exit was found to have specific features for the two types of nucleoids. At the same time, in both cases, the DNA amount in the electrophoretic track depends linearly on the length of the longest loops in the track. Conclusions. We have concluded that for the loops up to ~ 100 kb the length distribution appears to be consistent with the fractal globule organization.

  3. Monolithically Integrated Fiber Optic Coupler

    Science.gov (United States)

    2013-01-14

    single fused fiber 52 and drawn into ferrule 54 in order to provide an output as a photonic crystal fiber (PCF) or photonic bandgap ( PBG ) fiber 56...the reduced diameter air-silica photonic crystal fiber 56 (PCF) or photonic band gap ( PBG ), which is connected by a continuous transition of the... PBG 56 with a negative index of refraction includes metamaterials of superlattices formed by metal nanoparticles. The binary superlattices are

  4. PTEN Interacts with Histone H1 and Controls Chromatin Condensation

    Science.gov (United States)

    Chen, Zhu Hong; Zhu, Minglu; Yang, Jingyi; Liang, Hui; He, Jinxue; He, Shiming; Wang, Pan; Kang, Xi; McNutt, Michael A.; Yin, Yuxin; Shen, Wen H.

    2014-01-01

    SUMMARY Chromatin organization and dynamics are integral to global gene transcription. Histone modification influences chromatin status and gene expression. PTEN plays multiple roles in tumor suppression, development and metabolism. Here we report on the interplay of PTEN, histone H1 and chromatin. We show that loss of PTEN leads to dissociation of histone H1 from chromatin and decondensation of chromatin. PTEN deletion also results in elevation of histone H4 acetylation at lysine 16, an epigenetic marker for chromatin activation. We found that PTEN and histone H1 physically interact through their C-terminal domains. Disruption of the PTEN C-terminus promotes the chromatin association of MOF acetyltransferase and induces H4K16 acetylation. Hyperacetylation of H4K16 impairs the association of PTEN with histone H1, which constitutes regulatory feedback that may deteriorate chromatin stability. Our results demonstrate that PTEN controls chromatin condensation, thus influencing gene expression. We propose that PTEN regulates global gene transcription profiling through histones and chromatin remodeling. PMID:25199838

  5. Photorefractive Fibers

    National Research Council Canada - National Science Library

    Kuzyk, Mark G

    2003-01-01

    ... scope of the project. In addition to our work in optical limiting fibers, spillover results included making fiber-based light-sources, writing holograms in fibers, and developing the theory of the limits of the nonlinear...

  6. Use of optical fibers in spectrophotometry

    Science.gov (United States)

    Ramsey, Lawrence W.

    1988-01-01

    The use of single or small numbers of fiber optic fibers in astronomical spectroscopy with the goal of greater spectrophotometric and radial velocity accuracy is discussed. The properties of multimode step index fibers which are most important for this application are outlined, as are laboratory tests of currently available fibers.

  7. All-in-one graphene fiber supercapacitor

    Science.gov (United States)

    Hu, Yue; Cheng, Huhu; Zhao, Fei; Chen, Nan; Jiang, Lan; Feng, Zhihai; Qu, Liangti

    2014-05-01

    A flexible all-in-one single fiber supercapacitor has been fabricated through region-specific reduction of graphene oxide (GO) fiber by laser irradiation, and thus reduced GO layers as electrodes and GO as the separator are integrated into one single fiber. This in-fiber supercapacitor with high mechanical flexibility and high performance could be woven into the textile for wearable electronics and beyond.A flexible all-in-one single fiber supercapacitor has been fabricated through region-specific reduction of graphene oxide (GO) fiber by laser irradiation, and thus reduced GO layers as electrodes and GO as the separator are integrated into one single fiber. This in-fiber supercapacitor with high mechanical flexibility and high performance could be woven into the textile for wearable electronics and beyond. Electronic supplementary information (ESI) available: Raman spectra, capacitance stability of RGO-GO-RGO fiber. See DOI: 10.1039/c4nr01220h

  8. PHF6 regulates phenotypic plasticity through chromatin organization within lineage-specific genes.

    Science.gov (United States)

    Soto-Feliciano, Yadira M; Bartlebaugh, Jordan M E; Liu, Yunpeng; Sánchez-Rivera, Francisco J; Bhutkar, Arjun; Weintraub, Abraham S; Buenrostro, Jason D; Cheng, Christine S; Regev, Aviv; Jacks, Tyler E; Young, Richard A; Hemann, Michael T

    2017-05-15

    Developmental and lineage plasticity have been observed in numerous malignancies and have been correlated with tumor progression and drug resistance. However, little is known about the molecular mechanisms that enable such plasticity to occur. Here, we describe the function of the plant homeodomain finger protein 6 (PHF6) in leukemia and define its role in regulating chromatin accessibility to lineage-specific transcription factors. We show that loss of Phf6 in B-cell leukemia results in systematic changes in gene expression via alteration of the chromatin landscape at the transcriptional start sites of B-cell- and T-cell-specific factors. Additionally, Phf6 KO cells show significant down-regulation of genes involved in the development and function of normal B cells, show up-regulation of genes involved in T-cell signaling, and give rise to mixed-lineage lymphoma in vivo. Engagement of divergent transcriptional programs results in phenotypic plasticity that leads to altered disease presentation in vivo, tolerance of aberrant oncogenic signaling, and differential sensitivity to frontline and targeted therapies. These findings suggest that active maintenance of a precise chromatin landscape is essential for sustaining proper leukemia cell identity and that loss of a single factor (PHF6) can cause focal changes in chromatin accessibility and nucleosome positioning that render cells susceptible to lineage transition. © 2017 Soto-Feliciano et al.; Published by Cold Spring Harbor Laboratory Press.

  9. Spatially Resolved Quantification of Chromatin Condensation through Differential Local Rheology in Cell Nuclei Fluorescence Lifetime Imaging

    Science.gov (United States)

    Spagnol, Stephen T.; Dahl, Kris Noel

    2016-01-01

    The linear sequence of DNA encodes access to the complete set of proteins that carry out cellular functions. Yet, much of the functionality appropriate for each cell is nested within layers of dynamic regulation and organization, including a hierarchy of chromatin structural states and spatial arrangement within the nucleus. There remain limitations in our understanding of gene expression within the context of nuclear organization from an inability to characterize hierarchical chromatin organization in situ. Here we demonstrate the use of fluorescence lifetime imaging microscopy (FLIM) to quantify and spatially resolve chromatin condensation state using cell-permeable, DNA-binding dyes (Hoechst 33342 and PicoGreen). Through in vitro and in situ experiments we demonstrate the sensitivity of fluorescence lifetime to condensation state through the mechanical effects that accompany the structural changes and are reflected through altered viscosity. The establishment of FLIM for resolving and quantifying chromatin condensation state opens the door for single-measurement mechanical studies of the nucleus and for characterizing the role of genome structure and organization in nuclear processes that accompany physiological and pathological changes. PMID:26765322

  10. Histone Variant Regulates DNA Repair via Chromatin Condensation | Center for Cancer Research

    Science.gov (United States)

    Activating the appropriate DNA repair pathway is essential for maintaining the stability of the genome after a break in both strands of DNA. How a pathway is selected, however, is not well understood. Since these double strand breaks (DSBs) occur while DNA is packaged as chromatin, changes in its organization are necessary for repair to take place. Numerous alterations have been associated with DSBs, including modifications of histone tails and exchange of histone variants, some increasing chromatin accessibility, others reducing it. In fact, distinct domains flanking a single DSB have been observed that are bound by opposing repair pathway proteins 53BP1and BRCA1, which promote non-homologous end joining (NHEJ) and homologous recombination (HR), respectively. To investigate whether DSB-proximal chromatin reorganization affects repair pathway selection, Philipp Oberdoerffer, Ph.D., of CCR’s Laboratory of Receptor Biology and Gene Expression, and his colleagues performed a high-throughput RNA interference (RNAi) screen for chromatin-related genes that modulate HR.

  11. Multi-scale chromatin state annotation using a hierarchical hidden Markov model

    Science.gov (United States)

    Marco, Eugenio; Meuleman, Wouter; Huang, Jialiang; Glass, Kimberly; Pinello, Luca; Wang, Jianrong; Kellis, Manolis; Yuan, Guo-Cheng

    2017-04-01

    Chromatin-state analysis is widely applied in the studies of development and diseases. However, existing methods operate at a single length scale, and therefore cannot distinguish large domains from isolated elements of the same type. To overcome this limitation, we present a hierarchical hidden Markov model, diHMM, to systematically annotate chromatin states at multiple length scales. We apply diHMM to analyse a public ChIP-seq data set. diHMM not only accurately captures nucleosome-level information, but identifies domain-level states that vary in nucleosome-level state composition, spatial distribution and functionality. The domain-level states recapitulate known patterns such as super-enhancers, bivalent promoters and Polycomb repressed regions, and identify additional patterns whose biological functions are not yet characterized. By integrating chromatin-state information with gene expression and Hi-C data, we identify context-dependent functions of nucleosome-level states. Thus, diHMM provides a powerful tool for investigating the role of higher-order chromatin structure in gene regulation.

  12. A proposal for kinetic proof reading by ISWI family chromatin remodeling motors.

    Science.gov (United States)

    Narlikar, Geeta J

    2010-10-01

    ATP-dependent chromatin remodeling motors play fundamental roles in nuclear processes by regulating access to DNA. Yet compared to other cellular motors less is known about how these motors couple the energy of ATP to alter their substrates. Here we use recent studies on a key chromatin remodeling motor from the ISWI class, human ACF and its yeast counterpart, ISW2, to propose a model for how these motors use ATP to read structural cues presented by nucleosomal substrates. Substantial earlier work has shown that ACF activity is strongly regulated by the length of the DNA flanking a nucleosome as well as by the histone H4 tail. Recent bulk and single-molecule studies of human ACF suggest that this complex functions as a dimeric motor. These studies, together with studies of yeast ISW2 imply that at least two types of ATP hydrolysis events accompany each cycle of nucleosome movement. We propose that ISWI motors may employ a kinetic proof reading type of mechanism to favor action on nucleosomes that are poised to be in condensed chromatin while inhibiting action on nucleosomes that are in fully active or fully condensed chromatin. Copyright © 2010 Elsevier Ltd. All rights reserved.

  13. Prevalence of X-chromatin in Jordanian women

    International Nuclear Information System (INIS)

    Bataineh, Ziad M.; Al-Azab, Mohammad A.

    2004-01-01

    This study was conducted to evaluate the distribution of X-chromatin among Jordanian women at different age groups. Results will be compared with other studies for possible racial and environmental effects on X-chromatin distribution. Blood samples were drawn from all women subjected to this study by finger prick and stained with Wright's stain. X-chromatin positive polymorphonuclear cells were counted and corrected for percentage. Samples were taken during the late 2002 and early 2003 from healthy women attending routine checkup in health centers in Northern Jordan. The number of X-chromatin was highest in the 50 and above years age group. The number of X-chromatin was 14-18% in other age groups. These results were in accordance with other studies. It seems that racial and environmental factors are ineffective on distribution of X-chromatin in Jordanian women. These data could be used as as reference for further studies. (author)

  14. A role for chromatin topology in imprinted domain regulation.

    Science.gov (United States)

    MacDonald, William A; Sachani, Saqib S; White, Carlee R; Mann, Mellissa R W

    2016-02-01

    Recently, many advancements in genome-wide chromatin topology and nuclear architecture have unveiled the complex and hidden world of the nucleus, where chromatin is organized into discrete neighbourhoods with coordinated gene expression. This includes the active and inactive X chromosomes. Using X chromosome inactivation as a working model, we utilized publicly available datasets together with a literature review to gain insight into topologically associated domains, lamin-associated domains, nucleolar-associating domains, scaffold/matrix attachment regions, and nucleoporin-associated chromatin and their role in regulating monoallelic expression. Furthermore, we comprehensively review for the first time the role of chromatin topology and nuclear architecture in the regulation of genomic imprinting. We propose that chromatin topology and nuclear architecture are important regulatory mechanisms for directing gene expression within imprinted domains. Furthermore, we predict that dynamic changes in chromatin topology and nuclear architecture play roles in tissue-specific imprint domain regulation during early development and differentiation.

  15. Capitalizing on disaster: Establishing chromatin specificity behind the replication fork.

    Science.gov (United States)

    Ramachandran, Srinivas; Ahmad, Kami; Henikoff, Steven

    2017-04-01

    Eukaryotic genomes are packaged into nucleosomal chromatin, and genomic activity requires the precise localization of transcription factors, histone modifications and nucleosomes. Classic work described the progressive reassembly and maturation of bulk chromatin behind replication forks. More recent proteomics has detailed the molecular machines that accompany the replicative polymerase to promote rapid histone deposition onto the newly replicated DNA. However, localized chromatin features are transiently obliterated by DNA replication every S phase of the cell cycle. Genomic strategies now observe the rebuilding of locus-specific chromatin features, and reveal surprising delays in transcription factor binding behind replication forks. This implies that transient chromatin disorganization during replication is a central juncture for targeted transcription factor binding within genomes. We propose that transient occlusion of regulatory elements by disorganized nucleosomes during chromatin maturation enforces specificity of factor binding. © 2017 WILEY Periodicals, Inc.

  16. Identifying Z-axis gyro drift and scale factor error using azimuth measurement in fiber optic gyroscope single-axis rotation inertial navigation system

    Science.gov (United States)

    Wang, Lingcao; Li, Kui; Wang, Lei; Gao, Jiaxin

    2017-02-01

    In the fiber optic gyroscope (FOG) single-axis rotation inertial navigation system (SRINS), the Z-axis gyro drift (ɛz) dramatically limits its navigation precision and the Z-axis gyro scale factor error (δK) can cause greater navigation error because of the rotation process compared with the strap-down inertial navigation system. Hence, identification and compensation for the ɛz and δK are important in SRINS. An approach based on the azimuth error model of open-loop algorithm is proposed. This approach considers azimuth angle as a measurement and uses a least recursive square algorithm for identifying the ɛz and δK. Compared with the traditional method, which takes velocity and position errors as measurements, the time required for identifying ɛz with the proposed method is only approximately 10 min, while the traditional method requires 6 h to 12 h. Experimental results from an SRINS with FOGs demonstrate that the accuracy of identifying the ɛz reaches 0.002°/h and that of the δK reaches 8 ppm in 10 min. The positioning accuracy of the SRINS improves greatly after the identification and compensation.

  17. Growth by the μ-PD Method and Visible Laser Operation of a Single-Crystal Fiber of Pr3+:KY3F10

    Directory of Open Access Journals (Sweden)

    Jun Shu

    2017-07-01

    Full Text Available We report on the first growth, spectroscopy, and visible laser operation of a single-crystal fiber (SCF of KY3F10 (KYF grown by the micro-pulling-down (μ-PD method, doped with Pr3+ ions. This material has a cubic lattice, which makes it appealing for use in the industry. However, KYF crystals are considered difficult to grow with high optical quality, even with well-established methods. Nevertheless, we grew a 50-mm-long SCF of Pr:KYF, which was transparent in its inner part. We studied the spectroscopic features of it in comparison with existing literature and with samples of the same crystal grown by the Czochralski method, and we did not notice any large differences. These characterizations confirmed that is indeed possible to grow high-quality crystals of Pr:KYF by the μ-PD method. Unfortunately, the crystal proved to be more brittle than typical KYF and especially difficult to polish, leading to rough and irregular facets, as evidenced by transmission measurements. Despite these issues, we obtained continuous-wave laser operation in the orange, red, and deep red regions, using a sample carved from the SCF as active medium and an InGaN-based laser diode as pump source, though with lower performances than in existing reports on this crystal.

  18. Assessment of magneto-optic Faraday effect-based drift on interferometric single-mode fiber optic gyroscope (IFOG) as a function of variable degree of polarization (DOP)

    International Nuclear Information System (INIS)

    Çelikel, Oğuz; Sametoğlu, Ferhat

    2012-01-01

    In this study, a novel interferometric fiber optic gyroscope (IFOG), which has a different depolarizer structure, is designed in TUBITAK UME (National Metrology Institute of Turkey) to experimentally and relatively evaluate the effect of the degree of polarization on the Faraday effect-based drift of the light waves injected into both arms of a Sagnac interferometer. In order to observe whether or not any change occurs in the Faraday-based drift, depending on the variations in degree of polarization (DOP), a triple structure-depolarizer IFOG possessing adjustable DOP is firstly designed and prototyped. The minimum DOP achieved with triple structure-depolarizers is typically 0.15% for both clockwise (CW) and counterclockwise (CCW) light waves at both arms of the Sagnac interferometer. The experimental evaluations about the drift are given for DOP changes extending from 78.00% to 0.15% together with two main and different theoretical approaches in the literature. According to the experimental evaluations given herein, it is experimentally proved that the Faraday-based drift does not change depending on DOP values of both CW and CCW light waves injected into the single-mode (SM) sensing coil and it is impossible to state a concept of a depolarized IFOG by considering the polarization state at the entrance arms of the SM sensing coil. (paper)

  19. Design and performance investigation of a highly accurate apodized fiber Bragg grating-based strain sensor in single and quasi-distributed systems.

    Science.gov (United States)

    Ali, Taha A; Shehata, Mohamed I; Mohamed, Nazmi A

    2015-06-01

    In this work, fiber Bragg grating (FBG) strain sensors in single and quasi-distributed systems are investigated, seeking high-accuracy measurement. Since FBG-based strain sensors of small lengths are preferred in medical applications, and that causes the full width at half-maximum (FWHM) to be larger, a new apodization profile is introduced for the first time, to the best of our knowledge, with a remarkable FWHM at small sensor lengths compared to the Gaussian and Nuttall profiles, in addition to a higher mainlobe slope at these lengths. A careful selection of apodization profiles with detailed investigation is performed-using sidelobe analysis and the FWHM, which are primary judgment factors especially in a quasi-distributed configuration. A comparison between the elite selection of apodization profiles (extracted from related literature) and the proposed new profile is carried out covering the reflectivity peak, FWHM, and sidelobe analysis. The optimization process concludes that the proposed new profile with a chosen small length (L) of 10 mm and Δnac of 1.4×10-4 is the optimum choice for single stage and quasi-distributed strain-sensor networks, even better than the Gaussian profile at small sensor lengths. The proposed profile achieves the smallest FWHM of 15 GHz (suitable for UDWDM), and the highest mainlobe slope of 130 dB/nm. For the quasi-distributed scenario, a noteworthy high isolation of 6.953 dB is achieved while applying a high strain value of 1500 μstrain (με) for a five-stage strain-sensing network. Further investigation was undertaken, proving that consistency in choosing the apodization profile in the quasi-distributed network is mandatory. A test was made of the inclusion of a uniform apodized sensor among other apodized sensors with the proposed profile in an FBG strain-sensor network.

  20. Dynamic aspects of spermiogenic chromatin condensation patterning by phase separation during the histone-to-protamine transition in charalean algae and relation to bryophytes.

    Science.gov (United States)

    Kasinsky, H E; Ellis, S; Martens, G; Ausió, J

    2014-12-01

    During early-to-middle spermiogenesis in multicellular, internally fertilizing charalean green algae (Chara fibrosa, Chara vulgaris, Chara tomentosa, Nitella missouriensis), patterning of chromatin/nucleoplasm in developing spermatid nuclei changes from granules → fibers → contorted lamellae → condensed chromatin. Cytochemical, immunocytochemical, electrophoretic studies on C. vulgaris and C. tomentosa spermatids (Kwiatkowska, Poplonska) and amino acid analysis of protamines in Chara corallina sperm (Reynolds, Wolfe), indicate that more positively charged protamines replace histones directly during spermiogenesis, not indirectly through other intermediate transitional proteins as in internally fertilizing neogastropods and sharks with more ordered spermatid lamellae. We hypothesize that such lamellar-mediated patterning is due to liquid-liquid phase separation by spinodal decomposition. This is a spontaneous thermodynamic process that involves diffusive instability of a lamellar chromatin network, a dominant pattern repeat distance and bicontinuity of chromatin/nucleoplasm phases. C. vulgaris sperm show contorted lamellae in the posterior region, whereas C. corallina sperm display contorted peripheral lamellae and interior fibrils. Among internally fertilizing liverworts, which may have evolved from Zygnematales, mid-spermatid nuclei lack lamellae. Instead they display self-coiled chromatin rods in Blasia pusilla, contain short chromatin tubules in Haplomitrium hookeri resembling those in internally fertilizing mosses and a hornwort and indirectly replace histones with protamines in Marchantia polymorpha. Copyright © 2014. Published by Elsevier Ltd.