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Sample records for rrp nb3sn strands

  1. Fabrication and test of 4M long Nb3SN quadrupole coil made of RRP-114/127 strand

    NASA Astrophysics Data System (ADS)

    Bossert, Rodger; Ambrosio, G.; Andreev, Nikolai; Barzi, Emanuela; Chlachidze, Guram; Kashikhin, Vadim; Lamm, Michael; Nobrega, Alfred; Novitski, Igor; Orris, Darryl; Tartaglia, Mike; Turrioni, Daniele; Yamada, Ryuji; Zlobin, Alexander

    2012-06-01

    Fermilab is collaborating with Lawrence Berkeley National Laboratory (LBNL) and Brookhaven National Laboratory (BNL) within the US-LHC Accelerator Research Project (US-LARP collaboration) to develop a large-aperture Nb3SN superconducting quadrupole for the Large Hadron Collider (LHC) luminosity upgrade. Several two-layer quadrupole models of the 1-meter and 3.4-meter length with 90 mm apertures have been fabricated and tested by the US-LARP collaboration. High-Jc Nb3SN RRP-54/61 strand was used for nearly all models. Large flux jumps typical for this strand, due to the large sub-element diameter, limited magnet quench performance at temperatures below 2.5-3K. This paper summarizes the fabrication and test by Fermilab of LQM01, a long quadrupole coil test structure (quadrupole mirror) with the first 3.4 m quadrupole coil made of more stable RRP-114/127 strand. The coil and structure are fully instrumented with voltage taps, full bridge strain gauges and strip heaters to monitor preload, thermal properties and quench behavior. Measurements during fabrication are reported, including preload during the yoke welding process. Testing is done at 4.5 K, 1.9 K and a range of intermediate temperatures. The test results include magnet strain and quench performance during training, as well as quench studies of current ramp rate and temperature dependence from 1.9 K to 4.5 K.

  2. Quench performance of Nb3Sn cos-theta coils made of 108/127 RRP strands

    SciTech Connect

    Zlobin, A.V.; Ambrosio, G.; Andreev, N.; Barzi, E.; Bossert, R.; Carcagno, R.; Kashikhin, V.S.; Kashikhin, V.V.; Lamm, M.J.; Nobrega, F.; Novitski, I.; /Fermilab

    2007-07-01

    A series of 1-m long Nb{sub 3}Sn dipole models has been built at Fermilab in an attempt to refine the wind-and-react technology for Nb3Sn accelerator magnets. Three models made with Powder-in-Tube Nb{sub 3}Sn strand reached their design field of 10 T demonstrating a good reproducibility of magnet quench performance and field quality. Recently a new dipole 'mirror' model based on Nb{sub 3}Sn coil made of improved Restack Rod Process strand was constructed and tested reaching the maximum field above 11 T. This paper describes the parameters of the RRP strand and cable used as well as the design, fabrication and test results of this magnet.

  3. Development and test of Nb3Sn cos-theta magnets based on RRP and PIT strands

    SciTech Connect

    Feher, S.; Ambrosio, G.; Andreev, N.; Barzi, E.; Bordini, B.; Bossert, R.; Carcagno, R.; Kashikhin, V.S.; Kashikhin, V.V.; Lamm, M.J.; Novitski, I.; Pischalnikov, Yu.; Sylvester, C.; Tartaglia, M.; Turrioni, D.; Yamada, R.; Zlobin, A.V.; /Fermilab

    2005-09-01

    As part of the High Field Magnet program at Fermilab three cos({theta}) magnets--two mirror dipole magnets utilizing RRP cable and one dipole magnet utilizing PIT cable--have been designed, fabricated and tested recently. Both mirror magnets with RRP strands only reached {approx}50-60% of their estimated critical current limit. The PIT conductor based dipole however reached its critical current limit producing over 10 T magnetic field in the bore of the magnet. This paper describes the parameters of superconducting strands and cable, the details of magnet design and fabrication procedure, and reports the results.

  4. Fabrication and test of 4m long Nb3Sn quadrupole coil made of RRP-114-127 strand

    SciTech Connect

    Bossert, R.; Ambrosio, G.; Andreev, N.; Barzi, E.; Chlachidze, G.; Kashikhin, V.V.; Lamm, M.; Nobrega, A.; Novitski, I.; Orris, D.; Tartaglia, M.; /Fermilab

    2011-06-01

    Fermilab is collaborating with LBNL and BNL (US-LARP collaboration) to develop a large-aperture Nb{sub 3}Sn superconducting quadrupole for the Large Hadron Collider (LHC) luminosity upgrade. Several two-layer quadrupole models of the 1-meter and 3.4-meter length with 90mm apertures have been fabricated and tested by the US-LARP collaboration. High-Jc RRP-54/61 strand was used for nearly all models. Large flux jumps typical for this strand due to the large sub-element diameter limited magnet quench performance at temperatures below 2.5-3K. This paper summarizes the fabrication and test by Fermilab of LQM01, a long quadrupole coil test structure (quadrupole mirror) with the first 3.4m quadrupole coil made of more stable RRP-114/127 strand. The coil and structure are fully instrumented with voltage taps, full bridge strain gauges and strip heaters to monitor preload, thermal properties and quench behavior. Measurements during fabrication are reported, including preload during the yoke welding process. Testing is done at 4.5K, 1.9K and a range of intermediate temperatures. The test results include magnet strain and quench performance during training, as well as quench studies of current ramp rate and temperature dependence from 1.9K to 4.5K.

  5. Prospects for Improving the Critical Current Density of Superconducting Nb3Sn Strands via Optimization of Nb3Sn Fraction, Stoichiometry, and Grain Size

    NASA Astrophysics Data System (ADS)

    Xu, Xingchen

    Superconducting Nb3Sn strands are the key building blocks of high-field (>10 T) magnets. There are multiple figures of merit defining the quality of a Nb3Sn strand, such as critical current density (Jc), residual resistivity ratio (RRR), and effective subelement size (deff). Among these the high-field Jc is the key factor for the application of Nb3Sn strands in magnets, because the supercurrent-carrying capability of Nb 3Sn strands essentially determines the limit of the magnetic field that can be generated in a given magnet design. It is the primary goal of this dissertation to explore ways to improve the high-field non-matrix Jc of Nb3Sn strands without sacrificing other factors (e.g., RRR and deff). A green-state Nb3Sn wire is composed of precursor metals or alloys, which transform to superconducting Nb3Sn phase through a diffusion reaction process during a heat treatment at typically 600-800 °C. The high-field non-matrix Jc of Nb 3Sn strands was improved significantly due to the extensive efforts by the scientists of the Nb3Sn community. These improvements in Jc were mainly driven by three aspects: improvement of the subelement design (i.e., optimizing the subelement architecture and the precursor amounts, e.g., enhancing the Nb and Sn fractions in subelements), use of the right type and amount of dopants, and optimization of the heat treatment schedules. However, the improvement in Jc of Nb3Sn strands has plateaued since 2002, with the rod-restack-process (RRP) strands pushing the 4.2 K, 12 T non-matrix Jc to ˜3000 A/mm2, and the 15 T value to ˜1600 A/mm 2. Given the plateau of Jc improvement over the last decade, researchers have been asking this question: how to further improve the high-field Jc of Nb3Sn strands? This is also the question that this dissertation aims to answer. For this goal, a literature review of the factors determining non-Cu Jc of Nb3Sn conductors is given in chapter 1. It is seen that the non-matrix Jc of Nb 3Sn strands are mainly

  6. Recent Progress in Application of Internal Oxidation Technique in Nb3Sn Strands

    SciTech Connect

    Xu, Xingchen; Peng, Xuan; Sumption, Michael; Collings, E. W.

    2016-10-13

    The internal oxidation technique can generate ZrO2 nano particles in Nb3Sn strands, which markedly refine the Nb3Sn grain size and boost the high-field critical current density (Jc). This article summarizes recent efforts on implementing this technique in practical Nb3Sn wires and adding Ti as a dopant. It is demonstrated that this technique can be readily incorporated into the present Nb3Sn conductor manufacturing technology. Powder-in-tube (PIT) strands with fine subelements (~25 µm) based on this technique were successfully fabricated, and proper heat treatments for oxygen transfer were explored. Future work for producing strands ready for applications is proposed.

  7. Measurements of Rrr Variation in Strands Extracted from Nb3Sn-TYPE Rutherford Cables

    NASA Astrophysics Data System (ADS)

    Sumption, M. D.; Nazareth, V.; Barzi, E.; Turrioni, D.; Yamada, R.; Zlobin, A. V.; Collings, E. W.

    2008-03-01

    Modern high-Jc Nb3Sn strands and cables for use in high field accelerator magnets suffer from flux jump-related instabilities at low magnetic fields. These instabilities are determined by the values of Jc, deff, and RRR. It has been postulated that local RRR is a more relevant parameter than average RRR for stability considerations, but the range of RRR values present in a cable has not yet been quantified. Thus, longitudinal variations of RRR were estimated from multiple-tap measurements along the length of strands extracted from mixed strand cables. The cables had either 27 or 28 strands, two different keystone angles, and four different levels of compaction. One type of RRP strand was extracted from each cable, reacted, and then measured. RRR of the straight sections (on the faces) was above 100, while that at the edges of the strand was estimated to be an order of magnitude smaller ≈10. Selected regions of the strand with locally depressed RRR were examined by SEM and EDS to check for Sn leakage and examine the type of strand failure present. The implications of these measurements for stability were then discussed.

  8. Nb3Sn RRP® strand and Rutherford cable development for a 15 T dipole demonstrator

    DOE PAGES

    Barzi, E.; Andreev, N.; Li, P.; ...

    2016-03-16

    Keystoned Rutherford cables made of 28 strands and with a stainless steel core were developed and manufactured using 1 mm Nb3Sn composite wires produced by Oxford Superconducting Technology with 127 and 169 restacks using the Restacked-Rod-Process®. Furthermore, the performance and properties of these cables were studied to evaluate possible candidates for 15 T accelerator magnets.

  9. Magnetic instabilities in Nb3Sn strands and cables

    SciTech Connect

    Kashikhim, Vadim V.; Zlobin, Alexander V.; /Fermilab

    2004-11-01

    This paper describes a model for calculation of magnetic instabilities in superconducting wires with transport current and reports results of instability simulations in Nb{sub 3}Sn strands from different manufactures. The effect of magnetic instabilities on the strand and cable performance is presented and a criterion for the maximum effective sub-element size of strands for high field magnets is formulated.

  10. ITER Model Coil Tests Overview: Nb3Sn Strand Properties in Cable-in-Conduit-Conductors

    SciTech Connect

    Martovetsky, N N

    2003-04-14

    During the ITER Model Coil Program two large coils and three Insert coils were built and tested. The test campaigns provided very valuable data on the Conductor in Conduit Cable (CICC) properties. The tests showed that the Nb3Sn strands in CICC behave differently than so-called witness strands, which underwent the same heat treatment. The paper describes Volt-temperature characteristics (VTC) and Volt-Ampere characteristics (VAC) measured in the tests, presents comparisons with the witness strands, and interprets the test results.

  11. Magnetic field orientation dependence of critical current in industrial Nb 3Sn strands

    NASA Astrophysics Data System (ADS)

    Schild, T.; Cloez, H.

    In usual superconducting devices such as magnets for NMR, the magnetic field is perpendicular to the superconducting strand axis. But in some special devices, such as magnets for the toroidal field system of fusion machines, the strands can experience any field orientation. For NbTi strands, the pinning force is dependent on the field orientation because of the drawing process (Takacs, S., Polak, M. and Krempasky, L., Critical currents of NbTi tapes with differently oriented anisotropic defects, Cryogenics, 1983, 23, 153-159). In the case of Nb 3Sn strands, the draw and react process suggests that the pinning force is isotropic. In fact, preliminary experiments have shown the contrary, which is why the magnetic field orientation dependence of the critical current for two types of industrial Nb 3Sn strands has been measured. These measurements have been performed for seven field orientations at field strengths up to 20 T. A clear anisotropic effect has been observed, which cannot be explained by Kramer's pinning law. The results are in very good agreement with an empirical law proposed in a recent study by Takayasu et al. (Takayasu, M., Montgomery, D.B. and Minervini, J.V., Effect of magnetic field direction on the critical current of twisted multifilamentary superconducting wires, Inst. of Phys. Conf. Ser., 1997, 158, 917-920). The parameters to be used in this law could be specific to the manufacturing process.

  12. The First Benchmarking of ITER BR Nb3Sn Strand of CNDA

    NASA Astrophysics Data System (ADS)

    Long, Feng; Liu, Fang; Wu, Yu; Ni, Zhipeng

    2012-09-01

    According to the International Thermonuclear Experimental Reactor (ITER) Procurement Arrangement (PA) of Cable-In-Conduit Conductor (CICC) unit lengths for the Toroidal Field (TF) and Poloidal Field (PF) magnet systems of ITER, at the start of process qualification, the Domestic Agency (DA) shall be required to conduct a benchmarking of the room and low temperature acceptance tests carried out at the Strand Suppliers and/or at its Reference Laboratories designated by the ITER Organization (IO). The first benchmarking was carried out successfully in 2009. Nineteen participants from six DAs (China, European Union, Japan, South Korea, Russia, and the United States) participated in the first benchmarking. Bronze-route (BR) Nb3Sn strand and samples prepared by the ITER reference lab (CERN) were sent out to each participant by CERN. In this paper, the test facility and test results of the first benchmarking by the Chinese DA (CNDA) are presented.

  13. Statistical analysis of the Nb3Sn strand production for the ITER toroidal field coils

    NASA Astrophysics Data System (ADS)

    Vostner, A.; Jewell, M.; Pong, I.; Sullivan, N.; Devred, A.; Bessette, D.; Bevillard, G.; Mitchell, N.; Romano, G.; Zhou, C.

    2017-04-01

    The ITER toroidal field (TF) strand procurement initiated the largest Nb3Sn superconducting strand production hitherto. The industrial-scale production started in Japan in 2008 and finished in summer 2015. Six ITER partners (so-called Domestic Agencies, or DAs) are in charge of the procurement and involved eight different strand suppliers all over the world, of which four are using the bronze route (BR) process and four the internal-tin (IT) process. In total more than 500 tons have been produced including excess material covering losses during the conductor manufacturing process, in particular the cabling. The procurement is based on a functional specification where the main strand requirements like critical current, hysteresis losses, Cu ratio and residual resistance ratio are specified but not the strand production process or layout. This paper presents the analysis on the data acquired during the quality control (QC) process that was carried out to ensure the same conductor performance requirements are met by the different strand suppliers regardless of strand design. The strand QC is based on 100% billet testing and on applying statistical process control (SPC) limits. Throughout the production, samples adjacent to the strand pieces tested by the suppliers are cross-checked (‘verified’) by their respective DAs reference labs. The level of verification was lowered from 100% at the beginning of the procurement progressively to approximately 25% during the final phase of production. Based on the complete dataset of the TF strand production, an analysis of the SPC limits of the critical strand parameters is made and the related process capability indices are calculated. In view of the large-scale production and costs, key manufacturing parameters such as billet yield, number of breakages and piece-length distribution are also discussed. The results are compared among all the strand suppliers, focusing on the difference between BR and IT processes. Following

  14. Correlation of filament distortion and RRR degradation in drawn and rolled PIT and RRP Nb3Sn wires

    NASA Astrophysics Data System (ADS)

    Brown, M.; Tarantini, C.; Starch, W.; Oates, W.; Lee, P. J.; Larbalestier, D. C.

    2016-08-01

    PIT and RRP® Nb3Sn strands are being developed for high field accelerator magnet upgrades for the high luminosity LHC. Here we report a quantitative study of the shape and position of PIT filaments and RRP® sub-elements after rolling lengths of unreacted PIT and RRP® round wires to simulate cabling deformation. In the as-drawn condition, filament shape distortion occurs preferentially in the outer ring filaments. By contrast, rolling induces non-uniform shear bands that generate greater distortion of inner ring filaments. By making a full digitization of the shapes of all filaments, we find that a critical distortion occurs for thickness reductions between 10% and 20% when filament shapes in inner filament rings heavily degrade, especially in the vicinity of the strong 45° shear bands imposed by the rolling. It is well known that maintaining diffusion barrier integrity is vital to retaining adequate RRR in the stabilizing copper needed for magnet stability. Diffusion barrier breaks occur preferentially in these distorted inner filaments and drive local Sn leakage during reaction, increasing RRR degradation.

  15. Correlation of filament distortion and RRR degradation in drawn and rolled PIT and RRP Nb 3 Sn wires

    DOE PAGES

    Brown, M.; Tarantini, C.; Starch, W.; ...

    2016-07-11

    PIT and RRP® Nb3Sn strands are being developed for high field accelerator magnet upgrades for the high luminosity LHC. Here we report a quantitative study of the shape and position of PIT filaments and RRP® sub-elements after rolling lengths of unreacted PIT and RRP® round wires to simulate cabling deformation. In the as-drawn condition, filament shape distortion occurs preferentially in the outer ring filaments. By contrast, rolling induces non-uniform shear bands that generate greater distortion of inner ring filaments. By making a full digitization of the shapes of all filaments, we find that a critical distortion occurs for thickness reductionsmore » between 10% and 20% when filament shapes in inner filament rings heavily degrade, especially in the vicinity of the strong 45° shear bands imposed by the rolling. It is well known that maintaining diffusion barrier integrity is vital to retaining adequate RRR in the stabilizing copper needed for magnet stability. Diffusion barrier breaks occur preferentially in these distorted inner filaments and drive local Sn leakage during reaction, increasing RRR degradation.« less

  16. Reduce Nb3Sn Strand Deformation when Fabricating High Jc Rutherford Cables

    SciTech Connect

    Peng, Xuan

    2012-12-17

    During Phase I, our efforts were to reduce subelements deformation when fabricating Nb3Sn Rutherford cables. Our first focus is on 217-sublement tube type strand. We successfully made a few billets in OD tube with different Cu spacing between subelements, and supplied the strands to Fermi Lab for cabling. Through the rolling test characterization, these types of strands did not have enough bonding between subelements to withstand the deformation. We saw copper cracking between subelements in the deformed strands. We scaled up the billet from OD to 1.5 OD, and made two billets. This greatly improves the bonding. There is no copper cracking in the deformed strands when we scaled up the diameter of the billets. Fermi Lab successfully made cables using one of this improved strands. In their cables, no Cu cracking and no filament bridging occurred. We also successfully made a couple of billets with hex OD and round ID subelements for 61-subelement restack. Due to the lack of bonding, we could not judge its cabling property properly. But we know through this experiment, we could keep the Nb round, once we select the proper Cu spacing.

  17. Increasing the Jc of Tube-Type Nb3Sn Strands

    SciTech Connect

    Peng, Xuan

    2012-12-17

    In this Phase I, we successfully made strands with better Cu/Sn ratio to reduce the coarse Nb3Sn grain region, thereby providing the potential of increasing the non-Cu Jc in the Phase II and scaling up to 2 billets with 331 subelements. In order to improve the strandÃ's high field properties, we successfully doped low amount of Ti in the subelements and made a 217-subelement wire which has been drawn down to 0.7 mm without any breakage. This strand gave subelement size of 35m. We will scale up the Ti-doped billet to 271-subelement in 1.5 billet in this proposed Phase II. The hexagonal shaped subelements with round Nb-Sn have been developed for a 61-subelement restack. Thus the results indicated that for 217-subelement restack in a billet we have the potential to draw down this type of construction without problems while maintaining a good array to react more Nb to get higher non-Cu Jc in the Phase II.

  18. Magnetic characterization of Nb3Sn strands under applied strain conditions

    NASA Astrophysics Data System (ADS)

    DeMarzi, G.; Muzzi, L.; Rufoloni, A.; Besi Vetrella, U.; della Corte, A.

    2009-02-01

    We performed magnetic characterizations, using a vibrating sample magnetometer, of an internal tin-type Nb3Sn technological strand. In order to compare the properties of this sample under different strain conditions, the same strand was tested under compression, obtained by swaging and compacting into thin stainless steel tubes before the heat treatment, as well as after a complete relaxation of the filament strain components, by chemical etching of the Cu and bronze matrix components. In particular, we analysed the Kramer extrapolated upper critical field Bc2K, and the zero-field critical temperature Tc(0) and its distribution, for all the samples. In order to clarify the effect of the strain due to both the stainless steel reinforcement and the copper matrix thermal pre-compression, we compared our experimental results with the predictions from well established scaling laws based on uniaxial models. Good agreement has been found with measured critical temperature Tc and extrapolated upper critical field Bc2K values, with proper choice of fit parameters. On the other hand, we observed a broadening of the superconducting Tc transition with increasing strain. This has to be ascribed to the effect of radial strain components, which cannot be neglected in the present work.

  19. Critical current scaling and the pivot-point in Nb3Sn strands

    NASA Astrophysics Data System (ADS)

    Tsui, Y.; Hampshire, D. P.

    2012-05-01

    Detailed measurements are provided of the engineering critical current density (Jc) and the index of transition (n-value) of two different types of advanced ITER Nb3Sn superconducting strand for fusion applications. The samples consist of one internal-tin strand (OST) and two bronze-route strands (BEAS I and BEAS II—reacted using different heat treatments). Tests on different sections of these wires show that prior to applying strain, Jc is homogeneous to better than 2% along the length of each strand. Jc data have been characterized as a function of magnetic field (B ≤ 14.5 T), temperature (4.2 K ≤ T ≤ 12 K) and applied axial strain ( - 1% ≤ ɛA ≤ 0.8%). Strain-cycling tests demonstrate that the variable strain Jc data are reversible to better than 2% when the applied axial strain is in the range of - 1% ≤ ɛA ≤ 0.5%. The wires are damaged when the intrinsic strain (ɛI) is ɛI ≥ 0.55% and ɛI ≥ 0.23% for the OST and BEAS strands, respectively. The strain dependences of the normalized Jc for each type of strand are similar to those of prototype strands of similar design measured in 2005 and 2008 to about 2% which makes them candidate strands for a round-robin interlaboratory comparison. The Jc data are described by Durham, ITER and Josephson-junction parameterizations to an accuracy of about 4%. For all of these scaling laws, the percentage difference between the data and the parameterization is larger when Jc is small, caused by high B, T or |ɛI|. The n-values can be described by a modified power law of the form n=1+r{I}_{{c}}^{s}, where r and s are approximately constant and Ic is the critical current. It has long been known that pivot-points (or cross-overs) in Jc occur at high magnetic field and temperature. Changing the magnetic field or temperature from one side of the pivot-point to the other changes the highest Jc sample to the lowest Jc sample and vice versa. The pivot-point follows the B-T phase boundary associated with the upper

  20. Effects of Rutherford Cable Parameters on Nb3Sn Extracted Strand Deformation and Performance

    SciTech Connect

    Turrioni, Daniele; Barzi, Emanuela; Bossert, M.; Collings, E.W.; Nazareth, V.; Sumptions, M.D.; Yamada, R.; Zlobin, A.V.; /Fermilab

    2008-06-01

    In order to optimize parameters for Rutherford cables used in accelerator magnets, a number of cables were fabricated with different keystone angles, packing factors and numbers of strands. The effect of these parameters was measured on Nb{sub 3}Sn strand performance and deformation for two different RRP designs. High and low field current carrying capabilities and RRR were measured for the extracted strands. To correlate strand deformation with performance, the former was measured for several cables and conditions as a function of the strand location in the cable cross section.

  1. Effect of Barrel Material on Critical Current Measurements of High-Jc RRP Nb3Sn Wires

    SciTech Connect

    Ghosh, A.

    2011-08-03

    Nb{sub 3}Sn strands extracted from a 20-strand rectangular Rutherford cable were reacted on either stainless steel or Ti-alloy barrels and the critical current, I{sub c}, in the field range of 8-11.5 T was measured on ITER-type barrels made from Ti-6Al-4V alloy, 304 stainless steel and G-10. Measurements on the 'standard' Ti-alloy barrel using the test procedure employed at BNL are shown to reproduce I{sub c} for extracted strands to {+-}2%. The I{sub c} data for the sample mounted on the 'standard' Ti-alloy are fit to the deviatoric strain scaling model developed for Nb{sub 3}Sn by the University of Twente group using an arbitrary pre-strain. Using the parameters for this fit, the I{sub c} data for the other barrels are fitted by only adjusting the strain. Using this procedure, the strain difference due to the barrel material is determined. Assuming a thermal pre-strain of -0.2% for the sample measured on the Ti-alloy barrel, the use of stainless steel barrel increases the compressive strain by -0.07%, that of G-10 by -0.10%. With the wire soldered to the stainless steel barrel, the strain increases to -0.15%. Details of this study are presented.

  2. Development and test of Nb(3)Sn cos-theta dipoles based on PIT strands

    SciTech Connect

    Zlobin, A.V.; Ambrosio, G.; Andreev, N.; Barzi, E.; Bossert, R.; Carcagno, R.; Chichili, D.R.; Elementi, L.; Feher, S.; Kashikhin, V.V.; Lamm, M.J.; Novitski, I.; Pischalnikov, Yu.; Sylvester, C.; Tartaglia, M.; Yamada, R.; /Fermilab

    2004-11-01

    Fermilab is involved in the development of new generation high-field accelerator magnets using state-of-the-art Nb{sub 3}Sn strands produced using different technologies. Two 1-m long models--mirror configuration and dipole magnet--were fabricated recently at Fermilab based on powder-in-tube (PIT) Nb{sub 3}Sn strands with small effective filament size. This paper describes the parameters of superconducting strands and cable, the details of magnet design and fabrication procedure, and reports the results of PIT coil testing.

  3. Increase Jc by Improving the Array of Nb3Sn strands for Fusion Application

    SciTech Connect

    Peng, Xuan

    2012-12-17

    During Phase I, our efforts were focusing on improving the array of subelement in the tube type strands by hardening the Sn core and the subelement matrix to effectively increase the Jc of the strands. Below is a summary of the results. 1) We were unsuccessful in improving the array using a Cu-Sn matrix approach. 2) We slightly improved the array using Sn with 1.5at%Ti doped core, and a 217-subelement restacked strand was made and drawn down without any breakage. 3) We greatly improved the array using the Glidcop Al-15 to replace the pure Cu sheath in the subelement, and a 217-subelement restacked strand was made and drawn down. Both strands have very good drawability and the array showed good improvement. 4) We also improved the array using improved wire drawing techniques using Hyper Tech's new caterpillar wire drawing machines to enable straight wire drawing for the entire wire drawing process. 5) The 919-subelement restack strand shows its non-Cu Jc over 2100 A/mm2 at 12 T/4.2 K and AC loss of 508 mJ/cm3.

  4. Multiscale analysis of the influence of the triplet helicoidal geometry on the strain state of a Nb 3Sn based strand for ITER coils

    NASA Astrophysics Data System (ADS)

    Boso, D. P.; Lefik, M.; Schrefler, B. A.

    2005-09-01

    A theoretical model of a beam of unidirectional composites—based on the homogenisation theory and a refined kinematical hypothesis—is used for the analysis of the influence of the helicoidal geometry of a superconducting strand triplet on its strain state. The triplet is the first cabling stage of the superconducting cables used to wind the coils of ITER fusion reactor. The multiscale modelling strategy is presented, for which a finite element code has been developed. A triplet of Nb 3Sn based strands subjected to an axial stretch is analysed, and the resulting complete 3D strain state in the Nb 3Sn filament is recovered. An "extra" strain is found due to the helicoidal geometry of the triplet. Discussion of the results concludes the paper.

  5. Strain and Magnetization Properties of High Subelement Count Tube-Type Nb3Sn Strands

    SciTech Connect

    Peng, X.; Ghosh, A.; Gregory, E.; Tomsic, M.; Sumption, M.D.; Lu, X.F.; Cheggour, N.; Stauffer, T.C.; Goodrich, L.F.; Splett, J.D.

    2011-08-03

    A tubular technique for economical production of Nb{sub 3}Sn material with large numbers of subelements is being explored by Supergenics I LLC and Hyper Tech Research Inc. The number of subelements was increased to 919 (744 subelements plus 175 Cu filaments) by increasing the size at which restacking is carried out. The product exhibited no fabrication problems and was drawn down and tested at a wire diameter of 0.42 mm, where the subelements are 10 {micro}m in diameter. Recently we increased the subelement number to 1387 (1248 subelements plus 139 Cu filaments), which gives a subelement size of 12 {micro}m in 0.7 mm diameter wires. Heat treatment (HT) of different subelement restacks has been investigated, and the best results of critical current and stability are presented. The strain tolerance of the strands with 192 and 744 subelements was also tested, and the strand with fine subelement size showed a high intrinsic irreversible strain limit.

  6. Measurement of inter-strand contact resistance in epoxy impregnated Nb3Sn Rutherford cables

    SciTech Connect

    Giorgio Ambrosio et al.

    2003-10-07

    An apparatus for the measurement, under transverse pressure, of the inter-strand contact resistance in epoxy-impregnated Nb{sub 3}Sn Rutherford cables has been recently assembled at Fermilab. Procedures have been developed to instrument and measure samples extracted from Nb{sub 3}Sn coils. Samples were extracted from coils fabricated with the Wind-and-React and the React-and-Wind technology, both presently under development at Fermilab. A ceramic binder is used to improve the insulation and to simplify the fabrication of coils using the Wind-and-React technology. Synthetic oil is used to prevent sintering during the heat treatment of coils to be wound after reaction. In order to evaluate the effects of the ceramic binder and of the synthetic oil on the inter-strand resistance, measurements of samples extracted from coils were compared with measurements of cable stacks with varying characteristics. In this paper we describe the apparatus, the sample preparation, the measurement procedure, and the results of the first series of tests.

  7. New Developments in Nb3Sn PIT Strand: The Effects of Titanium and Second Phase Additions on the Superconducting Properties

    SciTech Connect

    Motowidlo, L.R.; Ghosh, A.; Distin, J.; Lee, P.J.; Larbalestier, D.C.; Ghosh, A.K.

    2011-08-03

    We report the effect of titanium on the transport properties of multifilament PIT strand. In addition, the effect of second phase yttrium additions on the microstructure and the bulk pinning force are reported for PIT Nb{sub 3}Sn mono-core wires. High resolution SEM, EDS, magnetization, and transport measurements were utilized to evaluate the superconducting properties.

  8. Nb3Sn cable development for the 11 T dipole demonstation model

    SciTech Connect

    Barzi, E.; Lombardo, V.; Nobrega, F.; Turrioni, D.; Yamada, R.; Zlobin, A.V.; Karppinen, M.; /CERN

    2011-06-01

    Fermilab (FNAL) and CERN have started the development of 11 T 11-m long Nb{sub 3}Sn dipoles to replace a number of LHC NbTi dipoles and free space for cold collimators in the LHC DS areas. An important step in the design of these magnets is the development of the high aspect ratio Nb{sub 3}Sn cable to achieve the nominal field of 11 T at the nominal LHC operating current of 11.85 kA at 1.9 K with 20% margin. Keystoned cables with 40 and 41 strands with and without a stainless steel core were made out of hard Cu wires and Nb{sub 3}Sn RRP strand of 0.7 mm nominal diameter. The cable optimization process was aimed at achieving both mechanical stability and minimal damage to the delicate internal architecture of the Restacked-Rod-Process (RRP) Nb3Sn strands with 127 restack design to be used in the magnet short models. Each cable was characterized electrically for transport properties degradation at high field and for low field stability, and metallographically for internal damage.

  9. Nb3Sn for Radio Frequency Cavities

    SciTech Connect

    Godeke, A.

    2006-12-18

    In this article, the suitability of Nb3Sn to improve theperformance of superconducting Radio-Frequency (RF)cavities is discussed.The use of Nb3Sn in RF cavitiesis recognized as an enabling technology toretain a veryhigh cavity quality factor (Q0) at 4.2 K and tosignificantly improve the cavity accelerating efficiency per unitlength(Eacc). This potential arises through the fundamental properties ofNb3Sn. The properties that are extensively characterized in theliterature are, however, mainly related to improvements in currentcarrying capacity (Jc) in the vortex state. Much less is available forthe Meissner state, which is of key importance to cavities. Relevantdata, available for the Meissner state is summarized, and it is shown howthis already validates the use of Nb3Sn. In addition, missing knowledgeis highlighted and suggestions are given for further Meissner statespecific research.

  10. LARP Long Nb3Sn Quadrupole Design

    SciTech Connect

    Ambrosio, G.; Andreev, N.; Anerella, M.; Barzi, E.; Bossert, R.; Caspi, S.; Chlachidze, G.; Dietderich, D.; Feher, S.; Felice, H.; Ferracin, P.; /Fermilab /Brookhaven /LBL, Berkeley /Texas A-M

    2007-08-01

    A major milestone for the LHC Accelerator Research Program (LARP) is the test, by the end of 2009, of two 4m-long quadrupole magnets (LQ) wound with Nb3Sn conductor. The goal of these magnets is to be a proof of principle that Nb3Sn is a viable technology for a possible LHC luminosity upgrade. The design of the LQ is based on the design of the LARP Technological Quadrupoles, presently under development at FNAL and LBNL, with 90-mm aperture and gradient higher than 200 T/m. The design of the first LQ model will be completed by the end of 2007 with the selection of a mechanical design. In this paper we present the coil design addressing some fabrication technology issues, the quench protection study, and three designs of the support structure.

  11. Microstructure observations on butt joint composed of Nb3Sn CIC conductors

    NASA Astrophysics Data System (ADS)

    Obana, Tetsuhiro; Tokitani, Masayuki; Takahata, Kazuya; Kizu, Kaname; Murakami, Haruyuki

    2017-01-01

    To precisely evaluate a butt joint technology for the JT-60SA CS coils, microstructure observations on the butt joint composed of Nb3Sn CIC conductors were conducted using a FE-SEM. As a sample for the observations, the butt joint sample utilized in the joint resistance measurement was used. During the sample fabrication, the butt joint sample was heated up to about 920 K from room temperature for diffusion bonding after heat treatment for Nb3Sn production. Then, the sample was subjected to the cycles of electromagnetic force in the joint measurement. The observation results indicated that Nb3Sn strands and a copper sheet were butted properly at the interface of the butt joint. In addition, there were hairline cracks in the Nb3Sn layers of the strands near the interface. To investigate a cause of the crack initiation, the stresses generated in the butt joint under same conditions were analyzed using a simple model. As a result, the cracks would occur with an axial compressive stress generated by the butt joint fabrication.

  12. Design and fabrication of indigenous 30 kA Nb3Sn CICC for fusion relevant superconducting magnet

    NASA Astrophysics Data System (ADS)

    Raj, P.; Ghate, M.; Pradhan, S.; Singh, A.; Hussain, M. M.

    2017-02-01

    “Magnet Technology Development Group” is engaged in focused research and development of indigenous fusion relevant superconducting magnet at Institute for Plasma Research in association with various R&D organizations. The fusion relevant superconducting magnet is under development using a cable in conduit conductor (CICC) with operating current of 30 kA at 12 T and 4.22 K. The 30 kA CICC has been designed in square cross-section (30 mm × 30 mm) consisting twisted Nb3Sn strands and copper strands as superconducting cable, SS316LN tubes as jacket material and SS304L foil as wrapping around the cabled strands. It has been designed on the basis of required critical design parameters, operation requirements and mechanical consideration during its fabrication. Cabling technology required for twisting of Nb3Sn and Copper strand in required configuration of cable is discussed in this paper. The effect of heat treatment on SS316LN jacket material as well as on Nb3Sn strands is mentioned in paper. 100 m long Nb3Sn based CICC is manufactured by pulled through technology on dedicated jacketing line. The manufacturing parameters and quality procedures for development of CICCs is successfully established and have been demonstrated with fabrication of 100 m Nb3Sn based CICC without any technical difficulties.

  13. Heat Treatment Optimization of Rutherford Cables for a 15 T Nb3Sn Dipole Demonstrator

    DOE PAGES

    Barzi, Emanuela; Bossert, Marianne; Field, Michael; ...

    2017-01-09

    FNAL has been developing a 15 T Nb3Sn dipole demonstrator for a future Very High Energy pp Collider based on an optimized 60-mm aperture 4-layer “cos-theta” coil. In order to increase magnet efficiency, we graded the coil by using two cables with same 15 mm width and different thicknesses made of two different Restacked Rod Process (RRP®) wires. Due to the non-uniform field distribution in dipole coils the maximum field in the inner coil will reach 15-16 T, whereas the maximum field in the outer coil is 12-13 T. In preparation for the 15 T dipole coil reaction, heat treatmentmore » studies were performed on strands extracted from these cables with the goal of achieving the best coil performance in the corresponding magnetic fields. Particularly, the effect of maximum temperature and time on the cable critical current was studied to take into account actual variations of these parameters during coil reaction. In parallel and in collaboration with OST, development was performed on optimizing Nb3Sn RRP® wire design and layout. Index Terms— Accelerator magnet, critical current density, Nb3Sn strand, Rutherford cable.« less

  14. Understanding Irreversible Degradation of Nb3Sn Wires with Fundamental Fracture Mechanics

    SciTech Connect

    Zhai, Yuhu; Calzolaio, Ciro; Senatore, Carmine

    2014-08-01

    Irreversible performance degradation of advanced Nb3Sn superconducting wires subjected to transverse or axial mechanical loading is a critical issue for the design of large-scale fusion and accelerator magnets such as ITER and LHC. Recent SULTAN tests indicate that most cable-in-conduit conductors for ITER coils made of Nb3Sn wires processed by various fabrication techniques show similar performance degradation under cyclic loading. The irreversible degradation due to filament fracture and local strain accumulation in Nb3Sn wires cannot be described by the existing strand scaling law. Fracture mechanic modeling combined with X-ray diffraction imaging of filament micro-crack formation inside the wires under mechanical loading may reveal exciting insights to the wire degradation mechanisms. We apply fundamental fracture mechanics with a singularity approach to study influence of wire filament microstructure of initial void size and distribution to local stress concentration and potential crack propagation. We report impact of the scale and density of the void structure on stress concentration in the composite wire materials for crack initiation. These initial defects result in an irreversible degradation of the critical current beyond certain applied stress. We also discuss options to minimize stress concentration in the design of the material microstructure for enhanced wire performance for future applications.

  15. Dimensional changes of Nb3Sn Rutherford cables during heat treatment

    DOE PAGES

    Rochepault, E.; Ferracin, P.; Ambrosio, G.; ...

    2016-06-01

    In high field magnet applications, Nb3Sn coils undergo a heat treatment step after winding. During this stage, coils radially expand and longitudinally contract due to the Nb3Sn phase change. In order to prevent residual strain from altering superconducting performances, the tooling must provide the adequate space for these dimensional changes. The aim of this paper is to understand the behavior of cable dimensions during heat treatment and to provide estimates of the space to be accommodated in the tooling for coil expansion and contraction. In addition, this paper summarizes measurements of dimensional changes on strands, single Rutherford cables, cable stacks,more » and coils performed between 2013 and 2015. These samples and coils have been performed within a collaboration between CERN and the U.S. LHC Accelerator Research Program to develop Nb3Sn quadrupole magnets for the HiLumi LHC. The results are also compared with other high field magnet projects.« less

  16. Nb3Sn SRF Cavities for Nuclear Physics Applications

    NASA Astrophysics Data System (ADS)

    Eremeev, Grigory

    2017-01-01

    Nuclear physics experiments rely increasingly on accelerators, which employ superconducting RF (SRF) technology. CEBAF, SNS, FRIB, ESS, among others exploit the low surface resistance of SRF cavities to efficiently accelerate particle beams towards experimental targets. Niobium is the cavity material of choice for all current or planned SRF accelerators, but it has been long recognized that other superconductors with high superconducting transition temperatures have the potential to surpass niobium for SRF applications. Among the alternatives, Nb3Sn coated cavities are the most advanced on the path to practical applications: Nb3Sn coatings on R&D cavities have Tc consistently close the optimal 18 K, very low RF surface resistances, and very recently were shown to reach above Hc1 without anomalous RF surface resistance increase. In my talk I will discuss the prospects of Nb3Sn SRF cavities, the research efforts to realize Nb3Sn coatings on practical multi-cell accelerating structures, and the path toward possible inclusion in CEBAF. This material is based upon work supported by the U.S. Department of Energy, Office of Science, Office of Nuclear Physics.

  17. Synthesis of superconducting Nb3Sn coatings on Nb substrates

    DOE PAGES

    Barzi, E.; Franz, S.; Reginato, F.; ...

    2015-12-01

    In the present work the electrochemical and thermal syntheses of superconductive Nb3Sn films are investigated. The Nb3Sn phase is obtained by electrodeposition of Sn layers and Cu intermediate layers onto Nb substrates followed by high temperature diffusion in inert atmosphere. Electrodeposition was performed from aqueous solutions at current densities in the 20 to 50 mA/cm2 range and at temperatures between 40 and 50°C. Subsequent thermal treatments were realized to obtain the Nb3Sn superconductive phase. Glow discharge optical emission spectrometry (GDOES) demonstrated that after thermal treatment interdiffusion of Nb and Sn occurred across a thickness of about 13 μm. Scanning Electronmore » Microscopy (SEM) allowed accurately measuring the thickness of the Nb3Sn phase, whose average for the various types of film samples was between 5.7 and 8.0 μm. X-ray diffraction (XRD) patterns confirmed the presence of a cubic Nb3Sn phase (A15 structure) having (210) preferred orientation. The maximum obtained Tc was 17.68 K and the Bc20 ranged between 22.5 T and 23.8 T. With the procedure described in the present paper, coating complex shapes cost-effectively becomes possible, which is typical of electrochemical techniques. Furthermore, this approach can be implemented in classical wire processes such as "Jelly Roll" or "Rod in Tube", or directly used for producing superconducting surfaces. In conclusion, the potential of this method for Superconducting Radiofrequency (SRF) structures is also outlined.« less

  18. Synthesis of superconducting Nb3Sn coatings on Nb substrates

    NASA Astrophysics Data System (ADS)

    Barzi, E.; Bestetti, M.; Reginato, F.; Turrioni, D.; Franz, S.

    2016-01-01

    In the present work the electrochemical and thermal syntheses of superconducting Nb3Sn films are investigated. The Nb3Sn phase is obtained by electrodeposition of Sn layers and Cu intermediate layers onto Nb substrates followed by high temperature diffusion in inert atmosphere. Electrodeposition was performed from aqueous solutions at current densities in the 20-50 mA cm-2 range and at temperatures between 40 °C and 50 °C. Subsequent thermal treatments were realized to obtain the Nb3Sn superconductive phase. Glow discharge optical emission spectrometry demonstrated that after thermal treatment interdiffusion of Nb and Sn occurred across a thickness of about 13 μm. Scanning electron microscopy allowed accurately measuring the thickness of the Nb3Sn phase, whose average for the various types of film samples was between 5.7 and 8.0 μm. X-ray diffraction patterns confirmed the presence of a cubic Nb3Sn phase (A15 structure) having (210) preferred orientation. The maximum obtained T c was 17.68 K and the B c20 ranged between 22.5 and 23.8 T. With the procedure described in the present paper, coating complex shapes cost-effectively becomes possible, which is typical of electrochemical techniques. Furthermore, this approach can be implemented in classical wire processes such as ‘jelly roll’ or ‘rod in tube’, or directly used for producing superconducting surfaces. The potential of this method for superconducting radiofrequency structures is also outlined.

  19. FEMCAM Analysis of SULTAN Test Results for ITER Nb3SN Cable-conduit Conductors

    SciTech Connect

    Yuhu Zhai, Pierluigi Bruzzone, Ciro Calzolaio

    2013-03-19

    Performance degradation due to filament fracture of Nb3 Sn cable-in-conduit conductors (CICCs) is a critical issue in large-scale magnet designs such as ITER which is currently being constructed in the South of France. The critical current observed in most SULTAN TF CICC samples is significantly lower than expected and the voltage-current characteristic is seen to have a much broader transition from a single strand to the CICC. Moreover, most conductors exhibit the irreversible degradation due to filament fracture and strain relaxation under electromagnetic cyclic loading. With recent success in monitoring thermal strain distribution and its evolution under the electromagnetic cyclic loading from in situ measurement of critical temperature, we apply FEMCAM which includes strand filament breakage and local current sharing effects to SULTAN tested CICCs to study Nb3 Sn strain sensitivity and irreversible performance degradation. FEMCAM combines the thermal bending effect during cool down and the EM bending effect due to locally accumulating Lorentz force during magnet operation. It also includes strand filament fracture and related local current sharing for the calculation of cable n value. In this paper, we model continuous performance degradation under EM cyclic loading based on strain relaxation and the transition broadening upon cyclic loading to the extreme cases seen in SULTAN test data to better quantify conductor performance degradation.

  20. An exponential scaling law for the strain dependence of the Nb3Sn critical current density

    NASA Astrophysics Data System (ADS)

    Bordini, B.; Alknes, P.; Bottura, L.; Rossi, L.; Valentinis, D.

    2013-07-01

    The critical current density of the Nb3Sn superconductor is strongly dependent on the strain applied to the material. In order to investigate this dependence, it is a common practice to measure the critical current of Nb3Sn strands for different values of applied axial strain. In the literature, several models have been proposed to describe these experimental data in the reversible strain region. All these models are capable of fitting the measurement results in the strain region where data are collected, but tend to predict unphysical trends outside the range of data, and especially for large strain values. In this paper we present a model of a new strain function, together with the results obtained by applying the new scaling law on relevant datasets. The data analyzed consisted of the critical current measurements at 4.2 K that were carried out under applied axial strain at Durham University and the University of Geneva on different strand types. With respect to the previous models proposed, the new scaling function does not present problems at large strain values, has a lower number of fitting parameters (only two instead of three or four), and is very stable, so that, starting from few experimental points, it can estimate quite accurately the strand behavior in a strain region where there are no data. A relationship is shown between the proposed strain function and the elastic strain energy, and an analogy is drawn with the exponential form of the McMillan equation for the critical temperature.

  1. Analysis of field errors for LARP Nb3Sn HQ03 quadrupole magnet

    DOE PAGES

    Wang, Xiaorong; Ambrosio, Giorgio; Chlachidze, Guram; ...

    2016-12-01

    The U.S. LHC Accelerator Research Program, in close collaboration with CERN, has developed three generations of high-gradient quadrupole (HQ) Nb3Sn model magnets, to support the development of the 150 mm aperture Nb3Sn quadrupole magnets for the High-Luminosity LHC. The latest generation, HQ03, featured coils with better uniformity of coil dimensions and properties than the earlier generations. We tested the HQ03 magnet at FNAL, including the field quality study. The profiles of low-order harmonics along the magnet aperture observed at 15 kA, 1.9 K can be traced back to the assembled coil pack before the magnet assembly. Based on the measuredmore » harmonics in the magnet center region, the coil block positioning tolerance was analyzed and compared with earlier HQ01 and HQ02 magnets to correlate with coil and magnet fabrication. Our study the capability of correcting the low-order non-allowed field errors, magnetic shims were installed in HQ03. Furthermore, the expected shim contribution agreed well with the calculation. For the persistent-current effect, the measured a4 can be related to 4% higher in the strand magnetization of one coil with respect to the other three coils. Lastly, we compare the field errors due to the inter-strand coupling currents between HQ03 and HQ02.« less

  2. Germination et texture du composé supraconducteur Nb3Sn

    NASA Astrophysics Data System (ADS)

    Taillard, R.; Ustinov, A. I.

    2002-07-01

    The composite design and/or manufacturing process of the Nb3Sn multifilamentary strands are continuously changed so as to improve the superconducting behaviour. Such an enhancement depends on both the amount and microstructure of the superconducting phase. The study of the parameters and of the mechanisms of the phase transformations is therefore of the higher importance. The stages of nucleation and growth of the Nb3Sn grains are mainly investigated by thin foil transmission electron microscopy and by X-ray diffraction. The results obtained with the various techniques are shown to be in accordance and to complete each other. An example establishes their usefulness in order to explain the evolution of the critical current density. The effect of the grain misorientation on the critical current density is also considered. L'amélioration du comportement supraconducteur des composites multifilantentaires à base de Nb3Sn passe par la définition de nouveaux designs et/ou de nouveaux procédés de fabrication. Le comportement supraconducteur est régi par la quantité et la microstructure de la phase supraconductrice. Ce dernier paramètre impose d'identifier la nature des mécanismes des transformations de phases et leurs paramèt res. La démarche met en oeuvre la microscopie électronique en transmission et la détermination des orientations cristallographiques aux rayons X. Elle est appliquée aux stades de germination et de croissance des grains de la phase Nb3Sn dans le procédé de la source d'étain interne. Les apports complémentaires et concordants des différentes techniques sont dégagés. L'importance des résultats pour l'interprétation des variations de la densité de courant critique est démontrée par un exemple. L'influence de la désorientation entre les grains sur la densité de courant critique est finalement considérée.

  3. Design, analyses, fabrication and characterization of Nb3Sn coil in 1 W pulse tube cryocooler

    NASA Astrophysics Data System (ADS)

    Kundu, Ananya; Das, Subrat Kumar; Bano, Anees; Kumar, Nitish; Pradhan, Subrata

    2017-02-01

    A laboratory scale Nb3Sn coil is designed, analysed, fabricated and characterized in 1 W pulse tube cryocooler in solid nitrogen cooling mode and in conduction cooling mode. The magnetic field profile in axial and radial direction, Lorentz force component across the winding volume in operational condition are estimated in COMSOL. The coil is designed for 1.5 T at 100 A. It is fabricated in wind and react method. Before winding, the insulated Nb3Sn strand is wound on a copper mandrel which is thermally anchored with the 2nd stage of the cold head unit via a 10 mm thick copper ‘Z’ shaped plate The temperature distribution in 2nd cold stage, copper z plate and coil is monitored in both solid nitrogen cooling and conduction cooling mode. In solid nitrogen cooling mode, the quench of the coil occurs at 150 A for 0.01 A/s current ramp rate. The magnetic field at the centre of the coil bore is measured using transverse Hall sensor. The measured magnetic field value is compared with the analytical field value and they are found to be deviating ∼5% in magnitude. Again the coil is tested in conduction cooling mode maintaining the same current ramp rate and it is observed that the coil gets quenched at 70 A at temperature ∼ 10K.

  4. Properties and performance of fine-filament bronze-process Nb3Sn conductors

    NASA Technical Reports Server (NTRS)

    Walker, M. S.; Cutro, J. M.; Zeitlin, B. A.; Ozeryansky, G. M.; Schwall, R. E.; Oberly, C. E.; Ho, J. C.; Woollam, J. A.

    1979-01-01

    Fine-filament bronze-process Nb3Sn superconductors were fabricated to fulfill stringent requirements on critical current under tension in a one-inch bend diameter, current density, stability, and conductor losses. A large fraction of niobium filaments was incorporated in a bronze matrix, and a cable containing 4453 2-micron diameter filaments in each of six strands provided a current density of 85,000 A/sq cm at 10 to the -11th ohm-cm, 10 T, and 4.2 K. The next step was to incorporate copper stabilizer in a conductor with 20,538 filaments. These conductors, fabricated so that bend strains of about 1% would be experienced by the filaments in the one-inch bend, stably carried currents in the 200-500 A range. A quench current of 540 A in a 5-cm bend corresponds to 158,000 A/sq cm in the bronze and filament area, believed to be the highest critical current density reported for multifilamentary Nb3Sn.

  5. Current Progress in Fabrication of a 14 Tesla Nb3Sn Dipole

    NASA Astrophysics Data System (ADS)

    Holik, Eddie, III; Benson, Christopher; Damborsky, Kyle; Diaczenko, Nick; Elliott, Tim; Garrison, Ray; Jaisle, Andrew; McInturff, Alfred; McIntyre, Peter; Sattarov, Dior

    2012-03-01

    The Accelerator Technology Laboratory at Texas A&M is fabricating a model dipole magnet, TAMU3, designed to operate at a 14 Tesla bore field. The dipole employs an advanced internal-tin Nb3Sn/Cu composite strand with enhanced current density. The coils must be processed through a heat treatment after winding, during which the Sn within the heterogeneous strands diffuse into the Cu/Nb matrix to form high-performance superconducting layers. Heat treatment of the first coil assembly revealed tin leakage from the Sn cores that was caused by omission of a pre-anneal step in the heat treatment. We are evaluating the electrical properties of the coil, the microstructure and short-sample superconducting performance of cut-off samples of current leads to determine the extent of damage to the performance of the windings. Results of those tests and plans for construction of TAMU3 will be presented.

  6. Direct measurement of elastic modulus of Nb 3Sn using extracted filaments from superconducting composite wire and resin impregnation method

    NASA Astrophysics Data System (ADS)

    Hojo, M.; Matsuoka, T.; Hashimoto, M.; Tanaka, M.; Sugano, M.; Ochiai, S.; Miyashita, K.

    2006-10-01

    Young's modulus of Nb3Sn filaments in Nb3Sn/Cu superconducting composite wire was investigated in detail. Nb3Sn filaments were first extracted from composite wire. Nitric acid and hydrofluoric acid were used to remove copper stabilizer, Nb3Sn/Nb barrier and bronze. Then, Nb3Sn filaments were impregnated with epoxy resin to form simple filament bundle composite rods. A large difference in Young's moduli of filaments and epoxy resin enhance the accuracy of the measurement of Nb3Sn filament modulus. The ratio of Nb3Sn to Nb in filaments and the number of filaments in the fiber bundle composite rods were used in the final calculation of the Young's modulus of Nb3Sn. The obtained modulus of 127 GPa was the lower bound of the already reported values.

  7. Design of Nb3Sn coils for LARP long magnets

    SciTech Connect

    Ambrosio, G.; Andreev, N.; Anerella, M.; Barzi, E.; Bossert, R.; Dietderich, D.; Feher, S.; Ferracin, P.; Ghosh, A.; Gourlay, S.; Kashikhin, V.V.; /Fermilab /Brookhaven /LBL, Berkeley /Texas A-M

    2006-08-01

    The LHC Accelerator Research Program (LARP) has a primary goal to develop, assemble, and test full size Nb{sub 3}Sn quadrupole magnet models for a luminosity upgrade of the Large Hadron Collider (LHC). A major milestone in this development is to assemble and test, by the end of 2009, two 4m-long quadrupole cold masses, which will be the first Nb3Sn accelerator magnet models approaching the length of real accelerator magnets. The design is based on the LARP Technological Quadrupoles (TQ), under development at FNAL and LBNL, with gradient higher than 200 T/m and aperture of 90 mm. The mechanical design will be chosen between two designs presently explored for the TQs: traditional collars and Al-shell based design (preloaded by bladders and keys). The fabrication of the first long quadrupole model is expected to start in the last quarter of 2007. Meanwhile the fabrication of 4m-long racetrack coils started this year at BNL. These coils will be tested in an Al-shell based supporting structure developed at LBNL. Several challenges have to be addressed for the successful fabrication of long Nb{sub 3}Sn coils. This paper presents these challenges with comments and solutions adopted or under study for these magnets. The coil design of these magnets, including conductor and insulation features, and quench protection studies are also presented.

  8. PERSISTENT CURRENT EFFECT IN 15-16 T NB3SN ACCELERATOR DIPOLES AND ITS CORRECTION

    SciTech Connect

    Kashikhin, V. V.; Zlobin, A. V.

    2016-11-08

    Nb3Sn magnets with operating fields of 15-16 T are considered for the LHC Energy Doubler and a future Very High Energy pp Collider. Due to large coil volume, high critical current density and large superconducting (SC) filament size the persistent current effect is very large in Nb3Sn dipoles al low fields. This paper presents the results of analysis of the persistent current effect in the 15 T Nb3Sn dipole demonstrator being developed at FNAL, and describes different possibilities of its correction including passive SC wires, iron shims and coil geometry.

  9. A multiple-field coupled resistive transition model for superconducting Nb3Sn

    NASA Astrophysics Data System (ADS)

    Yang, Lin; Ding, He; Zhang, Xin; Qiao, Li

    2016-12-01

    A study on the superconducting transition width as functions of the applied magnetic field and strain is performed in superconducting Nb3Sn. A quantitative, yet universal phenomenological resistivity model is proposed. The numerical simulation by the proposed model shows predicted resistive transition characteristics under variable magnetic fields and strain, which in good agreement with the experimental observations. Furthermore, a temperature-modulated magnetoresistance transition behavior in filamentary Nb3Sn conductors can also be well described by the given model. The multiple-field coupled resistive transition model is helpful for making objective determinations of the high-dimensional critical surface of Nb3Sn in the multi-parameter space, offering some preliminary information about the basic vortex-pinning mechanisms, and guiding the design of the quench protection system of Nb3Sn superconducting magnets.

  10. Development of an Innovative Insulation for Nb3Sn Wind and React Coils

    NASA Astrophysics Data System (ADS)

    Puigsegur, A.; Rondeaux, F.; Prouzet, E.; Samoogabalan, K.

    2004-06-01

    At the present time, Nb3Sn is the best superconductor candidate for the realization of high field magnets (>10-11 teslas). However its implementation remains delicate because of the great brittleness of material after the heat treatment necessary to form the Nb3Sn compounds. The conventional insulation for Nb3Sn wind & react coils requires performing, after the heat treatment, a vacuum resin impregnation, which adds to the cost and raises failure risk. We propose a one-step innovating ceramic insulation deposited directly on the un-reacted conducting cable. The conducting cable is wound according to conventional techniques and, after the heat treatment necessary to the form the Nb3Sn, we obtain a coil having a mechanical cohesion, while maintaining a proper conductor positioning and a suitable electric insulation. We will have studied the electric properties of superconducting cable isolated at the room temperature and at 4.2 K.

  11. Nb3Sn superconducting radiofrequency cavities: fabrication, results, properties, and prospects

    NASA Astrophysics Data System (ADS)

    Posen, S.; Hall, D. L.

    2017-03-01

    A microns-thick film of Nb3Sn on the inner surface of a superconducting radiofrequency (SRF) cavity has been demonstrated to substantially improve cryogenic efficiency compared to the standard niobium material, and its predicted superheating field is approximately twice as high. We review in detail the advantages of Nb3Sn coatings for SRF cavities. We describe the vapor diffusion process used to fabricate this material in the most successful experiments, and we compare the differences in the process used at different labs. We overview results of Nb3Sn SRF coatings, including CW and pulsed measurements of cavities as well as microscopic measurements. We discuss special considerations that must be practised when using Nb3Sn cavities in applications. Finally, we conclude by summarizing the state-of-the-art and describing the outlook for this alternative SRF material.

  12. Validation of Finite-Element Models of Persistent-Current Effects in Nb3Sn Accelerator Magnets

    DOE PAGES

    Wang, X.; Ambrosio, G.; Chlachidze, G.; ...

    2015-01-06

    Persistent magnetization currents are induced in superconducting filaments during the current ramping in magnets. The resulting perturbation to the design magnetic field leads to field quality degradation, in particular at low field where the effect is stronger relative to the main field. The effects observed in NbTi accelerator magnets were reproduced well with the critical-state model. However, this approach becomes less accurate for the calculation of the persistent-current effects observed in Nb3Sn accelerator magnets. Here a finite-element method based on the measured strand magnetization is validated against three state-of-art Nb3Sn accelerator magnets featuring different subelement diameters, critical currents, magnet designsmore » and measurement temperatures. The temperature dependence of the persistent-current effects is reproduced. Based on the validated model, the impact of conductor design on the persistent current effects is discussed. The performance, limitations and possible improvements of the approach are also discussed.« less

  13. Effects of core type, placement, and width on the estimated interstrand coupling properties of QXF-type Nb3Sn Rutherford cables

    DOE PAGES

    Collings, E. W.; Sumption, M. D.; Majoros, M.; ...

    2015-01-12

    The coupling magnetization of a Rutherford cable is inversely proportional to an effective interstrand contact resistance Reff , a function of the crossing-strand resistance Rc, and the adjacent strand resistance Ra. In cored cables, Reff continuously varies with W, the core width expressed as percent interstrand cover. For a series of un-heat-treated stabrite-coated NbTi LHC-inner cables with stainless-steel (SS, insulating) cores, Reff (W) decreased smoothly as W decreased from 100%, whereas for a set of research-wound SS-cored Nb3Sn cables, Reff plummeted abruptly and remained low over most of the range. The difference is due to the controlling influence of Rcmore » - 2.5 μΩ for the stabrite/NbTi and 0.26 μΩ for Nb3Sn. The experimental behavior was replicated in the Reff (W)’s calculated by the program CUDI, which (using the basic parameters of the QXF cable) went on to show in terms of decreasing W that: 1) in QXF-type Nb3Sn cables (Rc = 0.26 μΩ), Reff dropped even more suddenly when the SS core, instead of being centered, was offset to one edge of the cable; 2) Reff decreased more gradually in cables with higher Rc’s; and 3) a suitable Reff for a Nb3Sn cable can be achieved by inserting a suitably resistive core rather than an insulating (SS) one.« less

  14. LARP Long Quadrupole: A "Long" Step Toward an LHC Luminosity Upgrade with Nb3Sn Magnets

    SciTech Connect

    Ambrosio, Giorgio

    2008-02-13

    The beginning of the development of Nb3Sn magnets for particle accelerators goes back to the 1960's. But only very recently has this development begun to face the challenges of fabricating Nb3Sn magnets which can meet the requirements of modern particle accelerators. LARP (the LHC Accelerator Research Program) is leading this effort focusing on long models of the Interaction Region quadrupoles for a possible luminosity upgrade of the Large Hadron Collider. A major milestone in this development is to test, by the end of 2009, 4m-long quadrupole models, which will be the first Nb3Sn accelerator-type magnets approaching the length of real accelerator magnets. The Long Quadrupoles (LQ) are 'Proof-of-Principle' magnets which are to demonstrate that Nb3Sn technology is sufficiently mature for use in high energy particle accelerators. Their design is based on the LARP Technological Quadrupole (TQ) models, under development at FNAL and LBNL, which have design gradients higher than 200 T/m and an aperture of 90 mm. Several challenges must be addressed for the successful fabrication of long Nb3Sn coils and magnets. These challenges and the solutions adopted will be presented together with the main features of the LQ magnets. Several R&D lines are participating to this effort and their contributions will be also presented.

  15. RECENT STUDIES ON THE CURRENT LIMITATIONS OF STATE-OF-THE-ART Nb3Sn CAVITIES

    SciTech Connect

    Hall, Daniel Leslie; Liepe, Matthias; Maniscalco, J. T.; Posen, Sam; Proslier, T.

    2015-01-01

    Recent advances in the study of Nb3Sn at Cornell University have yielded single-cell cavities that show excellent performance without the limiting Q-slope seen in previous work. This performance has been shown to be repeatable across multiple cavities. However, they are still limited by a quench field of approximately 16 MV/m, as well as residual resistance. In this work we present results quantifying the impact of ambient magnetic fields on Nb3Sn cavities, as well as discuss the impact of cavity cooldown procedures on cavity performance. Finally, we will briefly discuss XRD results that shed light on the composition of the Nb3Sn layer and how this relates to the current limits of these cavities.

  16. Quench protection studies of the 11-T Nb3Sn dipole for the LHC upgrade

    DOE PAGES

    Bermudez, Susana Izquierdo; Auchmann, Bernhard; Bajas, Hugues; ...

    2016-06-01

    The planned upgrade of the LHC collimation system foresees additional collimators to be installed in the dispersion suppressor areas. Fermilab and CERN are developing an 11 T Nb3Sn dipole to replace some 8.33 T-15-m-long Nb-Ti LHC main dipoles providing longitudinal space for the collimators. In case of a quench, the large stored energy and the low copper stabilizer fraction make the protection of the 11 T Nb3Sn dipoles challenging. This paper presents the results of quench protection analysis, including quench protection heater design and efficiency, quench propagation and coil heating. The numerical results are compared with the experimental data frommore » the 2-m-long Nb3Sn dipole models. Here, the validated model is used to predict the current decay and hot spot temperature under operating conditions in the LHC and the presently foreseen magnet protection scheme is discussed.« less

  17. Strain sensitivity and superconducting properties of Nb3Sn from first principles calculations

    NASA Astrophysics Data System (ADS)

    De Marzi, G.; Morici, L.; Muzzi, L.; della Corte, A.; Buongiorno Nardelli, M.

    2013-04-01

    Using calculations from first principles based on density-functional theory we have studied the strain sensitivity of the A15 superconductor Nb3Sn. The Nb3Sn lattice cell was deformed in the same way as observed experimentally on multifilamentary, technological wires subject to loads applied along their axes. The phonon dispersion curves and electronic band structures along different high-symmetry directions in the Brillouin zone were calculated, at different levels of applied strain, ɛ, on both the compressive and the tensile side. Starting from the calculated averaged phonon frequencies and electron-phonon coupling, the superconducting characteristic critical temperature of the material, Tc, has been calculated by means of the Allen-Dynes modification of the McMillan formula. As a result, the characteristic bell-shaped Tc versus ɛ curve, with a maximum at zero intrinsic strain, and with a slight asymmetry between the tensile and compressive sides, has been obtained. These first-principle calculations thus show that the strain sensitivity of Nb3Sn has a microscopic and intrinsic origin, originating from shifts in the Nb3Sn critical surface. In addition, our computations show that variations of the superconducting properties of this compound are correlated to stress-induced changes in both the phononic and electronic properties. Finally, the strain function describing the strain sensitivity of Nb3Sn has been extracted from the computed Tc(ɛ) curve, and compared to experimental data from multifilamentary, composite wires. Both curves show the expected bell-shaped behavior, but the strain sensitivity of the wire is enhanced with respect to the theoretical predictions for bulk, perfectly binary and stoichiometric Nb3Sn. An understanding of the origin of this difference might open potential pathways towards improvement of the strain tolerance in such systems.

  18. Quench Protection Studies of 11T Nb$_3$Sn Dipole Models for LHC Upgrades

    SciTech Connect

    Zlobin, Alexander; Chlachidze, Guram; Nobrega, Alfred; Novitski, Igor; Karppinen, Mikko

    2014-07-01

    CERN and FNAL are developing 11 T Nb3Sn dipole magnets for the LHC collimation system upgrade. Due to the large stored energy, protection of these magnets during a quench is a challenging problem. This paper reports the results of experimental studies of key quench protection parameters including longitudinal and radial quench propagation in the coil, coil heating due to a quench, and energy extraction and quench-back effect. The studies were performed using a 1 m long 11 T Nb3Sn dipole coil tested in a magnetic mirror configuration.

  19. Status of 11 T 2-in-1 Nb$_3$Sn Dipole Development for LHC

    SciTech Connect

    Zlobin, Alexander; Andreev, Nicolai; Apollinari, Giorgio; Barzi, Emanuela; Bossert, Rodger; Buehler, Marc; Chlachidze, Guram; DiMarco, Joseph; Nobrega, Alfred; Novitski, Igor; Turrioni, Daniele; Velev, Gueorgui; Auchmann, Bernhard; Karppinen, Mikko; Rossi, Lucio; Smekens, David

    2014-07-01

    The LHC upgrade plans foresee installation of additional collimators in the LHC lattice. To provide the necessary longitudinal space for these collimators, shorter and stronger Nb3Sn dipoles compatible with the LHC lattice and main systems could be used. This paper describes the design and status of the twin-aperture Nb3Sn dipole being developed by FNAL and CERN for the LHC, and reports test results of two collared coils to be used in the first 1 m long twin-aperture dipole model.

  20. Tests of Insulation Systems for Nb3SN Wind and React Coils

    NASA Astrophysics Data System (ADS)

    Bossert, R.; Ambrosio, G.; Andreev, N.; Whitson, G.; Zlobin, A.

    2008-03-01

    Tests were performed to assess the viability of several cable insulation systems for use in Nb3Sn accelerator magnets. Insulated stacks of cables were subjected to reaction cycles commonly used for Nb3Sn coils. After reaction and epoxy impregnation, current leakage between turns was measured at pressures up to 180 MPa and turn-to-turn potentials up to 500 V. Systems consisting of S-2 glass, ceramic fiber, and E-glass were tested. Several methods of applying the insulation were incorporated, including sleeves and various spiral wrapped configurations. Methods of sample preparation and testing are described and results are reported.

  1. Critical current density of Nb3Sn wires after irradiation with 65MeV and 24GeV protons

    NASA Astrophysics Data System (ADS)

    Spina, T.; Scheuerlein, C.; Richter, D.; Bottura, L.; Ballarino, A.; Flükiger, R.

    2014-05-01

    Industrial Nb3Sn wires with Ti and Ta additives (RRP process) and with Ta additives (PIT process) with a diameter of 1 mm have been irradiated at room temperature with protons of 65 MeV and of 24 GeV at various fluences up to 1×1021 p/m2. A steady increase of Jc vs. fluence was observed for all the wires up to the highest fluence. The observed increase of Jc at 4.2K in all wires was quite similar in spite of the very different proton energies. With increasing fluence. the radiation induced pinning force was found to increase. the enhancement Jc/Jco after 5.04×1020 p/m2 reaching 1.4 for Ta and 1.8 for Ti alloyed wires at 10T. The present results were quantitatively analysed by assuming a radiation induced point pinning mechanism in addition to grain boundary pinning. The results are compared with those of an ongoing neutron irradiation study undertaken on the same Nb3Sn wires in collaboration with the Atominstitut Vienna. Proton irradiation was found to produce considerably higher damage than neutron irradiation.

  2. Design Concept and Parameters of a 15 T $Nb_{3}Sn$ Dipole Demonstrator for a 100 TEV Hadron Collider

    SciTech Connect

    Zlobin, A. V.; Andreev, N.; Barzi, E.; Kashikhin, V. V.; Novitski, I.

    2015-06-01

    FNAL has started the development of a 15 T $Nb_{3}Sn$ dipole demonstrator for a 100 TeV scale hadron collider. This paper describes the design concept and parameters of the 15 T $Nb_{3}Sn$ dipole demonstrator. The dipole magnetic, mechanical and quench protection concept and parameters are presented and discussed.

  3. Advances in development of Nb3Sn superconducting radio-frequency cavities

    NASA Astrophysics Data System (ADS)

    Posen, Sam; Liepe, Matthias

    2014-11-01

    A 1.3 GHz Nb3Sn superconducting radio-frequency cavity prepared with a modified annealing step reached Bp k>50 mT , well above Bc 1=25 ±7 mT , without the strong Q -slope observed in previous Nb3Sn cavities. At 4.2 K, it has a Q0 of approximately 1 ×1 010 at >10 MV /m , far outperforming Nb at useable gradients. At 2 K, quench occurred at ˜55 mT , apparently due to a defect, so additional treatment may increase the maximum gradient. Material parameters of the coating were extracted from Q vs T data, including a Tc of 18.0 ±0.1 K , close to the maximum literature value. High power pulses were used to reach fields far higher than in CW measurements, and near Tc, quench fields close to the superheating field were observed. Based on a review of previous experience with Nb3Sn cavities, a speculative mechanism involving weak link grain boundaries is presented to explain how the modified annealing step could be the cause of the absence of strong Q -slope. Finally, an analysis of the progress to date provides hints that the path forward for Nb3Sn cavities should focus on minimizing defects.

  4. Test results of a Nb3Al/Nb3Sn subscale magnet for accelerator application

    DOE PAGES

    Iio, Masami; Xu, Qingjin; Nakamoto, Tatsushi; ...

    2015-01-28

    The High Energy Accelerator Research Organization (KEK) has been developing a Nb3Al and Nb3Sn subscale magnet to establish the technology for a high-field accelerator magnet. The development goals are a feasibility demonstration for a Nb3Al cable and the technology acquisition of magnet fabrication with Nb3Al superconductors. KEK developed two double-pancake racetrack coils with Rutherford-type cables composed of 28 Nb3Al wires processed by rapid heating, quenching, and transformation in collaboration with the National Institute for Materials Science and the Fermi National Accelerator Laboratory. The magnet was fabricated to efficiently generate a high magnetic field in a minimum-gap common-coil configuration with twomore » Nb3Al coils sandwiched between two Nb3Sn coils produced by the Lawrence Berkeley National Laboratory. A shell-based structure and a “bladder and key” technique have been used for adjusting coil prestress during both the magnet assembly and the cool down. In the first excitation test of the magnet at 4.5 K performed in June 2014, the highest quench current of the Nb3Sn coil, i.e., 9667 A, was reached at 40 A/s corresponding to 9.0 T in the Nb3Sn coil and 8.2 T in the Nb3Al coil. The quench characteristics of the magnet were studied.« less

  5. Development of a 15 T Nb3Sn accelerator dipole demonstrator at Fermilab

    DOE PAGES

    Novitski, I.; Andreev, N.; Barzi, E.; ...

    2016-06-01

    Here, a 100 TeV scale Hadron Collider (HC) with a nominal operation field of at least 15 T is being considered for the post-LHC era, which requires using the Nb3Sn technology. Practical demonstration of this field level in an accelerator-quality magnet and substantial reduction of the magnet costs are the key conditions for realization of such a machine. FNAL has started the development of a 15 T Nb3Sn dipole demonstrator for a 100 TeV scale HC. The magnet design is based on 4-layer shell type coils, graded between the inner and outer layers to maximize the performance and reduce themore » cost. The experience gained during the Nb3Sn magnet R&D is applied to different aspects of the magnet design. This paper describes the magnetic and structural designs and parameters of the 15 T Nb3Sn dipole and the steps towards the demonstration model fabrication.« less

  6. Radio Frequency Magnetic Field Limits of Nb and Nb_{3}Sn.

    PubMed

    Posen, S; Valles, N; Liepe, M

    2015-07-24

    Superconducting radio frequency (srf) cavities, essential components of many large particle accelerators, rely on the metastable flux-free state of superconducting materials. In this Letter, we present results of experiments measuring the magnetic field limits of two srf materials, Nb and Nb_{3}Sn. Resonators made using these materials were probed using both high power rf pulses and dc magnetic fields. Nb, which is the current standard material for srf cavities in applications, was found to be limited by the superheating field H_{sh} when prepared using methods to avoid excessive rf dissipation at high fields. Nb_{3}Sn, which is a promising alternative material that is still in the early stages of development for srf purposes, was found to be limited between the onset field of metastability H_{c1} and H_{sh}. Analysis of the results shows that the limitation is consistent with nucleation of flux penetration at defects in the rf layer.

  7. Radio Frequency Magnetic Field Limits of Nb and Nb3 Sn

    NASA Astrophysics Data System (ADS)

    Posen, S.; Valles, N.; Liepe, M.

    2015-07-01

    Superconducting radio frequency (srf) cavities, essential components of many large particle accelerators, rely on the metastable flux-free state of superconducting materials. In this Letter, we present results of experiments measuring the magnetic field limits of two srf materials, Nb and Nb3 Sn . Resonators made using these materials were probed using both high power rf pulses and dc magnetic fields. Nb, which is the current standard material for srf cavities in applications, was found to be limited by the superheating field Hsh when prepared using methods to avoid excessive rf dissipation at high fields. Nb3Sn , which is a promising alternative material that is still in the early stages of development for srf purposes, was found to be limited between the onset field of metastability Hc 1 and Hsh. Analysis of the results shows that the limitation is consistent with nucleation of flux penetration at defects in the rf layer.

  8. "Engineered dual NbTa barriers for higher Jc Nb3Sn superconductors"

    SciTech Connect

    Robert E. Barber; Karl T. Hartwig

    2012-07-07

    The tantalum (Ta) diffusion barrier in advanced Nb3Sn superconductors often develops a failure mode during wire drawing where the Nb and Ta layers deform non-uniformly leading to a rough interface with adjacent copper. The non-uniform deformation of these layers can lead to premature wire breakage and breaches in the barrier, and contamination of the copper stabilizer by tin (Sn). The objective of the proposed work was to demonstrate that a dual NbTa layer made from severely deformed Nb and Ta exhibits improved co-deformation behavior with pure Cu in advanced Nb3Sn superconductors. This phase I project demonstrated improved microstructural uniformity and superior mechanical property characteristics of equal channel angular extrusion (ECAE) processed and rolled Nb and Ta sheets. The results of this work point to a method for fabrication of higher field and lower cost superconducting magnets for high energy physics applications.

  9. Fabrication of 'TAMU3', a 'Wind/React' stress-managed 14T Nb3Sn block coil design

    NASA Astrophysics Data System (ADS)

    Blackburn, R.; Diaczenko, N.; Elliott, T.; Jaisle, A.; McInturff, A.; McIntyre, P.; Sattarov, A.

    2008-02-01

    The third phase of a high field dipole technology development, a full set (2+) of Stress-Managed winding modules is being fabricated. The dipole fabrication uses tooling, fixtures, procedures and technology modified and updated based on the second phase work and results reported plus new material developments and higher performance strand. The strand was furnished by the DOE HEP Nb3Sn conductor development program. The modules' cables were processed and cabled by the LBNL facility using the latest procedures developed. There were several new materials and processes introduced in this third phase to improve performance or simplify the fabrication which will be discussed. If all the performance inherent in the strand were to be achieved then the peak field should be higher than 14 T. The containment and flux return structure are the same as used in phase 2. This phase of the development will constitute the outer winding modules of a 'Collider' prototype Block dipole with Stress-Management. The lessons learned and the results obtained will be discussed.

  10. Testing of a Single 11 T $Nb_3Sn$ Dipole Coil Using a Dipole Mirror Structure

    SciTech Connect

    Zlobin, Alexander; Andreev, Nicolai; Barzi, Emanuela; Chlachidze, Guram; Kashikhin, Vadim; Nobrega, Alfred; Novitski, Igor; Turrioni, Daniele; Karppinen, Mikko; Smekens, David

    2014-07-01

    FNAL and CERN are developing an 11 T Nb3Sn dipole suitable for installation in the LHC. To optimize coil design parameters and fabrication process and study coil performance, a series of 1 m long dipole coils is being fabricated. One of the short coils has been tested using a dipole mirror structure. This paper describes the dipole mirror magnetic and mechanical designs, and reports coil parameters and test results.

  11. Magnetic and Structural Design of a 15 T $Nb_3Sn$ Accelerator Depole Model

    SciTech Connect

    Kashikhin, V. V.; Andreev, N.; Barzi, E.; Novitski, I.; Zlobin, A. V.

    2015-01-01

    Hadron Colliders (HC) are the most powerful discovery tools in modern high energy physics. A 100 TeV scale HC with a nominal operation field of at least 15 T is being considered for the post-LHC era. The choice of a 15 T nominal field requires using the Nb3Sn technology. Practical demonstration of this field level in an accelerator-quality magnet and substantial reduction of the magnet costs are the key conditions for realization of such a machine. FNAL has started the development of a 15 T $Nb_{3}Sn$ dipole demonstrator for a 100 TeV scale HC. The magnet design is based on 4-layer shell type coils, graded between the inner and outer layers to maximize the performance. The experience gained during the 11-T dipole R&D campaign is applied to different aspects of the magnet design. This paper describes the magnetic and structural designs and parameters of the 15 T $Nb_3Sn$ dipole and the steps towards the demonstration model.

  12. Cable deformation simulation and a hierarchical framework for Nb3Sn Rutherford cables

    SciTech Connect

    Arbelaez, D.; Prestemon, S. O.; Ferracin, P.; Godeke, A.; Dietderich, D. R.; Sabbi, G.

    2009-09-13

    Knowledge of the three-dimensional strain state induced in the superconducting filaments due to loads on Rutherford cables is essential to analyze the performance of Nb{sub 3}Sn magnets. Due to the large range of length scales involved, we develop a hierarchical computational scheme that includes models at both the cable and strand levels. At the Rutherford cable level, where the strands are treated as a homogeneous medium, a three-dimensional computational model is developed to determine the deformed shape of the cable that can subsequently be used to determine the strain state under specified loading conditions, which may be of thermal, magnetic, and mechanical origins. The results can then be transferred to the model at the strand/macro-filament level for rod restack process (RRP) strands, where the geometric details of the strand are included. This hierarchical scheme can be used to estimate the three-dimensional strain state in the conductor as well as to determine the effective properties of the strands and cables from the properties of individual components. Examples of the modeling results obtained for the orthotropic mechanical properties of the Rutherford cables are presented.

  13. The Study of Single Nb3Sn Quadrupole Coils Using a Magnetic Mirror Structure

    SciTech Connect

    Chlachidze, G.; Andreev, N.; Barzi, E.; Bossert, R.; Kashikhin, V.S.; Kashikhin, V.V.; Lamm, M.J.; Nobrega, N.; Novitski, I.; Orris, D.; Tartaglia, M.

    2010-07-30

    Several 90-mm quadrupole coils made of 0.7-mm Nb{sub 3}Sn strand based on the 'Restack Rod Process' (RRP) of 108/127 design, with cored and non-cored cables and different cable insulation, were fabricated and individually tested at Fermilab using a test structure designed to provide a quadrupole magnetic field environment. The coils were instrumented with voltage taps and strain gauges to study quench performance and mechanical properties. The Nb{sub 3}Sn strand and cable parameters, the coil fabrication details, the mirror model assembly procedure and test results at temperatures of 4.5 K and 1.9 K are reported and discussed.

  14. HIGH Q0 AT MEDIUM FIELDS IN Nb3Sn SRF CAVITIES AT 4.2 K

    SciTech Connect

    Posen, Sam; Hall, Daniel Leslie; Liepe, Matthias; Proslier, T.

    2015-01-01

    Nb3Sn has proven itself to be a very promising alternative SRF material. With twice the critical temperature of niobium cavities, 1.3 GHz Nb3Sn cavities can achieve quality factors on the order of 1010 even at 4.2 K, significantly reducing cryogenic infrastructure and operational costs. In addition, its large predicted superheating field may allow for maximum accelerating gradients up to twice that of niobium for high energy applications. In this work, we report on new cavity results fromthe CornellNb3Sn SRF program demonstrating a significant improvement in the maximum field achieved with high Q0 in a Nb3Sn cavity. At 4.2 K, accelerating gradients above 16MV/m were obtainedwith Q0 of 8 × 109, showing the potential of this material for future applications. In addition to this result, current limitations are discussed.

  15. Nb3Sn superconducting magnets for electron cyclotron resonance ion sources.

    PubMed

    Ferracin, P; Caspi, S; Felice, H; Leitner, D; Lyneis, C M; Prestemon, S; Sabbi, G L; Todd, D S

    2010-02-01

    Electron cyclotron resonance (ECR) ion sources are an essential component of heavy-ion accelerators. Over the past few decades advances in magnet technology and an improved understanding of the ECR ion source plasma physics have led to remarkable performance improvements of ECR ion sources. Currently third generation high field superconducting ECR ion sources operating at frequencies around 28 GHz are the state of the art ion injectors and several devices are either under commissioning or under design around the world. At the same time, the demand for increased intensities of highly charged heavy ions continues to grow, which makes the development of even higher performance ECR ion sources a necessity. To extend ECR ion sources to frequencies well above 28 GHz, new magnet technology will be needed in order to operate at higher field and force levels. The superconducting magnet program at LBNL has been developing high field superconducting magnets for particle accelerators based on Nb(3)Sn superconducting technology for several years. At the moment, Nb(3)Sn is the only practical conductor capable of operating at the 15 T field level in the relevant configurations. Recent design studies have been focused on the possibility of using Nb(3)Sn in the next generation of ECR ion sources. In the past, LBNL has worked on the VENUS ECR, a 28 GHz source with solenoids and a sextupole made with NbTi operating at fields of 6-7 T. VENUS has now been operating since 2004. We present in this paper the design of a Nb(3)Sn ECR ion source optimized to operate at an rf frequency of 56 GHz with conductor peak fields of 13-15 T. Because of the brittleness and strain sensitivity of Nb(3)Sn, particular care is required in the design of the magnet support structure, which must be capable of providing support to the coils without overstressing the conductor. In this paper, we present the main features of the support structure, featuring an external aluminum shell pretensioned with water

  16. Finite-element analysis of transverse compressive and thermal loads on Nb3Sn wires with voids

    DOE PAGES

    Zhai, Y.; D'Hauthuille, L.; Barth, C.; ...

    2016-02-29

    High-field superconducting magnets play a very important role in many large-scale physics experiments, particularly particle colliders and fusion confinement devices such as Large Hadron Collider (LHC) and International Thermonuclear Experimental Reactor (ITER). The two most common superconductors used in these applications are NbTi and Nb3Sn. Nb3Sn wires are favored because of their significantly higher Jc (critical current density) for higher field applications. The main disadvantage of Nb3Sn is that the superconducting performance of the wire is highly strain sensitive and it is very brittle. This strain sensitivity is strongly influenced by two factors: plasticity and cracked filaments. Cracks are inducedmore » by large stress concentrators that can be traced to the presence of voids in the wire. We develop detailed 2-D and 3-D finite-element models containing wire filaments and different possible distributions of voids in a bronze-route Nb3Sn wire. We apply compressive transverse loads for various cases of void distributions to simulate the stress and strain response of a Nb3Sn wire under the Lorentz force. Furthermore, this paper improves our understanding of the effect voids have on the Nb3Sn wire's mechanical properties, and in so, the connection between the distribution of voids and performance degradation such as the correlation between irreversible strain limit and the void-induced local stress concentrations.« less

  17. Testing of Nb3Sn quadrupole coils using magnetic mirror structure

    SciTech Connect

    Zlobin, A.V.; Andreev, N.; Barzi, E.; Bossert, R.; Chlachidze, G.; Kashikhin, V.S.; Kashikhin, V.V.; Lamm, M.; Novitski, I.; Tartaglia, M.; Tompkins, J.C.; /Fermilab

    2009-07-01

    This paper describes the design and parameters of a quadrupole mirror structure for testing the mechanical, thermal and quench performance of single shell-type superconducting quadrupole coils at field, current and force levels similar to that of real magnet. The concept was experimentally verified by testing two quadrupole coils, previously used in quadrupole models, in the developed mirror structure in the temperature range from 4.5 to 1.9 K. The coils were instrumented with voltage taps, heaters, and strain gauges to monitor their mechanical and thermal properties and quench performance. A new quadrupole coil made of improved Nb{sub 3}Sn RRP-108/127 strand and cable insulation based on E-glass tape was also tested using this structure. The fabrication and test results of the quadrupole mirror models are reported and discussed.

  18. Effect of quasi-hydrostatical radial pressure on Ic of Nb3Sn wires

    NASA Astrophysics Data System (ADS)

    Mondonico, G.; Seeber, B.; Ferreira, A.; Bordini, B.; Oberli, L.; Bottura, L.; Ballarino, A.; Flükiger, R.; Senatore, C.

    2012-11-01

    High-performance Nb3Sn conductors are intended to be used in large-scale magnets like the International Thermonuclear Experimental Reactor (ITER) and in the upgrade of the Large Hadron Collider (LHC). Due to the occurrence of high electromagnetic forces, a detailed knowledge of the response of the critical current to the three-dimensional mechanical loads acting on the wires inside the cables is required. A detailed analysis of transverse stress effects on the critical current for powder-in-tube and bronze route Nb3Sn wires is presented. In an earlier publication, we have described the effect of transverse stress exerted on a Nb3Sn wire by means of two parallel plates. In the present paper, we analyse the effect of transverse stress exerted simultaneously by four walls on a wire being confined in a U-shaped groove. In order to get a more realistic picture of the situation of wires embedded in a Rutherford cable, the compression by four walls was also performed after impregnating the wire with epoxy in the same U-shaped groove. The result is very different from the case of pressing by means of two walls: the effect of pressure on Ic is now strongly reduced, which is attributed to the almost hydrostatic pressure in the U-shaped groove. This is further confirmed by the comparison between the effects of axial and transverse loads on the upper critical field and the pinning force. The present data are also compared against the effects of mechanical load on the critical current of cables in large-scale magnets.

  19. 11 T Twin-Aperture Nb$_3$Sn Dipole Development for LHC Upgrades

    SciTech Connect

    Zlobin, A. V.; Andreev, N.; Apollinari, G.; Auchmann, B.; Barzi, E.; Izquierdo Bermudez, S.; Bossert, R.; Buehler, M.; Chlachidze, G.; DiMarco, J.; Karppinen, M.; Nobrega, F.; Novitski, I.; Rossi, L.; Smekens, D.; Tartaglia, M.; Turrioni, D.; Velev, Genadi

    2015-01-01

    FNAL and CERN are developing a twin-aperture 11 T Nb3Sn dipole suitable for installation in the LHC. This paper describes the design and parameters of the 11 T dipole developed at FNAL for the LHC upgrades in both single-aperture and twin-aperture configurations, and presents details of the constructed dipole models. Results of studies of magnet quench performance, quench protection and magnetic measurements performed using short 1 m long coils in the dipole mirror and single-aperture configurations are reported and discussed.

  20. Development and Comparison of Mechanical Structures for FNAL 15 T Nb$_3$Sn Dipole Demonstrator

    SciTech Connect

    Novitski, I.; Zlobin, A. V.

    2016-11-08

    Main design challenges for 15 T accelerator magnets are large Lorentz forces at this field level. The large Lorentz forces generate high stresses in the coil and mechanical structure and, thus, need stress control to maintain them at the acceptable level for brittle Nb3Sn coils and other elements of magnet mechanical structure. To provide these conditions and achieve the design field in the FNAL 15 T dipole demonstrator, several mechanical structures have been developed and analysed. The possibilities and limitations of these designs are discussed in this paper

  1. Effect of annealing regimes on the structure of Nb3Sn superconducting layers in composites with internal tin sources

    NASA Astrophysics Data System (ADS)

    Popova, E. N.; Deryagina, I. L.; Valova-Zakharevskaya, E. G.; Patrakov, E. I.

    2016-10-01

    The structure and morphology of Nb3Sn superconducting layers that are formed in multifilamentary conductors with distributed tin sources in different diffusion-annealing regimes have been investigated by transmission and scanning electron microscopy. The composites studied differ in the design (the number of Nb filaments and their final diameter, initial tin concentration, the presence of reinforcing Cu‒Nb inserts in the stabilizing copper sheath, alloying of the copper matrix with manganese) and diffusion-annealing regime. In all of the conductors, superconducting layers arise with zones of different morphologies, namely, columnar grains are present along with fine equiaxed Nb3Sn grains. Compared to Nb3Sn-based conductors produced by the so-called bronze method, composites with internal tin layers are characterized by coarser Nb3Sn grains with a greater spread of sizes. Nevertheless, the critical current density J c of these latter can reach values 2276 A/mm2 due to a higher Sn concentration in the superconducting phase and a larger relative amount of this phase in the conductor. Lower values of the critical current density ( J c = 850 A/mm2) were obtained in the conductor with a reduced tin concentration in the matrix and an enhanced number of Nb filaments with a smaller diameter, in which coarser Nb3Sn grains with a wide spread of sizes and wider zones of columnar grains are formed.

  2. Facile Synthesis of Nb3Sn Via a Hydrogen Reduction Process

    NASA Astrophysics Data System (ADS)

    Zhu, Jun; Jiao, Shuqiang; Zhang, Long; Li, Yanxiang; Zhu, Hongmin

    2017-02-01

    A controllable and facile process for the preparation of Nb3Sn intermetallic compound nanopowders using NbCl5 and SnCl2 vapors reduced by hydrogen has been developed. The vaporizing rates of the two chlorides are controlled by measuring their mass loss as a function of carrier gas (argon) flow rate at certain vaporization temperatures, respectively. X-ray diffraction (XRD) patterns indicate that hydrogenous Nb3Sn products are obtained under the vaporizing rate of 0.155 g min-1 for NbCl5 and 0.036 g min-1 for SnCl2 with the hydrogen flow rate of 2100 ml min-1 at 1273 K (1000 °C). Results of semi-quantitative analysis by X-ray fluorescence (XRF) demonstrate that the atomic ratio of Nb to Sn in the as-synthesized products is 3.48:1, and the content of (Nb + Sn) is taken up to 89.61 wt pct from the total weight of the products. The products can be purified by vacuum heat treatment. Images of transmission electron microscopy (TEM) show that the products are homogenous particles with a mean diameter of 31 nm. In addition, the reaction ratio of the chlorides and the powder yield are controllable by hydrogen flow rate.

  3. Nb3Sn(Ti) powder metallurgy processed high field superconductors

    NASA Astrophysics Data System (ADS)

    Pourrahimi, S.; Thieme, C. L. H.; Foner, S.; Suenaga, M.

    1986-06-01

    Powder metallurgy processed Nb3Sn(Ti) superconducting wires were fabricated with Sn x wt. % Ti cores for 0≤x≤3, 16 or 22 vol % cores, and a Cu 45 wt. % Nb composite. The processing used swaging, cold hydrostatic extrusions, wire drawing and heat treatments of 750 °C for two to four days. Nominal areal reductions of 104 were used. Hydride-dehydride Nb and rotating electrode processed Nb powders gave the same performance. Overall critical current densities Jc were measured between 4.2 and 1.8 K for applied fields up to 23 T. Jc increased with increased Ti and/or Sn content. The Nb3Sn(Ti) wires using a Sn 3 wt. % Ti, 22 vol % core gave Jc >104 A/cm2 at 20 T and 4.2 K and Jc =104 A/cm2 at 23 T at 1.8 K. Removal of the precompression of the matrix increased Jc by about a factor of 2 at 20 T and 4.2 K.

  4. The effects of disorder on the normal state and superconducting properties of Nb3Sn

    NASA Astrophysics Data System (ADS)

    Mentink, M. G. T.; Dhalle, M. M. J.; Dietderich, D. R.; Godeke, A.; Hellman, F.; ten Kate, H. H. J.

    2017-02-01

    The effect of disorder on the normal state resistivity and the superconducting properties of Nb{}3Sn is explored in a combination of ab initio calculations and microscopic theory. The crystal symmetry is calculated to be preferentially tetragonal at a normal state resistivity below 27.0 ± 1.4 μ {{Ω }}{cm}, and preferentially cubic above this value, which is shown to be consistent with the experimentally observed transition point. The phonon density of states, the Eliashberg spectrum {α }2(ω )F(ω ), the electron-phonon coupling constant, the characteristic frequency, the critical temperature T c, and the upper critical magnetic field at 0 K {H}{{c}2}(0) are calculated over a large normal state resistivity range and shown to be consistent with experimental observations. The high degree of consistency between the calculation results and experimental observations is a strong indication that the calculation approach utilized here, a combination of ab initio calculations and microscopic theory, is a useful tool for understanding the superconducting and normal state properties of Nb{}3Sn.

  5. Fabrication and Analysis of 150-mm-Aperture Nb3Sn MQXF Coils

    DOE PAGES

    Holik, E. F.; Ambrosio, G.; Anerella, M.; ...

    2016-01-12

    The U.S. LHC Accelerator Research Program (LARP) and CERN are combining efforts for the HiLumi-LHC upgrade to design and fabricate 150-mm-aperture, interaction region quadrupoles with a nominal gradient of 130 T/m using Nb3Sn. To successfully produce the necessary long MQXF triplets, the HiLumi-LHC collaboration is systematically reducing risk and design modification by heavily relying upon the experience gained from the successful 120-mm-aperture LARP HQ program. First generation MQXF short (MQXFS) coils were predominately a scaling up of the HQ quadrupole design allowing comparable cable expansion during Nb3Sn formation heat treatment and increased insulation fraction for electrical robustness. A total ofmore » 13 first generation MQXFS coils were fabricated between LARP and CERN. Systematic differences in coil size, coil alignment symmetry, and coil length contraction during heat treatment are observed and likely due to slight variances in tooling and insulation/cable systems. Analysis of coil cross sections indicate that field-shaping wedges and adjacent coil turns are systematically displaced from the nominal location and the cable is expanding less than nominally designed. Lastly, a second generation MQXF coil design seeks to correct the expansion and displacement discrepancies by increasing insulation and adding adjustable shims at the coil pole and midplanes to correct allowed magnetic field harmonics.« less

  6. Status of the 11 T Nb$_{3}$Sn Dipole Project for the LHC

    SciTech Connect

    Savary, F.; et al.

    2015-01-01

    The planned upgrade of the LHC collimation system includes additional collimators in the LHC lattice. The longitudinal space for the collimators could be obtained by replacing some LHC main dipoles with shorter but stronger dipoles compatible with the LHC lattice and main systems. A joint development program with the goal of building a 5.5 m long two-in-one aperture Nb_3Sn dipole prototype suitable for installation in the LHC is being conducted by FNAL and CERN magnet groups. As part of the first phase of the program, 1 m long and 2 m long single aperture models are being built and tested, and the collared coils from these magnets will be assembled and tested in two-in-one configuration in both laboratories. In parallel with the short model magnet activities, the work has started on the production line in view of the scale-up to 5.5 m long prototype magnet. The development of the final cryo-assembly comprising two 5.5 m long 11 T dipole cold masses and the warm collimator in the middle, fully compatible with the LHC main systems and the existing machine interfaces, has also started at CERN. This paper summarizes the progress made at CERN and FNAL towards the construction of 5.5 m long 11 T Nb_3Sn dipole prototype and the present status of the activities related to the integration of the 11 T dipole and collimator in the LHC.

  7. Quench performance and field quality of FNAL twin-aperture 11 T Nb3Sn dipole model for LHC upgrades

    DOE PAGES

    Stoynev, Stoyan; Andreev, Nikolai; Apollinari, Giorgio; ...

    2016-12-07

    A 2 m long single-aperture dipole demonstrator and two 1 m long single-aperture models based on Nb3Sn superconductor have been built and tested at FNAL. The two 1 m long collared coils were then assembled in a twin-aperture Nb3Sn dipole demonstrator compatible with the LHC main dipole and tested in two thermal cycles. This paper summarizes the quench performance of the FNAL twin-aperture Nb3Sn 11 T dipole in the temperature range of 1.9-4.5 K. The results of magnetic measurements for one of the two apertures are also presented. Test results are compared to the performance of coils in a single-aperturemore » configuration. Lastly, a summary of quench propagation studies in both apertures is given.« less

  8. Performance of a 14-T CuNb/Nb3Sn Rutherford coil with a 300 mm wide cold bore

    NASA Astrophysics Data System (ADS)

    Oguro, Hidetoshi; Watanabe, Kazuo; Awaji, Satoshi; Hanai, Satoshi; Ioka, Shigeru; Sugimoto, Masahiro; Tsubouchi, Hirokazu

    2016-08-01

    A large-bore 14-T CuNb/Nb3Sn Rutherford coil was developed for a 25 T cryogen-free superconducting magnet. The magnet consisted of a low-temperature superconducting (LTS) magnet of NbTi and Nb3Sn Rutherford coils, and a high-temperature superconducting magnet. The Nb3Sn Rutherford coil was fabricated by the react-and-wind method for the first time. The LTS magnet reached the designed operation current of 854 A without a training quench at a 1 h ramp rate. The central magnetic field generated by the LTS magnet was measured by a Hall sensor to be 14.0 T at 854 A in a 300 mm cold bore.

  9. Summary of the Persistent Current Effect Measurements in Nb 3 Sn and NbTi Accelerator Magnets at Fermilab

    DOE PAGES

    Velev, G. V.; Chlachidze, G.; DiMarco, J.; ...

    2016-01-06

    In the past 10 years, Fermilab has been executing an intensive R&D program on accelerator magnets based on Nb3Sn superconductor technology. This R&D effort includes dipole and quadrupole models for different programs, such as LARP and 11 T dipoles for the LHC high-luminosity upgrade. Before the Nb3Sn R&D program, Fermilab was involved in the production of the low-beta quadrupole magnets for LHC based on the NbTi superconductor. Additionally, during the 2003-2005 campaign to optimize the operation of the Tevatron, a large number of Tevatron magnets were re-measured. As a result of this field analysis, a systematic study of the persistentmore » current decay and snapback effect in these magnets was performed. This paper summarizes the result of this study and presents a comparison between Nb3Sn and NbTi dipoles and quadrupoles.« less

  10. Performance of the first short model 150 mm aperture Nb$_3$Sn Quadrupole MQXFS for the High- Luminosity LHC upgrade

    SciTech Connect

    Chlachidze, G.; et al.

    2016-08-30

    The US LHC Accelerator Research Program (LARP) and CERN combined their efforts in developing Nb3Sn magnets for the High-Luminosity LHC upgrade. The ultimate goal of this collaboration is to fabricate large aperture Nb3Sn quadrupoles for the LHC interaction regions (IR). These magnets will replace the present 70 mm aperture NbTi quadrupole triplets for expected increase of the LHC peak luminosity by a factor of 5. Over the past decade LARP successfully fabricated and tested short and long models of 90 mm and 120 mm aperture Nb3Sn quadrupoles. Recently the first short model of 150 mm diameter quadrupole MQXFS was built with coils fabricated both by the LARP and CERN. The magnet performance was tested at Fermilab’s vertical magnet test facility. This paper reports the test results, including the quench training at 1.9 K, ramp rate and temperature dependence studies.

  11. Magnetic analysis of the Nb$$_3$$Sn low-beta quadrupole for the high luminosity LHC

    DOE PAGES

    Bermudez, Susana Izquierdo; Ambrosio, G.; Chlachidze, G.; ...

    2017-01-10

    As part of the Large Hadron Collider Luminosity upgrade (HiLumi-LHC) program, the US LARP collaboration and CERN are working together to design and build 150 mm aperture Nb3Sn quadrupoles for the LHC interaction regions. A first series of 1.5 m long coils were fabricated, assembled and tested in the first short model. This paper presents the magnetic analysis, comparing magnetic field measurements with the expectations and the field quality requirements. The analysis is focused on the geometrical harmonics, iron saturation effect and cold-warm correlation. Three dimensional effects such as the variability of the field harmonics along the magnet axis andmore » the contribution of the coil ends are also discussed. Furthemore, we present the influence of the conductor magnetization and the dynamic effects.« less

  12. Test results of the LARP Nb$$_3$$Sn quadrupole HQ03a

    DOE PAGES

    DiMarco, J.; G. Ambrosio; Chlachidze, G.; ...

    2016-03-09

    The US LHC Accelerator Research Program (LARP) has been developingmore » $$Nb_3Sn$$ quadrupoles of progressively increasing performance for the high luminosity upgrade of the Large Hadron Collider. The 120 mm aperture High-field Quadrupole (HQ) models are the last step in the R&D phase supporting the development of the new IR Quadrupoles (MQXF). Three series of HQ coils were fabricated and assembled in a shell-based support structure, progressively optimizing the design and fabrication process. The final set of coils consistently applied the optimized design solutions, and was assembled in the HQ03a model. Furthermore, this paper reports a summary of the HQ03a test results, including training, mechanical performance, field quality and quench studies.« less

  13. Nb3Sn High Field Magnets for the High Luminosity LHC Upgrade Project

    SciTech Connect

    Ambrosio, Giorgio

    2015-06-01

    The High Luminosity upgrade of the Large Hadron Collider at CERN requires a new generation of high field superconducting magnets. High field large aperture quadrupoles (MQXF) are needed for the low-beta triplets close to the ATLAS and CMS detectors, and high field two-in-one dipoles (11 T dipoles) are needed to make room for additional collimation. The MQXF quadrupoles, with a field gradient of 140 T/m in 150 mm aperture, have a peak coil field of 12.1 T at nominal current. The 11 T dipoles, with an aperture of 60 mm, have a peak coil field of 11.6 T at nominal current. Both magnets require Nb3Sn conductor and are the first applications of this superconductor to actual accelerator magnets.

  14. Test results of the LARP Nb$_3$Sn quadrupole HQ03a

    SciTech Connect

    DiMarco, J.; G. Ambrosio; Chlachidze, G.; Bossert, R.; Holik, T.; Orris, D.; Stoynev, S.; Strauss, T.; Sylvester, C.; Tartaglia, M.; Yu, M.; Anerella, M.; Ghosh, A.; Schmalzle, J.; Wanderer, P.; Borgnolutti, F.; Cheng, D. W.; Dietderich, D.; Felice, H.; Pan, H.; Godeke, A.; Hafalia, A. R.; Marchevsky, M.; Sabbi, G.; Salmi, T.; Wang, X. R.; Ferracin, P.; Bajas, H.; Ravaioli, E.; Todesco, E.

    2016-03-09

    The US LHC Accelerator Research Program (LARP) has been developing $Nb_3Sn$ quadrupoles of progressively increasing performance for the high luminosity upgrade of the Large Hadron Collider. The 120 mm aperture High-field Quadrupole (HQ) models are the last step in the R&D phase supporting the development of the new IR Quadrupoles (MQXF). Three series of HQ coils were fabricated and assembled in a shell-based support structure, progressively optimizing the design and fabrication process. The final set of coils consistently applied the optimized design solutions, and was assembled in the HQ03a model. Furthermore, this paper reports a summary of the HQ03a test results, including training, mechanical performance, field quality and quench studies.

  15. Recent progress and tests of radiation resistant impregnation materials for Nb3Sn coils

    NASA Astrophysics Data System (ADS)

    Bossert, R.; Krave, S.; Ambrosio, G.; Andreev, N.; Chlachidze, G.; Nobrega, A.; Novitski, I.; Yu, M.; Zlobin, A. V.

    2014-01-01

    Fermilab is collaborating with Lawrence Berkeley National Laboratory (LBNL) and Brookhaven National Laboratory (BNL) (US-LARP collaboration) to develop a large-aperture Nb3Sn superconducting quadrupole for the Large Hadron Collider (LHC) luminosity upgrade. An important component of this work is the development of materials that are sufficiently radiation resistant for use in critical areas of the upgrade. This paper describes recent progress in characterization of materials, including the baseline CTD101K epoxy, cyanate ester blends, and Matrimid 5292, a bismaleimide-based system. Structural properties of "ten stacks" of cable impregnated with these materials are tested at room and cryogenic temperatures and compared to the baseline CT-101K. Experience with potting 1 and 2 meter long coils with Matrimid 5292 are described. Test results of a single 1-m coil impregnated with Matrimid 5292 are reported and compared to similar coils impregnated with the traditional epoxy.

  16. Influence of the heat-treatment conditions, microchemistry, and microstructure on the irreversible strain limit of a selection of Ti-doped internal-tin Nb3Sn ITER wires

    NASA Astrophysics Data System (ADS)

    Cheggour, N.; Lee, P. J.; Goodrich, L. F.; Sung, Z.-H.; Stauffer, T. C.; Splett, J. D.; Jewell, M. C.

    2014-10-01

    individual filaments are only few micrometers. All the strands contained substantial Kirkendall porosity, but we found that the quantity and distribution of the Kirkendall voids vary significantly with strand design. Luvata wires have the least porosity, followed by WST wires, and then by OST strands. However, even though the presence of cracks in the Nb3Sn filaments that are in close proximity to Kirkendall voids suggest a correlation between crack initiation and the proximity of the filaments to these voids, the porosity investigation established no definitive relationship between porosity and ɛirr,0 in the wires studied. Contribution of NIST, an agency of the US government, not subject to copyright.

  17. Evaluation of critical current density and residual resistance ratio limits in powder in tube Nb3Sn conductors

    NASA Astrophysics Data System (ADS)

    Segal, Christopher; Tarantini, Chiara; Hawn Sung, Zu; Lee, Peter J.; Sailer, Bernd; Thoener, Manfred; Schlenga, Klaus; Ballarino, Amalia; Bottura, Luca; Bordini, Bernardo; Scheuerlein, Christian; Larbalestier, David C.

    2016-08-01

    High critical current density (J c) Nb3Sn A15 multifilamentary wires require a large volume fraction of small grain (SG), superconducting A15 phase, as well as Cu stabilizer with high Residual Resistance Ratio (RRR) to provide electromagnetic stabilization and protection. In powder-in-tube (PIT) wires the unreacted Nb7.5 wt%Ta outer layer of the tubular filaments acts as a diffusion barrier and protects the interfilamentary Cu stabilizer from Sn contamination. A high RRR requirement generally imposes a restricted A15 reaction heat treatment to prevent localized full reaction of the filament that could allow Sn to reach the Cu. In this study we investigate recent high quality PIT wires that achieve a J c (12 T, 4.2 K) up to ˜2500 A mm-2 and find that the minimum diffusion barrier thickness decreases as the filament aspect ratio increases from ˜1 in the inner rings of filaments to 1.3 in the outer filament rings. We found that just 2-3 diffusion barrier breaches can degrade RRR from 300 to 150 or less. Using progressive etching of the Cu we also found that the RRR degradation is localized near the external filaments where deformation is highest. Consequently minimizing filament distortion during strand fabrication is important for reducing RRR degradation. The additional challenge of developing the highest possible J c must be addressed by forming the maximum fraction of high J c SG A15 and minimizing low J c large-grain (LG) A15 morphologies. In one wire we found that 15% of the filaments had a significantly enhanced SG/LG A15 ratio and no residual A15 in the core, a feature that opens a path to substantial J c improvement.

  18. Evaluation of critical current density and residual resistance ratio limits in powder in tube Nb3Sn conductors

    DOE PAGES

    Segal, Christopher; Tarantini, Chiara; Sung, Zu Hawn; ...

    2016-06-10

    High critical current density (Jc) Nb3Sn A15 multifilamentary wires require a large volume fraction of small grain, superconducting A15 phase, as well as Cu stabilizer with high Residual Resistance Ratio (RRR) to provide electromagnetic stabilization and protection. In Powder-in-Tube (PIT) wires the unreacted Nb7.5wt.%Ta outer layer of the tubular filaments acts as a diffusion barrier and protects the interfilamentary Cu stabilizer from Sn contamination. A high RRR requirement generally imposes a restricted A15 reaction heat treatment (HT) to prevent localized full reaction of the filament that could allow Sn to reach the Cu. In this paper we investigate recent highmore » quality PIT wires that achieve a Jc(12 T, 4.2 K) up to ~2500 A/mm-2 and find that the minimum diffusion barrier thickness decreases as the filament aspect ratio increases from ~1 in the inner rings of filaments to 1.3 in the outer filament rings. We found that just 2-3 diffusion barrier breaches can degrade RRR from 300 to 150 or less. Using progressive etching of the Cu we also found that the RRR degradation is localized near the external filaments where deformation is highest. Consequently minimizing filament distortion during strand fabrication is important for reducing RRR degradation. The additional challenge of developing the highest possible Jc must be addressed by forming the maximum fraction of high Jc small-grain (SG) A15 and minimizing low Jc large-grain (LG) A15 morphologies. Finally, in one wire we found that 15% of the filaments had a significantly enhanced SG/LG A15 ratio and no residual A15 in the core, a feature that opens a path to substantial Jc improvement.« less

  19. A new generation Nb3Sn wire, and the prospects for its use inparticle accelerators

    SciTech Connect

    Scanlan, R.M.; Dietderich, D.R.; Gourlay, S.A.

    2003-09-30

    The US DOE has initiated a Conductor Development Program aimed at demonstrating a high current density, cost effective Nb3Sn conductor for use in accelerator magnets. The first goal, an increase in current density by 50%, has been achieved in a practical conductor. The program is focused at present on achieving the second goal of reduced losses. The different approaches for achieving these goals will be discussed, and the status will be presented. Magnet technology R&D has been proceeding in parallel with the conductor development efforts, and these two technologies are reaching the level required for the next step--introduction into operating accelerator magnets. An obvious point for introducing this technology is the LHC interaction region magnets, which require large apertures and high fields (or high field gradients). By upgrading the interaction region magnets, machine performance can be enhanced significantly without replacing the arc magnets, which represent most of the cost of an accelerator. Design requirements generated by recent studies and workshops will be reviewed, and a roadmap for the development of the next-generation interaction region magnets will be presented.

  20. Mechanical Properties of Modified JK2LB for Nb3Sn Cicc Applications

    NASA Astrophysics Data System (ADS)

    Walsh, R. P.; Han, K.; Toplosky, V. J.; Martovetsky, N. N.; Mann, T. L.; Miller, J. R.

    2010-04-01

    Since the introduction of the cable-in-conduit conductor (CICC) concept, a variety of alloys have been proposed for fabricating the conduit in high field magnets. The conduit provides containment of the liquid helium coolant and is typically also the primary structural component for the magnet coils. These functions create requirements for strength, toughness, fatigue crack resistance, and fabricability. When the CICC uses Nb3Sn superconductor, the conduit alloy must retain good mechanical properties after exposure to the superconductor's reaction heat treatment. Here we present data from cryogenic tensile, fracture toughness, fatigue crack growth rate, and axial fatigue tests for a modified heat of JK2LB, before and after the exposure to the reaction heat treatment. The alloy is presently being considered as a candidate for use in ITER Central Solenoid (CS) Coils. The direct comparison of the data from the comprehensive test program with earlier versions of JK2LB and another CICC candidate alloy (modified 316LN) is intended to assist design engineers with material selection for CICC applications.

  1. Semi-analytical modeling of the coupled strain and low-temperature dependence of the normal-state resistivity in Nb3Sn

    NASA Astrophysics Data System (ADS)

    Yang, Lin; Ding, He; Zhang, Xin; Qiao, Li

    2017-03-01

    A semi-analytical modeling framework on the microscopic basis is proposed in this paper to predict the low-temperature transport properties of strained Nb3Sn superconductors. The theoretical predictions agree well with experimental observations, which indicate that the competitions between the strain state-dependent variations in the phonon spectrum and the electron density of states (DOS) are an important consideration in interpreting the coupled low temperature-strain sensitivity of resistivity in superconducting Nb3Sn. The model is helpful for identifying the scaling law describing the anomalies in the strain dependence of superconducting critical properties of Nb3Sn conductors.

  2. Construction challenges and solutions in TAMU3, a 14 T stress-managed Nb3Sn dipole

    NASA Astrophysics Data System (ADS)

    Holik, E. F.; Garrison, R.; Diaczenko, N.; Elliott, T.; Jaisle, A.; McInturff, A. D.; McIntyre, P.; Sattarov, A.

    2014-01-01

    The Accelerator Research Laboratory at Texas A&M University is nearing completion of a Nb3Sn dipole that incorporates stress management directly in its windings. The windings utilize graded-cross-section cable made from 54/61 (54 out of a 61 subelement hexagonal pattern) Restacked Rod Processed® Nb3Sn/Cu conductor and fine-filament S-2 glass fabric insulation. Coil heat treatment and associated differential expansions have brought about some tin leakage, highresistance electrical shorts, and coil gaps. TAMU3b impregnation successfully increased the coil-to-ground resistance. Quench protection in TAMU3 was simulated using QUENCH. The tests of TAMU3 should provide the first examination of stress management at field intensities greater than 12 T.

  3. Embedded fiber Bragg grating sensors for true temperature monitoring in Nb3Sn superconducting magnets for high energy physics

    NASA Astrophysics Data System (ADS)

    Chiuchiolo, A.; Bajas, H.; Bajko, M.; Consales, M.; Giordano, M.; Perez, J. C.; Cusano, A.

    2016-05-01

    The luminosity upgrade of the Large Hadron Collider (HL-LHC) planned at the European Organization for Nuclear Research (CERN) requires the development of a new generation of superconducting magnets based on Nb3Sn technology. The instrumentation required for the racetrack coils needs the development of reliable sensing systems able to monitor the magnet thermo-mechanical behavior during its service life, from the coil fabrication to the magnet operation. With this purpose, Fiber Bragg Grating (FBG) sensors have been embedded in the coils of the Short Model Coil (SMC) magnet fabricated at CERN. The FBG sensitivity to both temperature and strain required the development of a solution able to separate mechanical and temperature effects. This work presents for the first time a feasibility study devoted to the implementation of an embedded FBG sensor for the measurement of the "true" temperature in the impregnated Nb3Sn coil during the fabrication process.

  4. Study of the effects of high temperatures during quenches on the performance of a small Nb3Sn racetrack magnet

    NASA Astrophysics Data System (ADS)

    Imbasciati, L.; Bauer, P.; Ambrosio, G.; Lamm, M.; Caspi, S.; Chiesa, L.; Dietderich, D.; Ferracin, P.; Lietzke, A.; Gourlay, S.

    2004-05-01

    Several high field Nb3Sn magnets of different design are under development for future particle accelerators. The high levels of stored energy in these magnets and the high current densities in the conductor can cause high peak temperatures during a quench. The thermal gradients generated in the epoxy-impregnated magnet coils during the fast temperature rise can result in high thermo-mechanical stresses. Considering the sensitivity of Nb3Sn to strain and epoxy cracks, it is important to define a maximum acceptable temperature in the coils during a quench which does not cause degradation of the magnet performance. A program was launched at Fermilab to study the effects of thermo-mechanical stress in Nb3Sn coils, supported by experiments and by analysis. In collaboration with LBNL, a sub-scaled magnet was built and instrumented to measure the effect of the thermo-mechanical shock during magnet quenches. The magnet consisted of two racetrack coils, assembled in a common coil configuration with a small gap in between. During the test, the magnet reached the maximum field of {\\sim } 11 T at the short sample current of 9100 A. Temperature excursions up to 400 K did not diminish the magnet quench performance; only after temperature excursions over 430 K did the magnet show detraining effects, which occasionally reduced the quench current to about 6%. Signs of irreversible degradation (reducing the maximum current of about 3%) appeared only after temperature excursions over 550 K.

  5. Influence of cyclic loading at room temperature on the critical current at 4.2 K of Nb3Sn superconducting composite wire

    NASA Astrophysics Data System (ADS)

    Ochiai, S.; Osamura, K.

    The influence of cyclic loading at room temperature on the critical current at 4.2 K of bronze-processed multifilamentary Nb3Sn superconducting composite wire was studied. After the first cycle, the critical current and upper critical magnetic field increased, reaching a maximum and then decreased with increasing applied stress. After the second and following cycles, the changes were small when the applied stress was not high enough to cause damage to the Nb3Sn. These results can be described well quantitatively by substituting the strain values of Nb3Sn calculated in this work into Ekin's scaling law for the strain effect. When the applied stress was high enough to cause damage to the Nb3Sn in the first cycle, the critical current decreased with increasing numbers of cycles.

  6. Analysis of the quench propagation along Nb3Sn Rutherford cables with the THELMA code. Part II: Model predictions and comparison with experimental results

    NASA Astrophysics Data System (ADS)

    Manfreda, G.; Bellina, F.; Bajas, H.; Perez, J. C.

    2016-12-01

    To improve the technology of the new generation of accelerator magnets, prototypes are being manufactured and tested in several laboratories. In parallel, many numerical analyses are being carried out to predict the magnets behaviour and interpret the experimental results. This paper focuses on the quench propagation velocity, which is a crucial parameter as regards the energy dissipation along the magnet conductor. The THELMA code, originally developed for cable-in-conduit conductors for fusion magnets, has been used to study such quench propagation. To this purpose, new code modules have been added to describe the Rutherford cable geometry, the material non-linear thermal properties and to describe the thermal conduction problem in transient regime. THELMA can describe the Rutherford cable at the strand level, modelling both the electrical and thermal contact resistances between strands and enabling the analysis of the effects of local hot spots and quench heaters. This paper describes the model application to a sample of Short Model Coil tested at CERN: a comparison is made between the experimental results and the model prediction, showing a good agreement. A comparison is also made with the prediction of the most common analytical models, which give large inaccuracies when dealing with low n-index cables like Nb3Sn cables.

  7. Magnetic Measurements of the First Nb$_3$Sn Model Quadrupole (MQXFS) for the High-Luminosity LHC

    SciTech Connect

    DiMarco, J.; Ambrosio, G.; Chlachidze, G.; Ferracin, P.; Holik, E.; Sabbi, G.; Stoynev, S.; Strauss, T.; Sylvester, C.; Tartaglia, M.; Todesco, E.; Velev, G.; Wang, X.

    2016-09-06

    The US LHC Accelerator Research Program (LARP) and CERN are developing high-gradient Nb3Sn magnets for the High Luminosity LHC interaction regions. Magnetic measurements of the first 1.5 m long, 150 mm aperture model quadrupole, MQXFS1, were performed during magnet assembly at LBNL, as well as during cryogenic testing at Fermilab’s Vertical Magnet Test Facility. This paper reports on the results of these magnetic characterization measurements, as well as on the performance of new probes developed for the tests.

  8. Test results of TQS03: a LARP shell-based Nb3Sn quadrupole using 108/127 conductor

    SciTech Connect

    Felice, H.; Ambrosio, G.; Bajko, M.; Barzi, E.; Bordini, B.; Bossert, R.; Caspi, S.; Dietderich, D.; Ferracin, P.; Feuvrier, J.; Ghosh, A.; Godeke, A.; Lizarazo, J.; Rossi, L.; Sabbi, G.; Wanderer, P.; Wang, X.; Zlobin, A.V.

    2009-09-13

    Future insertion quadrupoles with large apertures and high gradients will be required for the Phase II luminosity upgrade (10{sup 35} cm{sup -2}s{sup -1}) of the Large Hadron Collider (LHC). Although improved designs, based on NbTi, are being considered as an intermediate step for the Phase I upgrade, the Nb{sub 3}Sn conductor is presently the best option that meets the ultimate performance goals for both operating field and temperature margin. As part of the development of Nb{sub 3}Sn magnet technology, the LHC Accelerator Research Program (LARP) developed and tested several 1-meter long, 90-mm aperture Nb{sub 3}Sn quadrupoles. The first two series of magnet used OST MJR 54/61 (TQ01 series) and OST RRP 54/61 (TQ02 series) strands. The third series (TQ03) used OST RRP 108/127 conductor. The larger number of sub-elements and the consequent reduction of the effective filament size, together with an increased fraction of copper and a lower Jc were expected to improve the conductor stability. The new coils were tested in the TQS03 series using a shell structure assembled with keys and bladders. The objective of the first test (TQS03a) was to evaluate the performances of the 108/127 conductor and, in particular, its behaviour at 1.9 K, while the second test (TQS03b) investigated the impact on high azimuthal pre-stress on the magnet performance. This paper reports on TQS03 fabrication, the strain gauge measurements performed during assembly, cool-down, excitation and the quench behavior of the two magnets.

  9. Structural analysis of the yeast exosome Rrp6p–Rrp47p complex by small-angle X-ray scattering

    SciTech Connect

    Dedic, Emil; Seweryn, Paulina; Jonstrup, Anette Thyssen; Flygaard, Rasmus Koch; Fedosova, Natalya U.; Hoffmann, Søren Vrønning; Boesen, Thomas; Brodersen, Ditlev Egeskov

    2014-07-18

    Highlights: • We show that S. cerevisiae Rrp6p and Rrp47p stabilise each other in vitro. • We determine molecular envelopes of the Rrp6p–Rrp47p complex by SAXS. • Rrp47p binds at the top of the Rrp6p exonuclease domain. • Rrp47p modulates the activity of Rrp6p on a variety of RNA substrates. • Rrp47p does not affect RNA affinity by Rrp6p. - Abstract: The RNase D-type 3′–5′ exonuclease Rrp6p from Saccharomyces cerevisiae is a nuclear-specific cofactor of the RNA exosome and associates in vivo with Rrp47p (Lrp1p). Here, we show using biochemistry and small-angle X-ray scattering (SAXS) that Rrp6p and Rrp47p associate into a stable, heterodimeric complex with an elongated shape consistent with binding of Rrp47p to the nuclease domain and opposite of the HRDC domain of Rrp6p. Rrp47p reduces the exonucleolytic activity of Rrp6p on both single-stranded and structured RNA substrates without significantly altering the affinity towards RNA or the ability of Rrp6p to degrade RNA secondary structure.

  10. Stability of High-Jc Nb3Sn Wires in the Adiabatic Limit

    SciTech Connect

    Ghosh, A.; Gregory, E.; Peng, X.

    2011-08-03

    High-J{sub c} Nb{sub 3}Sn strands often exhibit instabilities in 4.2 K liquid helium at low fields {approx} 0.5 to 3 T which are associated with magnetization flux-jumps. However at 1.9 K in superfluid helium, a minimum in premature quench currents at intermediate fields of 5 to 7 T has been observed in voltage-current measurements. These measurements are typically used for critical current determinations, and the premature quenching is driven by current redistribution within the strand as the current is increased and is termed 'self-field' instability. In this paper, the magnetization and self-field stability of Nb{sub 3}Sn strands with J{sub c} {approx} 2000 A/mm{sup 2} at 12 T are described for a series of wires made using the Sn-tube approach with filament diameters ranging from 13 to 65 {mu}m. The copper stabilizer of these wires after reaction has residual resistivity ratio, RRR, of {approx}5, which in effect means that any dynamic stabilization from thermal conduction effects is negligible. In this regime of RRR, we find that the magnetization stability with transport current increases with decreasing filament diameter as predicted by simple adiabatic theory. We also observed that at 4.2 K the self-field stability improved with decreasing filament size, but became worse with decreasing temperature as seen in measurements at 2.0 K.

  11. Quench problems of Nb3 Sn cosine theta high field dipole model magnets

    SciTech Connect

    Yamada, Ryuji; Wake, Masayoshi; /KEK, Tsukuba

    2004-12-01

    We have developed and tested several cosine theta high field dipole model magnets for accelerator application, utilizing Nb{sub 3}Sn strands made by MJR method and PIT method. With Rutherford cables made with PIT strand we achieved 10.1 Tesla central field at 2.2 K operation, and 9.5 Tesla at 4.5 K operation. The magnet wound with the MJR cable prematurely quenched at 6.8 Tesla at 4.5 K due to cryo-instability. Typical quench behaviors of these magnets are described for both types of magnets, HFDA-04 of MJR and HFDA-05 of PIT. Their characteristics parameters are compared on d{sub eff}, RRR, thermal conductivity and others, together with other historical Nb{sub 3}Sn magnets. It is suggested a larger RRR value is essential for the stability of the epoxy impregnated high field magnets made with high current density strands. It is shown that a magnet with a larger RRR value has a longer MPZ value and more stable, due to its high thermal conductivity and low resistivity.

  12. Second-generation coil design of the Nb3Sn low-β quadrupole for the high luminosity LHC

    DOE PAGES

    Bermudez, S. Izquierdo; Ambrosio, G.; Ballarino, A.; ...

    2016-01-18

    As part of the Large Hadron Collider Luminosity upgrade (HiLumi-LHC) program, the US LARP collaboration and CERN are working together to design and build a 150 mm aperture Nb3Sn quadrupole for the LHC interaction regions. A first series of 1.5 m long coils were fabricated and assembled in a first short model. A detailed visual inspection of the coils was carried out to investigate cable dimensional changes during heat treatment and the position of the windings in the coil straight section and in the end region. The analyses allow identifying a set of design changes which, combined with a finemore » tune of the cable geometry and a field quality optimization, were implemented in a new, second-generation, coil design. In this study, we review the main characteristics of the first generation coils, describe the modification in coil lay-out, and discuss their impact on parts design and magnet analysis.« less

  13. Development of MQXF: The Nb3Sn low-β quadrupole for the HiLumi LHC

    DOE PAGES

    Ferracin, P.; G. Ambrosio; Anerella, M.; ...

    2015-12-18

    The High Luminosity (HiLumi) Large Hadron Collider (LHC) project has, as the main objective, to increase the LHC peak luminosity by a factor five and the integrated luminosity by a factor ten. This goal will be achieved mainly with a new interaction region layout, which will allow a stronger focusing of the colliding beams. The target will be to reduce the beam size in the interaction points by a factor of two, which requires doubling the aperture of the low-β (or inner triplet) quadrupole magnets. The use of Nb3Sn superconducting material and, as a result, the possibility of operating atmore » magnetic field levels in the windings higher than 11 T will limit the increase in length of these quadrupoles, called MQXF, to acceptable levels. After the initial design phase, where the key parameters were chosen and the magnet's conceptual design finalized, the MQXF project, a joint effort between the U.S. LHC Accelerator Research Program and the Conseil Europeen pour la Recherche Nucleaire (CERN), has now entered the construction and test phase of the short models. Concurrently, the preparation for the development of the full-length prototypes has been initiated. Lastly, this paper will provide an overview of the project status, describing and reporting on the performance of the superconducting material, the lessons learnt during the fabrication of superconducting coils and support structure, and the fine tuning of the magnet design in view of the start of the prototyping phase.« less

  14. Assembly Tests of the First Nb 3 Sn Low-Beta Quadrupole Short Model for the Hi-Lumi LHC

    DOE PAGES

    Pan, H.; Felice, H.; Cheng, D. W.; ...

    2016-01-18

    In preparation for the high-luminosity upgrade of the Large Hadron Collider (LHC), the LHC Accelerator Research Program (LARP) in collaboration with CERN is pursuing the development of MQXF: a 150-mm-aperture high-field Nb3Sn quadrupole magnet. Moreover, the development phase starts with the fabrication and test of several short models (1.2-m magnetic length) and will continue with the development of several long prototypes. All of them are mechanically supported using a shell-based support structure, which has been extensively demonstrated on several R&D models within LARP. The first short model MQXFS-AT has been assembled at LBNL with coils fabricated by LARP and CERN.more » In our paper, we summarize the assembly process and show how it relies strongly on experience acquired during the LARP 120-mm-aperture HQ magnet series. We also present comparison between strain gauges data and finite-element model analysis. Finally, we present the implication of the MQXFS-AT experience on the design of the long prototype support structure.« less

  15. Fabrication of a Short-Period Nb3Sn Superconducting Undulator

    SciTech Connect

    Dietderich, Daniel; Dietderich, Daniel; Godeke, Arno; Prestemon, Soren; Pipersky, Paul T.; Liggins, Nate L.; Higley, Hugh C.; Marks, Steve; Schlueter, Ross D.

    2007-06-01

    Lawrence Berkeley National Laboratory develops high-field Nb{sub 3}Sn magnets for HEP applications. In the past few years, this experience has been extended to the design and fabrication of undulator magnets. Some undulator applications require devices that can operate in the presence of a heat load from a beam. The use of Nb{sub 3}Sn permits operation of a device at both a marginally higher temperature (5-8K) and a higher J{sub c}, compared to NbTi devices, without requiring a larger magnetic gap. A half-undulator device consisting of 6 periods (12 coil packs) of 14.5 mm period was designed, wound, reacted, potted and tested. It reached the short sample current limit of 717A in 4 quenches. The non-Cu Jc of the strand was over 7,600 A/mm{sup 2} and the Cu current density at quench was over 8,000 A/mm{sup 2}. Magnetic field models show that if a complete device was fabricated with the same parameters one could obtain beam fields of 1.1 T and 1.6 T for pole gaps of 8 mm and 6 mm, respectively.

  16. Fabrication and test of a racetrack magnet using pre-reacted Nb3Sn cable

    SciTech Connect

    Giorgio Ambrosio et al.

    2002-12-11

    A racetrack magnet, using Nb{sub 3}Sn superconducting cable reacted before winding, has been fabricated and tested at Fermilab. It consists of two flat racetrack coils, connected in a common-coil configuration, separated by a 5 mm thick fiberglass plate. Synthetic oil was used to prevent sintering of the strands during the heat treatment. The coils were wound and vacuum impregnated in the mechanical structure. The turn-to-turn insulation, consisting of Kapton{reg_sign}and pre-impregnated fiberglass tapes as wide as the cable, was wound together with the bare cable in order to form a continuous inter-turn spacer. The coils were instrumented with voltage taps, temperature sensors, spot heaters and quench heaters. The maximum current achieved was 12675 A which is 78% of the short sample limit at 5.1 K (minimum temperature in the coil during 75 A/s ramp). Measurement of the temperature margin revealed a low degradation in the innermost turns. Quench performances at different temperatures and ramp rate effects have been measured and are presented and discussed.

  17. Effect of thermo-mechanical stress during quench on Nb3Sn cable performance

    SciTech Connect

    Linda Imbasciati et al.

    2002-12-09

    Several high field magnets using Nb{sub 3}Sn superconductor are under development for future particle accelerators. The high levels of stored energy in these magnets can cause high peak temperatures during a quench. The thermomechanical stress generated in the winding during the fast temperature rise can result in a permanent damage of the brittle Nb{sub 3}Sn. Although there are several studies of the critical current degradation of Nb{sub 3}Sn strands due to strain, little is known about how to apply the strain limitations to define a maximum acceptable temperature in the coils during a quench. Therefore, an experimental program was launched, aimed at improving the understanding of the effect of thermo-mechanical stress in coils made from brittle Nb{sub 3}Sn. A first experiment, reported here, was performed on cables. The experimental results were compared to analytical and finite element models. The next step in the experimental program will be to repeat similar measurements in small racetrack coils and later in full size magnets.

  18. Significant enhancement of compositional and superconducting homogeneity in Ti rather than Ta-doped Nb3Sn

    DOE PAGES

    Tarantini, C.; Sung, Z. -H.; Lee, P. J.; ...

    2016-01-25

    Nb3Sn wires are now very close to their final optimization but despite its classical nature, detailed understanding of the role of Ta and Ti doping in the A15 is not fully understood. Long thought to be essentially equivalent in their influence on Hc2, they were interchangeably applied. Here we show that Ti produces significantly more homogeneous chemical and superconducting properties. Despite Ta-doped samples having a slightly higher Tc onset in zero-field, they always have a wider Tc-distribution. In particular, whereas the Ta-doped A15 has a Tc-distribution extending from 18 down to 5-6 K (the lowest expected Tc for the binarymore » A15 phase), the Ti-doped samples have no A15 phase with Tc below ~12 K. The much narrower Tc distribution in the Ti-doped samples has a positive effect on their in-field Tc-distribution too, leading to an extrapolated μ0Hc2(0) 2 Tesla larger than the Ta-doped one. Ti-doping also appears to be very homogeneous even when the Sn content is reduced in order to inhibit breakdown of the diffusion barriers in very high Jc conductors. As a result, the enhanced homogeneity of the Ti-doped samples appears to result from its assistance of rapid diffusion of Sn into the filaments and by its incorporation into the A15 phase interchangeably with Sn on the Sn sites of the A15 phase.« less

  19. Analysis of the quench propagation along Nb3Sn Rutherford cables with the THELMA code. Part I: Geometric and thermal models

    NASA Astrophysics Data System (ADS)

    Manfreda, G.; Bellina, F.

    2016-12-01

    The paper describes the new lumped thermal model recently implemented in THELMA code for the coupled electromagnetic-thermal analysis of superconducting cables. A new geometrical model is also presented, which describes the Rutherford cables used for the accelerator magnets. A first validation of these models has been given by the analysis of the quench longitudinal propagation velocity in the Nb3Sn prototype coil SMC3, built and tested in the frame of the EUCARD project for the development of high field magnets for LHC machine. This paper shows in detail the models, while their application to the quench propagation analysis is presented in a companion paper.

  20. Thermal conductivity measurements of impregnated Nb3Sn coil samples in the temperature range of 3.5 K to 100 K

    NASA Astrophysics Data System (ADS)

    Koettig, T.; Maciocha, W.; Bermudez, S.; Rysti, J.; Tavares, S.; Cacherat, F.; Bremer, J.

    2017-02-01

    In the framework of the luminosity upgrade of the LHC, high-field magnets are under development. Magnetic flux densities of up to 13 T require the use of Nb3Sn superconducting coils. Quench protection becomes challenging due to the high stored energy density and the low stabilizer fraction. The thermal conductivity and diffusivity of the combination of insulating layers and Nb3Sn based cables are an important thermodynamic input parameter for quench protection systems and superfluid helium cooling studies. A two-stage cryocooler based test stand is used to measure the thermal conductance of the coil sample in two different heat flow directions with respect to the coil package geometry. Variable base temperatures of the experimental platform at the cryocooler allow for a steady-state heat flux method up to 100 K. The heat is applied at wedges style copper interfaces of the Rutherford cables. The respective temperature difference represents the absolute value of thermal conductance of the sample arrangement. We report about the measurement methodology applied to this kind of non-uniform sample composition and the evaluation of the used resin composite materials.

  1. A model for the compositions of non-stoichiometric intermediate phases formed by diffusion reactions, and its application to Nb3Sn superconductors.

    PubMed

    Xu, X; Sumption, M D

    2016-01-12

    In this work we explore the compositions of non-stoichiometric intermediate phases formed by diffusion reactions: a mathematical framework is developed and tested against the specific case of Nb3Sn superconductors. In the first part, the governing equations for the bulk diffusion and inter-phase interface reactions during the growth of a compound are derived, numerical solutions to which give both the composition profile and growth rate of the compound layer. The analytic solutions are obtained with certain approximations made. In the second part, we explain an effect that the composition characteristics of compounds can be quite different depending on whether it is the bulk diffusion or grain boundary diffusion that dominates in the compounds, and that "frozen" bulk diffusion leads to unique composition characteristics that the bulk composition of a compound layer remains unchanged after its initial formation instead of varying with the diffusion reaction system; here the model is modified for the case of grain boundary diffusion. Finally, we apply this model to the Nb3Sn superconductors and propose approaches to control their compositions.

  2. A model for the compositions of non-stoichiometric intermediate phases formed by diffusion reactions, and its application to Nb3Sn superconductors

    DOE PAGES

    Xu, X.; Sumption, M. D.

    2016-01-12

    In this work we explore the compositions of non-stoichiometric intermediate phases formed by diffusion reactions: a mathematical framework is developed and tested against the specific case of Nb3Sn superconductors. In the first part, the governing equations for the bulk diffusion and interphase interface reactions during the growth of a compound are derived, numerical solutions to which give both the composition profile and growth rate of the compound layer. The analytic solutions are obtained with certain approximations made. In the second part, we explain an effect that the composition characteristics of compounds can be quite different depending on whether it ismore » the bulk diffusion or grain boundary diffusion that dominates in the compounds, and that “frozen” bulk diffusion leads to unique composition characteristics that the bulk composition of a compound layer remains unchanged after its initial formation instead of varying with the diffusion reaction system; here the model is modified for the case of grain boundary diffusion. Lastly, we apply this model to the Nb3Sn superconductors and propose approaches to control their compositions.« less

  3. Development and test of single-layer common coil dipole wound with reacted Nb3Sn cable

    SciTech Connect

    Vladimir Kashikhin et al.

    2004-04-27

    The first one-meter long common coil dipole model (HFDC-01) has been fabricated and is being tested at Fermilab. This magnet has several innovative features such as: single-layer racetrack coils, a 22-mm wide 59-strand Rutherford-type cable made of 0.7-mm Nb{sub 3}Sn strands, and a stainless steel coil-support structure reinforced by horizontal bridges inserted between coil blocks. The model was instrumented with voltage taps, quench heaters, temperature sensors and strain gauges in order to monitor the quench origin and propagation, and to study mechanical and quench protection issues. This paper summarizes the model design parameters, the fabrication procedures and the test results.

  4. Structure of an Rrp6-RNA exosome complex bound to poly(A) RNA

    SciTech Connect

    Wasmuth, Elizabeth V.; Januszyk, Kurt; Lima, Christopher D.

    2014-08-20

    The eukaryotic RNA exosome processes and degrades RNA by directing substrates to the distributive or processive 3' to 5' exoribonuclease activities of Rrp6 or Rrp44, respectively. The non-catalytic nine-subunit exosome core (Exo9) features a prominent central channel. Although RNA can pass through the channel to engage Rrp44, it is not clear how RNA is directed to Rrp6 or whether Rrp6 uses the central channel. Here we report a 3.3 Å crystal structure of a ten-subunit RNA exosome complex from Saccharomyces cerevisiae composed of the Exo9 core and Rrp6 bound to single-stranded poly(A) RNA. The Rrp6 catalytic domain rests on top of the Exo9 S1/KH ring above the central channel, the RNA 3' end is anchored in the Rrp6 active site, and the remaining RNA traverses the S1/KH ring in an opposite orientation to that observed in a structure of a Rrp44-containing exosome complex. Solution studies with human and yeast RNA exosome complexes suggest that the RNA path to Rrp6 is conserved and dependent on the integrity of the S1/KH ring. Although path selection to Rrp6 or Rrp44 is stochastic in vitro, the fate of a particular RNA may be determined in vivo by the manner in which cofactors present RNA to the RNA exosome.

  5. Design and Fabrication of a Single-Aperture 11T Nb3Sn Dipole Model for LHC Upgrades

    SciTech Connect

    Andreev, N.; Apollinari, G.; Barzi, E.; Bossert, R.; Nobrega, F.; Novitski, I.; Turrioni, D.; Yamada, R.; Zlobin, A.V.; Auchmann, B.; Karppinen, M.; /CERN

    2011-11-28

    The planned upgrade of the LHC collimation system includes additional collimators to be installed in the dispersion suppressor areas of points 2, 3 and 7. To provide the necessary longitudinal space for the collimators, a replacement of 8.33 T Nb-Ti LHC main dipoles with 11 T dipoles based on Nb{sub 3}Sn superconductor compatible with the LHC lattice and main systems is being considered. To demonstrate this possibility FNAL and CERN have started a joint program to develop a 2 m long single-aperture dipole magnet with the nominal field of 11 T at {approx}11.85 kA current and 60 mm bore. This paper describes the demonstrator magnet magnetic and mechanical designs and analysis, coil fabrication procedure. The Nb{sub 3}Sn strand and cable parameters and test results are also reported.

  6. Formation and upper critical fields of the two distinct A15 phases in the subelements of powder-in-tube Nb3Sn wires

    NASA Astrophysics Data System (ADS)

    Senatore, Carmine; Flükiger, René

    2013-01-01

    It is well known that the A15 layer in the subelements of a powder-in-tube (PIT) Nb3Sn wire exhibits two different grain morphologies: a region with fine grains (˜200 nm in size) representing about 60% of the total A15 area and one with large grains (1-2 μm in size). By means of high field specific heat and magnetization measurements, we have shown that these two A15 phases correspond to two distinctly different Tc distributions, the large grains region exhibiting a higher Tc and a lower Bc2, the fine grains region a lower Tc and a higher Bc2. We report here the values of the superconducting parameters (Tc, Bc2) of the two A15 phases, as determined from an original model to fit the experimental Tc distribution. After a prolonged reaction treatment (625 °C /320 h), an increase of the fine grain region was observed at the expenses of the large grain region, the Bc2(0 K) value of the former being raised from 28.8 to 31.7 T. These changes explain the marked increase of Jc to 2700 A /cm2 at 4.2 K/12 T, the highest value measured so far in PIT wires.

  7. Mechanical qualification of the support structure for MQXF, the Nb3Sn low-β quadrupole for the high luminosity LHC

    DOE PAGES

    Juchno, M.; Ambrosio, G.; Anerella, M.; ...

    2016-01-26

    Within the scope of the High Luminosity LHC project, the collaboration between CERN and U.S. LARP is developing new low-β quadrupoles using the Nb3Sn superconducting technology for the upgrade of the LHC interaction regions. The magnet support structure of the first short model was designed and two units were fabricated and tested at CERN and at LBNL. The structure provides the preload to the collars-coils subassembly by an arrangement of outer aluminum shells pre-tensioned with water-pressurized bladders. For the mechanical qualification of the structure and the assembly procedure, superconducting coils were replaced with solid aluminum “dummy coils”, the structure wasmore » preloaded at room temperature, and then cooled-down to 77 K. Mechanical behavior of the magnet structure was monitored with the use of strain gauges installed on the aluminum shells, the dummy coils and the axial preload system. As a result, this paper reports on the outcome of the assembly and the cool-down tests with dummy coils, which were performed at CERN and at LBNL, and presents the strain gauge measurements compared to the 3D finite element model predictions.« less

  8. Nb3Sn RRP® strand and Rutherford cable development for a 15 T dipole demonstrator

    SciTech Connect

    Barzi, E.; Andreev, N.; Li, P.; Lombardo, V.; Turrioni, D.; Zlobin, A. V.

    2016-03-16

    Keystoned Rutherford cables made of 28 strands and with a stainless steel core were developed and manufactured using 1 mm Nb3Sn composite wires produced by Oxford Superconducting Technology with 127 and 169 restacks using the Restacked-Rod-Process®. Furthermore, the performance and properties of these cables were studied to evaluate possible candidates for 15 T accelerator magnets.

  9. Final Report: MATERIALS, STRANDS, AND CABLES FOR SUPERCONDUCTING ACCELERATOR MAGNETS [Grant Number DE-SC0010312

    SciTech Connect

    Sumption, Mike D.; Collings, Edward W.

    2014-10-29

    Our program consisted of the two components: Strand Research and Cable Research, with a focus on Nb3Sn, Bi2212, and YBCO for accelerator magnet applications. We demonstrated a method to refine the grains in Nb3Sn by a factor of two, reaching 45 nm grain sizes, and layer Jcs of 6 kA/mm2 at 12 T. W also measured conductor magnetization for field quality. This has been done both with Nb3Sn conductor, as well as Bi:2212 strand. Work in support of quench studies of YBCO coils was also performed. Cable loss studies in Nb3Sn focused on connecting and comparing persistent magnetization and coupling magnetization for considering their relative impact on HEP machines. In the area of HTS cables, we have investigated both the quench in multistrand YBCO CORC cables, as well as the magnetization of these cables for use in high field magnets. In addition, we examined the magnetic and thermal properties of large (50 T) solenoids.

  10. Overexpression of a Rrp1 transgene reduces the somatic mutation and recombination frequency induced by oxidative DNA damage in Drosophila melanogaster.

    PubMed

    Szakmary, A; Huang, S M; Chang, D T; Beachy, P A; Sander, M

    1996-02-20

    Recombination repair protein 1 (Rrp1) includes a C-terminal region homologous to several DNA repair proteins, including Escherichia coli exonuclease III and human APE, that repair oxidative and alkylation damage to DNA. The nuclease activities of Rrp1 include apurinic/apyrimidinic endonuclease, 3'-phosphodiesterase, 3'-phosphatase, and 3'-exonuclease. As shown previously, the C-terminal nuclease region of Rrp1 is sufficient to repair oxidative- and alkylation-induced DNA damage in repair-deficient E. coli mutants. DNA strand-transfer and single-stranded DNA renaturation activities are associated with the unique N-terminal region of Rrp1, which suggests possible additional functions that include recombinational repair or homologous recombination. By using the Drosophila w/w+ mosaic eye system, which detects loss of heterozygosity as changes in eye pigmentation, somatic mutation and recombination frequencies were determined in transgenic flies overexpressing wild-type Rrp1 protein from a heat-shock-inducible transgene. A large decrease in mosaic clone frequency is observed when Rrp1 overexpression precedes treatment with gamma-rays, bleomycin, or paraquat. In contrast, Rrp1 overexpression does not alter the spot frequency after treatment with the alkylating agents methyl methanesulfonate or methyl nitrosourea. A reduction in mosaic clone frequency depends on the expression of the Rrp1 transgene and on the nature of the induced DNA damage. These data suggest a lesion-specific involvement of Rrp1 in the repair of oxidative DNA damage.

  11. LARP Long Nb3Sn Quadrupole Design

    SciTech Connect

    Ambrosio, G.; Andreev, N.; Anerella, M.; Barzi, E.; Bossert, R.; Caspi, S.; Chlachidize, G.; Dietderich, D.; Feher, S.; Ferracin, P.; Ghosh, A.; Hafalia, R.; Hannaford, R.; Kashikhin, V.V.; Kerby, J.; Lamm, M.; Lietzke, A.; McInturff, A.; Muratore, J.; Nobrega, F.; Novitsky, I.; Sabbi, G.L.; Schmalzle, J.; Tartaglia, M.; Turrioni, D.; Wanderer, P.; Whitson, G.; Zlobin, A.V.

    2008-06-01

    A major milestone for the LHC Accelerator Research Program (LARP) is the test, by the end of 2009, of two 4m-long quadrupole magnets (LQ) wound with Nb{sub 3}Sn conductor. The goal of these magnets is to be a proof of principle that Nb{sub 3}Sn is a viable technology for a possible LHC luminosity upgrade. The design of the LQ is based on the design of the LARP Technological Quadrupoles, presently under development at FNAL and LBNL, with 90-mm aperture and gradient higher than 200 T/m. The design of the first LQ model will be completed by the end of 2007 with the selection of a mechanical design. In this paper we present the coil design addressing some fabrication technology issues, the quench protection study, and three designs of the support structure.

  12. Nb3Sn Artificial Pinning Microstructures

    SciTech Connect

    Dietderich, D.R.; Scanlan, R.M.

    1996-12-12

    Extension of the APC approach to Nb{sub 3}Sn requires that a second phae be incorporated into the Nb{sub 3}Sn layer. The second phase would increase pinning strength by either reducing the grain size or by the second phase pinning the flux itwelf. The following criteria for elements to be candidates for the APC approach are: (1) they must form intermetallic compounds with Cu or Sn and (2) they must have negligible solubility in Cu and Nb or they must be strong oxide formers. many of the rare earth elements satisfy these criteria. To circumvent the large strains required to produce wires with a fine distribution of the second phase, film deposition techniques have been used. Critical current densities for Nb films doped with Ti and Y are about 4,000 A/mm{sup 2} at 6T and 4.2 K.

  13. Aluminum-stabilized NB3SN superconductor

    DOEpatents

    Scanlan, Ronald M.

    1988-01-01

    An aluminum-stabilized Nb.sub.3 Sn superconductor and process for producing same, utilizing ultrapure aluminum. Ductile components are co-drawn with aluminum to produce a conductor suitable for winding magnets. After winding, the conductor is heated to convert it to the brittle Nb.sub.3 Sn superconductor phase, using a temperature high enough to perform the transformation but still below the melting point of the aluminum. This results in reaction of substantially all of the niobium, while providing stabilization and react-in-place features which are beneficial in the fabrication of magnets utilizing superconducting materials.

  14. Nb3Sn Superconductor Loss Study

    DTIC Science & Technology

    1988-01-08

    number of filaments becoming normal. 44 THE SECOND TRANSITION TEMPERATURE 7 It has been shown by Luhman and Suenaga that the critical tem- perature T...Vol. 2, Ed. by R. D. Parks, Marcel Dekker, New York (1969). 6. T. J. Callaghan and L. E. Toth, J. Appl. Phys. 46, 4013 (1975). 7. T. Luhman and M

  15. LARP Long Nb3Sn Quadrupole Design.

    SciTech Connect

    Ambrosio,G.; Andreev, N.; Anerella, M.; Barzi, E.; Bossert, R.; Caspi, S.; Chlachidize, G.; Dietderich, D.; Feher, S.; Felice, H.; Ferracin, P.; Ghosh, A.; Hafalia, A.R.; Hannaford, C.R.; Kashikhin, V.V.; Kerby, J.; Lamm, M.; Lietzke, A.; McInturff, A.; Muratore, J.; Nobrega, F.; Novitsky, I.; Sabbi, G.L.; Schmalzle, J.; Tartaglia, M.; Turrioni, D.; Wanderer, P.; Whitson, G.; Zlobin, A.V.

    2007-08-27

    A major milestone for the LHC Accelerator Research Program (LARP) is the test, by the end of 2009, of two 4m-long quadrupole magnets (LQ) wound with Nb{sub 3}Sn conductor. The goal of these magnets is to be a proof of principle that Nb{sub 3}Sn is a viable technology for a possible LHC luminosity upgrade. The design of the LQ is based on the design of the LARP Technological Quadrupoles, presently under development at FNAL and LBNL, with 90-mm aperture and gradient higher than 200 T/m. The design of the first LQ model will be completed by the end of 2007 with the selection of a mechanical design. In this paper we present the coil design addressing some fabrication technology issues, the quench protection study, and three designs of the support structure.

  16. Activities of human RRP6 and structure of the human RRP6 catalytic domain

    SciTech Connect

    Januszyk, Kurt; Liu, Quansheng; Lima, Christopher D.

    2011-08-29

    The eukaryotic RNA exosome is a highly conserved multi-subunit complex that catalyzes degradation and processing of coding and noncoding RNA. A noncatalytic nine-subunit exosome core interacts with Rrp44 and Rrp6, two subunits that possess processive and distributive 3'-to-5' exoribonuclease activity, respectively. While both Rrp6 and Rrp44 are responsible for RNA processing in budding yeast, Rrp6 may play a more prominent role in processing, as it has been demonstrated to be inhibited by stable RNA secondary structure in vitro and because the null allele in budding yeast leads to the buildup of specific structured RNA substrates. Human RRP6, otherwise known as PM/SCL-100 or EXOSC10, shares sequence similarity to budding yeast Rrp6 and is proposed to catalyze 3'-to-5' exoribonuclease activity on a variety of nuclear transcripts including ribosomal RNA subunits, RNA that has been poly-adenylated by TRAMP, as well as other nuclear RNA transcripts destined for processing and/or destruction. To characterize human RRP6, we expressed the full-length enzyme as well as truncation mutants that retain catalytic activity, compared their activities to analogous constructs for Saccharomyces cerevisiae Rrp6, and determined the X-ray structure of a human construct containing the exoribonuclease and HRDC domains that retains catalytic activity. Structural data show that the human active site is more exposed when compared to the yeast structure, and biochemical data suggest that this feature may play a role in the ability of human RRP6 to productively engage and degrade structured RNA substrates more effectively than the analogous budding yeast enzyme.

  17. Correlation of filament distortion and RRR degradation in drawn and rolled PIT and RRP Nb 3 Sn wires

    SciTech Connect

    Brown, M.; Tarantini, C.; Starch, W.; Oates, W.; Lee, P. J.; Larbalestier, D. C.

    2016-07-11

    PIT and RRP® Nb3Sn strands are being developed for high field accelerator magnet upgrades for the high luminosity LHC. Here we report a quantitative study of the shape and position of PIT filaments and RRP® sub-elements after rolling lengths of unreacted PIT and RRP® round wires to simulate cabling deformation. In the as-drawn condition, filament shape distortion occurs preferentially in the outer ring filaments. By contrast, rolling induces non-uniform shear bands that generate greater distortion of inner ring filaments. By making a full digitization of the shapes of all filaments, we find that a critical distortion occurs for thickness reductions between 10% and 20% when filament shapes in inner filament rings heavily degrade, especially in the vicinity of the strong 45° shear bands imposed by the rolling. It is well known that maintaining diffusion barrier integrity is vital to retaining adequate RRR in the stabilizing copper needed for magnet stability. Diffusion barrier breaks occur preferentially in these distorted inner filaments and drive local Sn leakage during reaction, increasing RRR degradation.

  18. Studies of $${\\rm Nb}_{3}{\\rm Sn}$$ Strands Based on the Restacked-Rod Process for High Field Accelerator Magnets

    DOE PAGES

    Barzi, E.; Bossert, M.; Gallo, G.; ...

    2011-12-21

    A major thrust in Fermilab's accelerator magnet R&D program is the development of Nb3Sn wires which meet target requirements for high field magnets, such as high critical current density, low effective filament size, and the capability to withstand the cabling process. The performance of a number of strands with 150/169 restack design produced by Oxford Superconducting Technology was studied for round and deformed wires. To optimize the maximum plastic strain, finite element modeling was also used as an aid in the design. Results of mechanical, transport and metallographic analyses are presented for round and deformed wires.

  19. Fabrication and Test of LARP Technological Quadrupole Models of TQC Series

    SciTech Connect

    Bossert, Rodger C.; Ambrosio, Giorgio; Andreev, Nilolai; Barzi, Emanuela; Chlachidze, Guram; Feher, Sandor; Kashikhin, Vladimir S.; Kashikhin, Vadim V.; Lamm, Michael; Nobrega, Alfred; Novitski, Igor; Orris, Darryl; Tartaglia, Michael; Zlobin, Alexander V.; Caspi, Shlomo; Dietderich, Daniel R.; Ferracin, Paolo; Hafalia, A. R.; Sabbi, GianLuca; Ghosh, Arup; Wanderer, Peter

    2008-08-17

    In support of the development of a large-aperture Nb3Sn superconducting quadrupole for the Large Hadron Collider (LHC) luminosity upgrade, several two-layer technological quadrupole models of TQC series with 90 mm aperture and collar-based mechanical structure have been developed at Fermilab in collaboration with LBNL. This paper summarizes the results of fabrication and test of TQC02a, the second TQC model based on RRP Nb3Sn strand, and TQC02b, built with both MJR and RRP strand. The test results presented include magnet strain and quench performance during training, as well as quench studies of current ramp rate and temperature dependence from 1.9 K to 4.5 K.

  20. Instrumentation and Quench Protection for LARP Nb3Sn Magnets

    SciTech Connect

    Felice, H.; Ambrosio, G.; Chlachidize, G.; Ferracin, P.; Hafalia, R.; Hannaford, R. C.; Joseph, J.; Lietzke, A.; McInturff, A.; Muratore, J.; Prestemon, S.; Sabbi, G. L.; Schmalzle, J.; Wanderer, P.; Wang, X.

    2008-08-17

    The US LHC Accelerator Research Program (LARP) is developing Nb{sub 3}Sn prototype quadrupoles for the LHC interaction region upgrades. Several magnets have been tested within this program and understanding of their behavior and performance is a primary goal. The instrumentation is consequently a key consideration, as is protection of the magnet during quenches. In all LARP magnets, the flexible circuits traces combine the instrumentation and the protection heaters. Their fabrication relies on printed circuit technology based on a laminate made of a 45-micron thick kapton sheet and a 25-micron thick foil of stainless steel. This paper reviews the protection heaters designs used in the TQ (Technology Quadrupole) and LR (Long Racetrack) series as well as the one used in LBNL HD2a high field dipole and presents the design of the traces for the Long Quadrupole (LQ), addressing challenges associated with the stored energy and the length of the magnet.

  1. Developmentof the 15 T Nb3Sn dipole HD2

    SciTech Connect

    Caspi, S.; Cheng, D.W.; Dietderich, D.R.; Hafalia, A.R.; Hannaford, C.R.; Higley, H.; Lietzke, A.F.; Lizarazo, J.; McInturff, A.D.; Sabbi, G.; Ferracin, P.

    2008-06-01

    The Superconducting Magnet Program at Lawrence Berkeley National Laboratory (LBNL) is continuing the development of HD2, a 1 m long Nb{sub 3}Sn dipole generating a dipole field of 15 T in a 36 mm clear bore. With tilted (flared) ends to avoid obstructing the beam path, HD2 represents a step towards the development of cost effective accelerator quality magnets. The design has been optimized to minimize geometric harmonics and to address iron saturation and conductor magnetization effects. The support structure is based on an external aluminum shell, pre-tensioned with pressurized bladders and interference keys. Aluminum axial rods and stainless steel end plates provide longitudinal support to the coil ends during magnet excitation. This paper reports on field quality optimization and magnet parameters. The design and fabrication of the coil and structure components, and results from coil winding, reaction, and potting are also presented.

  2. Development of a large aperture Nb3Sn racetrack quadrupolemagnet

    SciTech Connect

    Ferracin, Paolo; Bartlett, Scott E.; Caspi, Shlomo; Dietderich,Daniel R.; Gourlay, Steven A.; Hannaford, Charles R.; Hafalia, AurelioR.; Lietzke, Alan F.; Mattafirri, Sara; McInturff, Alfred D.; Nyman,Mark; Sabbi, Gianluca

    2005-04-14

    The U.S. LHC Accelerator Research Program (LARP), a collaboration between BNL, FNAL, LBNL, and SLAC, has among its major objectives the development of advanced magnet technology for an LHC luminosity upgrade. The LBNL Superconducting Magnet Group supports this program with a broad effort involving design studies, Nb{sub 3}Sn conductor development, mechanical models, and basic prototypes. This paper describes the development of a large aperture Nb{sub 3}Sn racetrack quadrupole magnet using four racetrack coils from the LBNL Subscale Magnet (SM) Program. The magnet provides a gradient of 95 T/m in a 110 mm bore, with a peak field in the conductor of 11.2 T. The coils are prestressed by a mechanical structure based on a pre-tensioned aluminum shell, and axially supported with aluminum rods. The mechanical behavior has been monitored with strain gauges and the magnetic field has been measured. Results of the test are reported and analyzed.

  3. Field quality study in Nb(3)Sn accelerator magnets

    SciTech Connect

    Kashikhin, V.V.; Ambrosio, G.; Andreev, N.; Barzi, E.; Bossert, R.; DiMarco, J.; Kashikhin, V.S.; Lamm, M.; Novitski, I.; Schlabach, P.; Velev, G.; Yamada, R.; Zlobin, A.V.; /Fermilab

    2005-05-01

    Four nearly identical Nb{sub 3}Sn dipole models of the same design were built and tested at Fermilab. It provided a unique opportunity of systematic study the field quality effects in Nb{sub 3}Sn accelerator magnets. The results of these studies are reported in the paper.

  4. An Interaction between RRP6 and SU(VAR)3-9 Targets RRP6 to Heterochromatin and Contributes to Heterochromatin Maintenance in Drosophila melanogaster

    PubMed Central

    Eberle, Andrea B.; Jordán-Pla, Antonio; Gañez-Zapater, Antoni; Hessle, Viktoria; Silberberg, Gilad; von Euler, Anne; Silverstein, Rebecca A.; Visa, Neus

    2015-01-01

    RNA surveillance factors are involved in heterochromatin regulation in yeast and plants, but less is known about the possible roles of ribonucleases in the heterochromatin of animal cells. Here we show that RRP6, one of the catalytic subunits of the exosome, is necessary for silencing heterochromatic repeats in the genome of Drosophila melanogaster. We show that a fraction of RRP6 is associated with heterochromatin, and the analysis of the RRP6 interaction network revealed physical links between RRP6 and the heterochromatin factors HP1a, SU(VAR)3-9 and RPD3. Moreover, genome-wide studies of RRP6 occupancy in cells depleted of SU(VAR)3-9 demonstrated that SU(VAR)3-9 contributes to the tethering of RRP6 to a subset of heterochromatic loci. Depletion of the exosome ribonucleases RRP6 and DIS3 stabilizes heterochromatic transcripts derived from transposons and repetitive sequences, and renders the heterochromatin less compact, as shown by micrococcal nuclease and proximity-ligation assays. Such depletion also increases the amount of HP1a bound to heterochromatic transcripts. Taken together, our results suggest that SU(VAR)3-9 targets RRP6 to a subset of heterochromatic loci where RRP6 degrades chromatin-associated non-coding RNAs in a process that is necessary to maintain the packaging of the heterochromatin. PMID:26389589

  5. Rrp2, a Prokaryotic Enhancer-Like Binding Protein, Is Essential for Viability of Borrelia burgdorferi

    PubMed Central

    Groshong, Ashley M.; Gibbons, Nora E.; Yang, X. Frank

    2012-01-01

    The Lyme disease spirochete, Borrelia burgdorferi, exists in two diverse niches (i.e., an arthropod tick vector and mammalian host) during its enzootic life cycle. To effectively adapt to these unique environments, the bacterium alters the expression of numerous genes, including several major outer surface (lipo)proteins that are required for infection and transmission. An enhancer-binding protein (EBP), known as Rrp2, is one identified activator of the RpoN/RpoS alternative sigma factor cascade. Because initial efforts to generate an rrp2 deletion strain were unsuccessful, the role of Rrp2 in the activation of the RpoN/RpoS pathway was first defined using a strain of B. burgdorferi carrying an rrp2 point mutant that was defective in its ability to activate RpoN-dependent transcription. The fact that subsequent attempts to disrupt rrp2 have also been unsuccessful has led investigators to hypothesize that Rrp2 has other undefined functions which are essential for B. burgdorferi survival and independent of its EBP function. We used a lac-based inducible expression system to generate a conditional rrp2 mutant in virulent B. burgdorferi. In this strain, an isopropyl-β-d-thiogalactopyranoside-inducible copy of the rrp2 gene is expressed in trans from a borrelial shuttle vector. We found that the chromosomal copy of rrp2 could be inactivated only when rrp2 was induced, and the maintenance of rrp2 expression was required for the growth of the mutants. In addition, the overexpression of rrp2 is detrimental to B. burgdorferi growth in a manner that is independent of the RpoN/RpoS pathway. These studies provide the first direct evidence that rrp2 is an essential gene in B. burgdorferi. PMID:22544267

  6. The Rrp6 C-terminal domain binds RNA and activates the nuclear RNA exosome

    PubMed Central

    Wasmuth, Elizabeth V.; Lima, Christopher D.

    2017-01-01

    The eukaryotic RNA exosome is an essential, multi-subunit complex that catalyzes RNA turnover, maturation, and quality control processes. Its non-catalytic donut-shaped core includes 9 subunits that associate with the 3′ to 5′ exoribonucleases Rrp6, and Rrp44/Dis3, a subunit that also catalyzes endoribonuclease activity. Although recent structures and biochemical studies of RNA bound exosomes from S. cerevisiae revealed that the Exo9 central channel guides RNA to either Rrp6 or Rrp44 using partially overlapping and mutually exclusive paths, several issues related to RNA recruitment remain. Here, we identify activities for the highly basic Rrp6 C-terminal tail that we term the ‘lasso’ because it binds RNA and stimulates ribonuclease activities associated with Rrp44 and Rrp6 within the 11-subunit nuclear exosome. Stimulation is dependent on the Exo9 central channel, and the lasso contributes to degradation and processing activities of exosome substrates in vitro and in vivo. Finally, we present evidence that the Rrp6 lasso may be a conserved feature of the eukaryotic RNA exosome. PMID:27899565

  7. Inter-strand current sharing and ac loss measurements in superconducting YBCO Roebel cables

    NASA Astrophysics Data System (ADS)

    Majoros, M.; Sumption, M. D.; Collings, E. W.; Long, N. J.

    2015-05-01

    A Roebel cable, one twist pitch long, was modified from its as-received state by soldering copper strips between the strands to provide inter-strand connections enabling current sharing. Various DC transport currents (representing different percentages of its critical current) were applied to a single strand of such a modified cable at 77 K in a liquid nitrogen bath. Simultaneous monitoring of I-V curves in different parts of the strand as well as in its interconnections with other strands was made using a number of sensitive Keithley nanovoltmeters in combination with a multi-channel high-speed data acquisition card, all controlled via LabView software. Current sharing onset was observed at about 1.02 of strand Ic. At a strand current of 1.3Ic about 5% of the current was shared through the copper strip interconnections. A finite element method modeling was performed to estimate the inter-strand resistivities required to enable different levels of current sharing. The relative contributions of coupling and hysteretic magnetization (and loss) were compared, and for our cable and tape geometry, and at dB/dt = 1 T s-1, and our inter-strand resistance of 0.77 mΩ, (enabling a current sharing of 5% at 1.3Ic ) the coupling component was 0.32% of the hysteretic component. However, inter-strand contact resistance values of 100-1000 times smaller (close to those of NbTi and Nb3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.

  8. Inter-strand current sharing and ac loss measurements in superconducting YBCO Roebel cables

    DOE PAGES

    sumption, Mike; Majoros, Milan; Collings, E. W.; ...

    2014-11-07

    A Roebel cable, one twist pitch long, was modified from its as-received state by soldering copper strips between the strands to provide inter-strand connections enabling current sharing. Various DC transport currents (representing different percentages of its critical current) were applied to a single strand of such a modified cable at 77 K in a liquid nitrogen bath. Simultaneous monitoring of I–V curves in different parts of the strand as well as in its interconnections with other strands was made using a number of sensitive Keithley nanovoltmeters in combination with a multichannel high-speed data acquisition card, all controlled via LabView software.more » Current sharing onset was observed at about 1.02 of strand Ic. At a strand current of 1.3Ic about 5% of the current was shared through the copper strip interconnections. A finite element method modeling was performed to estimate the inter-strand resistivities required to enable different levels of current sharing. The relative contributions of coupling and hysteretic magnetization (and loss) were compared, and for our cable and tape geometry, and at dB/dt=1 T s-1, and our inter-strand resistance of 0.77 mΩ, (enabling a current sharing of 5% at 1.3Ic ) the coupling component was 0.32% of the hysteretic component. However, inter-strand contact resistance values of 100–1000 times smaller (close to those of NbTi and Nb3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.« less

  9. Inter-strand current sharing and ac loss measurements in superconducting YBCO Roebel cables

    DOE PAGES

    Majoros, M.; Sumption, M. D.; Collings, E. W.; ...

    2015-04-08

    A Roebel cable, one twist pitch long, was modified from its as-received state by soldering copper strips between the strands to provide inter-strand connections enabling current sharing. Various DC transport currents (representing different percentages of its critical current) were applied to a single strand of such a modified cable at 77 K in a liquid nitrogen bath. Simultaneous monitoring of I–V curves in different parts of the strand as well as in its interconnections with other strands was made using a number of sensitive Keithley nanovoltmeters in combination with a multichannel high-speed data acquisition card, all controlled via LabView software.more » Current sharing onset was observed at about 1.02 of strand Ic. At a strand current of 1.3Ic about 5% of the current was shared through the copper strip interconnections. A finite element method modeling was performed to estimate the inter-strand resistivities required to enable different levels of current sharing. The relative contributions of coupling and hysteretic magnetization (and loss) were compared, and for our cable and tape geometry, and at dB/dt=1 T s-1, and our inter-strand resistance of 0.77 mΩ, (enabling a current sharing of 5% at 1.3Ic) the coupling component was 0.32% of the hysteretic component. However, inter-strand contact resistance values of 100–1000 times smaller (close to those of NbTi and Nb3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.« less

  10. Rrp6: Integrated roles in nuclear RNA metabolism and transcription termination

    PubMed Central

    Fox, Melanie J.

    2015-01-01

    The yeast RNA exosome is a eukaryotic ribonuclease complex essential for RNA processing, surveillance and turnover. It is comprised of a barrel-shaped core and cap as well as a 3’–5’ ribonuclease known as Dis3 which contains both endo- and exonuclease domains. A second exonuclease, Rrp6, is added in the nucleus. Dis3 and Rrp6 have both shared and distinct roles in RNA metabolism, and this review will focus primarily on Rrp6 and the roles of the RNA exosome in the nucleus. The functions of the nuclear exosome are modulated by cofactors and interacting partners specific to each type of substrate. Generally, the cofactor TRAMP (Trf4/5-Air2/1-Mtr4 polyadenylation) complex helps unwind unstable RNAs, RNAs requiring processing such as rRNAs, tRNAs, or snRNAs or improperly processed RNAs and direct it toward the exosome. In yeast, Rrp6 interacts with Nrd1, the cap binding complex (CBC), and RNA Polymerase II to aid in nascent RNA processing, termination, and polyA tail length regulation. Recent studies have shown that proper termination and processing of short, non-coding RNAs by Rrp6 is particularly important for transcription regulation across the genome and has important implications for regulation of diverse processes at the cellular level. Loss of proper Rrp6 and exosome activity may contribute to various pathologies such as autoimmune disease, neurological disorders, and cancer. PMID:26612606

  11. Metallographic autopsies of full-scale ITER prototype cable-in-conduit conductors after full cyclic testing in SULTAN: II. Significant reduction of strand movement and strand damage in short twist pitch CICCs

    DOE PAGES

    Sanabria, Charlos; Lee, Peter J.; Starch, William; ...

    2015-10-14

    Prototype cable in conduit conductors (CICCs) destined for use in the Toroidal Field (TF) and Central Solenoid (CS) coils of the ITER experimental fusion reactor underwent severe cyclic loading in the SULTAN facility. Their autopsies revealed significant and permanent transverse strand migration due to the large Lorentz forces of the SULTAN test. The movement resulted in a 3 7% void fraction increase on the Low Pressure (LP) side of the longer twist pitch CICCs. However, short twist pitch conductors exhibited less than 1% void fraction increase in the LP side, as well as a complete absence of the Nb3Sn filamentmore » fractures observed in the longer twist pitch conductors. We report here a detailed strand to cable analysis of short and longer “baseline” twist pitch CICCs. It was found that the use of Internal Tin strands in the longer “baseline” twist pitch CICCs can be beneficial possibly because of their superior stiffness—which better resist strand movement—while the use of Bronze Process strands showed more movement and poorer cyclic test performance. This was not the case for the short twist pitch CICC. Such conductor design seems to work well with both strand types. But it was found that despite the absence of filament fractures, the short twist pitch CICC made from the Internal Tin strands studied here developed severe strand distortion during cabling which resulted in diffusion barrier breaks and Sn contamination of the Cu stabilizer during the heat treatment. Furthermore, the short twist pitch CICC made from Bronze Process strands preserved diffusion barrier integrity.« less

  12. The Campylobacter jejuni Oxidative Stress Regulator RrpB Is Associated with a Genomic Hypervariable Region and Altered Oxidative Stress Resistance

    PubMed Central

    Gundogdu, Ozan; da Silva, Daiani T.; Mohammad, Banaz; Elmi, Abdi; Wren, Brendan W.; van Vliet, Arnoud H. M.; Dorrell, Nick

    2016-01-01

    Campylobacter jejuni is the leading cause of bacterial foodborne diarrhoeal disease worldwide. Despite the microaerophilic nature of the bacterium, C. jejuni can survive the atmospheric oxygen conditions in the environment. Bacteria that can survive either within a host or in the environment like C. jejuni require variable responses to survive the stresses associated with exposure to different levels of reactive oxygen species. The MarR-type transcriptional regulators RrpA and RrpB have recently been shown to play a role in controlling both the C. jejuni oxidative and aerobic stress responses. Analysis of 3,746 C. jejuni and 486 C. coli genome sequences showed that whilst rrpA is present in over 99% of C. jejuni strains, the presence of rrpB is restricted and appears to correlate with specific MLST clonal complexes (predominantly ST-21 and ST-61). C. coli strains in contrast lack both rrpA and rrpB. In C. jejuni rrpB+ strains, the rrpB gene is located within a variable genomic region containing the IF subtype of the type I Restriction-Modification (hsd) system, whilst this variable genomic region in C. jejuni rrpB- strains contains the IAB subtype hsd system and not the rrpB gene. C. jejuni rrpB- strains exhibit greater resistance to peroxide and aerobic stress than C. jejuni rrpB+ strains. Inactivation of rrpA resulted in increased sensitivity to peroxide stress in rrpB+ strains, but not in rrpB- strains. Mutation of rrpA resulted in reduced killing of Galleria mellonella larvae and enhanced biofilm formation independent of rrpB status. The oxidative and aerobic stress responses of rrpB- and rrpB+ strains suggest adaptation of C. jejuni within different hosts and niches that can be linked to specific MLST clonal complexes. PMID:28082970

  13. Metallographic autopsies of full-scale ITER prototype cable-in-conduit conductors after full testing in SULTAN: 1. The mechanical role of copper strands in a CICC

    DOE PAGES

    Sanabria, Carlos; Lee, Peter J.; Starch, William; ...

    2015-06-22

    Cables made with Nb3Sn-based superconductor strands will provide the 13 T maximum peak magnetic field of the ITER Central Solenoid (CS) coils and they must survive up to 60,000 electromagnetic cycles. Accordingly, prototype designs of CS cable-in-conduit-conductors (CICC) were electromagnetically tested over multiple magnetic field cycles and warm-up-cool-down scenarios in the SULTAN facility at CRPP. We report here a post mortem metallographic analysis of two CS CICC prototypes which exhibited some rate of irreversible performance degradation during cycling. The standard ITER CS CICC cable design uses a combination of superconducting and Cu strands, and because the Lorentz force on themore » strand is proportional to the transport current in the strand, removing the copper strands (while increasing the Cu:SC ratio of the superconducting strands) was proposed as one way of reducing the strand load. In this study we compare the two alternative CICCs, with and without Cu strands, keeping in mind that the degradation after SULTAN test was lower for the CICC without Cu strands. The post mortem metallographic evaluation revealed that the overall strand transverse movement was 20% lower in the CICC without Cu strands and that the tensile filament fractures found were less, both indications of an overall reduction in high tensile strain regions. Furthermore, it was interesting to see that the Cu strands in the mixed cable design (with higher degradation) helped reduce the contact stresses on the high pressure side of the CICC, but in either case, the strain reduction mechanisms were not enough to suppress cyclic degradation. Advantages and disadvantages of each conductor design are discussed here aimed to understand the sources of the degradation.« less

  14. Degradation of a polyadenylated rRNA maturation by-product involves one of the three RRP6-like proteins in Arabidopsis thaliana.

    PubMed

    Lange, Heike; Holec, Sarah; Cognat, Valérie; Pieuchot, Laurent; Le Ret, Monique; Canaday, Jean; Gagliardi, Dominique

    2008-05-01

    Yeast Rrp6p and its human counterpart, PM/Scl100, are exosome-associated proteins involved in the degradation of aberrant transcripts and processing of precursors to stable RNAs, such as the 5.8S rRNA, snRNAs, and snoRNAs. The activity of yeast Rrp6p is stimulated by the polyadenylation of its RNA substrates. We identified three RRP6-like proteins in Arabidopsis thaliana: AtRRP6L3 is restricted to the cytoplasm, whereas AtRRP6L1 and -2 have different intranuclear localizations. Both nuclear RRP6L proteins are functional, since AtRRP6L1 complements the temperature-sensitive phenotype of a yeast rrp6Delta strain and mutation of AtRRP6L2 leads to accumulation of an rRNA maturation by-product. This by-product corresponds to the excised 5' part of the 18S-5.8S-25S rRNA precursor and accumulates as a polyadenylated transcript, suggesting that RRP6L2 is involved in poly(A)-mediated RNA degradation in plant nuclei. Interestingly, the rRNA maturation by-product is a substrate of AtRRP6L2 but not of AtRRP6L1. This result and the distinctive subcellular distribution of AtRRP6L1 to -3 indicate a specialization of RRP6-like proteins in Arabidopsis.

  15. Rrp1, a cyclic-di-GMP-producing response regulator, is an important regulator of Borrelia burgdorferi core cellular functions

    PubMed Central

    Rogers, Elizabeth A.; Terekhova, Darya; Zhang, Hong-Ming; Hovis, Kelley M.; Schwartz, Ira; Marconi, Richard T.

    2010-01-01

    Summary Two-component systems (TCS) are universal among bacteria and play critical roles in gene regulation. Our understanding of the contributions of TCS in the biology of the Borrelia is just now beginning to develop. Borrelia burgdorferi, a causative agent of Lyme disease, harbours a TCS comprised of open reading frames (ORFs) BB0419 and BB0420. BB0419 encodes a response regulator designated Rrp1, and BB0420 encodes a hybrid histidine kinase–response regulator designated Hpk1. Rrp1, which contains a conserved GGDEF domain, undergoes phosphorylation and produces the secondary messenger, cyclic diguanylate (c-di-GMP), a critical signaling molecule in numerous organisms. However, the regulatory role of the Rrp1–Hpk1 TCS and c-di-GMP signaling in Borrelia biology are unexplored. In this study, the distribution, conservation, expression and potential global regulatory capability of Rrp1 were assessed. rrp1 was found to be universal and highly conserved among isolates, co-transcribed with hpk1, constitutively expressed during in vitro cultivation, and significantly upregulated upon tick feeding. Allelic exchange replacement and microarray analyses revealed that the Rrp1 regulon consists of a large number of genes encoded by the core Borrelia genome (linear chromosome, linear plasmid 54 and circular plasmid 26) that encode for proteins involved in central metabolic processes and virulence mechanisms including immune evasion. PMID:19210621

  16. Design of a Nb3Sn Magnet for a 4th Generation ECR Ion Source

    SciTech Connect

    Prestemon, S,; Trillaud, F.; Caspi, S.; Ferracin, P.; Sabbi, G. L.; Lyneis, C. M.; Leitner, D.; Todd, D. S.; Hafalia, R.

    2008-08-17

    The next generation of Electron Cyclotron Resonant (ECR) ion sources are expected to operate at a heating radio frequency greater than 40 GHz. The existing 3rd generation systems, exemplified by the state of the art system VENUS, operate in the 10-28 GHz range, and use NbTi superconductors for the confinement coils. The magnetic field needed to confine the plasma scales with the rf frequency, resulting in peak fields on the magnets of the 4th generation system in excess of 10 T. High field superconductors such as Nb{sub 3}Sn must therefore be considered. The magnetic design of a 4th. generation ECR ion source operating at an rf frequency of 56 GHz is considered. The analysis considers both internal and external sextupole configurations, assuming commercially available Nb{sub 3}Sn material properties. Preliminary structural design issues are discussed based on the forces and margins associated with the coils in the different configurations, leading to quantitative data for the determination of a final magnet design.

  17. Nb3Sn superconducting magnets for electron cyclotron resonance ion sources

    SciTech Connect

    Ferracin, P.; Caspi, S.; Felice, H.; Leitner, D.; Lyneis, C. M.; Prestemon, S.; Sabbi, G. L.; Todd, D. S.

    2009-05-04

    Electron cyclotron resonance (ECR) ion sources are an essential component of heavy-ion accelerators. Over the past few decades advances in magnet technology and an improved understanding of the ECR ion source plasma physics have led to remarkable performance improvements of ECR ion sources. Currently third generation high field superconducting ECR ion sources operating at frequencies around 28 GHz are the state of the art ion injectors and several devices are either under commissioning or under design around the world. At the same time, the demand for increased intensities of highly charged heavy ions continues to grow, which makes the development of even higher performance ECR ion sources a necessity. To extend ECR ion sources to frequencies well above 28 GHz, new magnet technology will be needed in order to operate at higher field and force levels. The superconducting magnet program at LBNL has been developing high field superconducting magnets for particle accelerators based on Nb{sub 3}Sn superconducting technology for several years. At the moment, Nb{sub 3}Sn is the only practical conductor capable of operating at the 15 T field level in the relevant configurations. Recent design studies have been focused on the possibility of using Nb{sub 3}Sn in the next generation of ECR ion sources. In the past, LBNL has worked on the VENUS ECR, a 28 GHz source with solenoids and a sextupole made with NbTi operating at fields of 6-7 T. VENUS has now been operating since 2004. We present in this paper the design of a Nb{sub 3}Sn ECR ion source optimized to operate at an rf frequency of 56 GHz with conductor peak fields of 13-15 T. Because of the brittleness and strain sensitivity of Nb{sub 3}Sn- , particular care is required in the design of the magnet support structure, which must be capable of providing support to the coils without overstressing the conductor. In this paper, we present the main features of the support structure, featuring an external aluminum shell pretensioned with water-pressurized bladders, and we analyze the expected coil stresses with a two-dimensional finite element mechanical model.

  18. Design of HQ -- a High Field Large Bore Nb3Sn Quadrupole Magnet for LARP

    SciTech Connect

    Felice, H.; Ambrosio, G.; Anerella, M.; Bossert, R.; Caspi, S.; Cheng, D.; Dietderich, D.; Ferracin, P.; Ghosh, A. K.; Hafalia, R.; Hannaford, C. R.; Kashikhin, V.; Schmalze, J.; Prestemon, S.; Sabbi, G. L.; Wanderer, P.; Zlobin, A. V.

    2008-08-17

    In support of the Large Hadron Collider luminosity upgrade, a large bore (120 mm) Nb{sub 3}Sn quadrupole with 15 T peak coil field is being developed within the framework of the US LHC Accelerator Research Program (LARP). The 2-layer design with a 15 mm wide cable is aimed at pre-stress control, alignment and field quality while exploring the magnet performance limits in terms of gradient, forces and stresses. In addition, HQ will determine the magnetic, mechanical, and thermal margins of Nb{sub 3}Sn technology with respect to the requirements of the luminosity upgrade at the LHC.

  19. Structure for an LHC 90mm Nb3Sn Quadrupole Magnet

    SciTech Connect

    Hafalia, A.R.; Caspi, S.; Bartlett, S.E.; Dietderich, D.R.; Ferracin, P.; Gourlay, S.A.; Hannaford, C.R.; Higley, H.; Lietzke, A.F.; Lau, B.; Liggins, N.; Mattafirri, S.; McInturff, A.D.; Nyman, M.; Sabbi,G.L.; Scanlan, R.M.; Swanson, J.

    2005-04-16

    A full-scale mechanical model of the LHC Nb{sub 3}Sn quadrupole magnet structure has been designed, built and tested. The structure will support a 90mm bore, 1m long magnet prototype as part of the US LHC Accelerator Research Program (LARP). The structure utilizes Bladder and Key Technology to control and transfer pre-stress from an outer aluminum shell to an inner coil. Axial aluminum rods take care of pre-stress at the ends--ensuring that the coil is fully constrained along all three axes. The outer aluminum shell and an inner ''dummy coil'' (aluminum tube) were extensively instrumented with strain gauges. The gauges were used to monitor and map the effectiveness of the stress relation between the loading structure and a ''dummy'' coil through varying mechanical load conditions --from bladder and key pre-stress at room temperature through cool-down. Test results of the stress distribution in the structure and the in dummy coil is reported and compared with expected results calculated with the structural analysis program ANSYS.

  20. Measurement of Fast Voltage Transients in High-Performance Nb3Sn Magnets

    SciTech Connect

    Lietzke, A. F.; Sabbi., G. L.; Ferracin, P.; Caspi, S.; Zimmerman, S.; Joseph, J.; Doering, D.; Lizarazo, J.

    2008-06-01

    The Superconducting Magnet group at Lawrence Berkeley National Laboratory has been developing Nb{sub 3}Sn high-field accelerator magnet technology for the last fifteen years. In order to support the magnet R&D effort, we are developing a diagnostic system that can help identify the causes of performance limiting quenches by recording small flux-changes within the magnet prior to quench-onset. These analysis techniques were applied to the test results from recent Nb{sub 3}Sn magnets. This paper will examine various types of events and their distinguishing characteristics. The present measurement techniques are discussed along with the design of a new data acquisition system that will substantially improve the quality of the recorded signals.

  1. Investigation of alternative materials for impregnation of Nb3Sn accelerator magnets

    SciTech Connect

    Deepak Reddy Chichili, Jay Hoffman and Alexander Zlobin

    2003-11-17

    Insulation is one of the most important elements of magnet design, which determines the electrical, mechanical, and thermal performance as well as lifetime of the magnet. The exposure to high radiation loads especially for the proposed LHC second-generation interaction region Nb{sub 3}Sn quadrupoles further limits the choices of the insulation materials. Traditionally Nb{sub 3}Sn magnets were impregnated with epoxy to improve both the mechanical and electrical properties. However, the acceptable radiation limit for epoxy is low which reduces the lifetime of the magnet. The paper presents the results of the feasibility study to replace epoxy with high radiation-resistant material during vacuum impregnation. The mechanical, thermal and electrical properties of samples impregnated with Matrimid were measured and compared with epoxy-impregnated samples.

  2. Recent Test Results of the High Field Nb3Sn Dipole Magnet HD2

    SciTech Connect

    Ferracin, P.; Bingham, B.; Caspi, S.; Cheng, D. W.; Dietderich, D. R.; Felice, H.; Hafalia, A. R.; Hannaford, C. R.; Joseph, J.; Lietzke, A. F.; Lizarazo, J.; Sabbi, G.; Wang, X.

    2009-10-19

    The 1 m long Nb{sub 3}Sn dipole magnet HD2, fabricated and tested at Lawrence Berkeley National Laboratory, represents a step towards the development of block-type accelerator quality magnets operating in the range of 13-15 T. The magnet design features two coil modules composed of two layers wound around a titanium-alloy pole. The layer 1 pole includes a round cutout to provide room for a bore tube with a clear aperture of 36 mm. After a first series of tests where HD2 reached a maximum bore field of 13.8 T, corresponding to an estimated peak field on the conductor of 14.5 T, the magnet was disassembled and reloaded without the bore tube and with a clear aperture increased to 43 mm. We describe in this paper the magnet training observed in two consecutive tests after the removal of the bore tube, with a comparison of the quench performance with respect to the previous tests. An analysis of the voltage signals recorded before and after training quenches is then presented and discussed, and the results of coil visual inspections reported.

  3. Measured strain in Nb3Sn coils during excitation and quence

    SciTech Connect

    Caspi, S.; Barlett, S.E.; Dietderich, D. R.; Ferracin, P.; Gourlay, S. A.; Hannaford, C. R.; Hafalia, A.R.; Lietzke, A.F.; Mattafirri, S.; Nyman, M.; Sabbi, G.

    2005-06-01

    The strain in a high field Nb{sub 3}Sn coil was measured during magnet assembly, cool-down, excitation and spot heater quenches. Strain was measured with a full bridge strain gauge mounted directly over the turns and impregnated with the coil. Two such coils were placed in a 'common coil' fashion capable of reaching 11 T at 4.2 K. The measured steady state strain in the coil is compared with results obtained using the FEM code ANSYS. During quenches, the transient strain (due to temperature rise) was also measured and compared with the calculated mechanical time response to a quench.

  4. Measured Strain of Nb3Sn Coils During Excitation and Quench

    SciTech Connect

    Caspi, S.; Bartlett, S.E.; Dietderich, D.R.; Ferracin, P.; Gourlay, S.A.; Hannaford, C.R.; Hafalia, A.R.; Lietzke, S.; Mattafirri,M.; Nyman, M.; Sabbi, G.

    2005-04-16

    The strain in a high field Nb{sub 3}Sn coil was measured during magnet assembly, cool-down, excitation and spot heater quenches. Strain was measured with a full bridge strain gauge mounted directly over the turns and impregnated with the coil. Two such coils were placed in a ''common coil'' fashion capable of reaching 11T at 4.2K. The measured steady state strain in the coil is compared with results obtained using the FEM code ANSYS. During quenches, the transient strain (due to temperature rise) was also measured and compared with the calculated mechanical time response to a quench.

  5. Fabrication and Test Results of a Prototype, Nb3Sn Superconducting Racetrack Dipole Magnet

    SciTech Connect

    Gourlay, S. A.; Chow, K.; Dietderich, D.R.; Gupta, R.; Hannaford, R.; Harnden, W.; Lietzke, A.; McInturff, A.D.; Millos, G.A.; Morrison, L.; Morrison, M.; Scanlan, R.M.

    1998-09-01

    A prototype, Nb{sub 3}Sn superconducting magnet, utilizing a racetrack coil design has been built and tested. This magnet represents the first step in a recently implemented program to develop a high field, accelerator quality magnet. This magnet was constructed with coils wound from conductor developed for the ITER project, limiting the magnet to a field of 6-7 Tesla. Subsequent magnets in the program will utilize improved conductor, culminating in a magnet design capable of producing fields approaching 15 Tesla. The simple geometry is more suitable for the use of brittle superconductors necessary to eventually reach high field levels. In addition, fewer and simpler parts are used in fabricating these coils compared with the more conventional cosine theta cross section coils. The general fabrication steps, mechanical design and quench performance are discussed.

  6. Field quality of the Fermilab NB3SN cos-theta dipole models

    SciTech Connect

    E. Barzi et al.

    2002-06-28

    Three short Nb{sub 3}Sn dipole models based on a single-bore cos-theta coil and a cold iron yoke have been fabricated and tested at Fermilab. This paper summarizes the results of magnetic measurements in those models. The geometrical harmonics, coil magnetization effects, cable eddy currents with and without a stainless steel core, and the ''snap-back'' effect at injection are presented.

  7. Nb3Sn accelerator magnet technology scale up using cos-theta dipole coils

    SciTech Connect

    Nobrega, F.; Andreev, N.; Ambrosio, G.; Barzi, E.; Bossert, R.; Carcagno, R.; Chlachidze, G.; Feher, S.; Kashikhin, V.S.; Kashikhin, V.V.; Lamm, M.J.; /Fermilab

    2007-06-01

    Fermilab is working on the development of Nb{sub 3}Sn accelerator magnets using shell-type dipole coils and the wind-and-react method. As a part of the first phase of technology development, Fermilab built and tested six 1 m long dipole model magnets and several dipole mirror configurations. The last three dipoles and two mirrors reached their design fields of 10-11 T. The technology scale up phase has started by building 2 m and 4 m dipole coils and testing them in a mirror configuration in which one of the two coils is replaced by a half-cylinder made of low carbon steel. This approach allows for shorter fabrication times and extensive instrumentation preserving almost the same level of magnetic field and Lorentz forces in the coils as in a complete dipole model magnet. This paper presents details on the 2 m (HFDM07) and 4 m long (HFDM08) Nb{sub 3}Sn dipole mirror magnet design and fabrication technology, as well as the magnet test results which are compared with 1 m long models.

  8. Development of a single-layer Nb3Sn common coil dipole model

    SciTech Connect

    Igor Novitski et al.

    2002-12-13

    A high-field dipole magnet based on the common coil design was developed at Fermilab for a future Very Large Hadron Collider. A short model of this magnet with a design field of 11 T in two 40-mm apertures is being fabricated using the react-and-wind technique. In order to study and optimize the magnet design two 165-mm long mechanical models were assembled and tested. A technological model consisting of magnet straight section and ends was also fabricated in order to check the tooling and the winding and assembly procedures. This paper describes the design and technology of the common coil dipole magnet and summarizes the status of short model fabrication.The results of the mechanical model tests and comparison with FE mechanical analysis are also presented.

  9. Mechanical Performance of the LARP Nb3Sn Quadrupole Magnet LQS01

    SciTech Connect

    Ferracin, P.; Schmalzle, J.; Ambrosio, G.; Anerella, M.; Bingham, B.; Bossert, R.; Caspi, S.; Cheng, D.W.; Chlachidze, G.; Felice, H.; Hafalia, A.R.; Mumper, W.; Nobrega, F.; Prestemon, S.; Sabbi, G.L.; Sylvester, C.; Tartaglia, M.; Zlobin, A.V.

    2011-08-03

    As part of the effort towards the development of Nb{sub 3}Sn magnets for future LHC luminosity upgrades, the LHC Accelerator Research Program (LARP) has fabricated and tested the quadrupole magnet LQS01. The magnet implements 3.4 m long Nb{sub 3}Sn coils contained in a support structure characterized by an external aluminum shell segmented in four sections. The room temperature pre-load of the structure is obtained by shimming load keys through bladders, pressurized during the loading operations and removed before cool-down. Temperature compensated strain gauges, mounted on structure components and coil poles, monitor the magnet's mechanical behavior during assembly, cool-down and, excitation. During the first test, LQS01 reached the target gradient of 200 T/m; the gauge data indicated that the aluminum shell was pre-tensioned to the target value estimated by numerical models, but a lack of pre-load was measured in the coil inner layer during ramping. As a result, the test was interrupted and the magnet disassembled, and inspected. A second test (LQS01b) was then carried out following a re-loading of the magnet. The paper reports on the strain gauge results of the first test and the analysis performed to identify corrective actions to improve the coil pre-stress distribution. The mechanical performance of the magnet during the second cool-down and test is then presented and discussed.

  10. Tests of insulation systems for Nb3Sn wind and react coils

    SciTech Connect

    Bossert, R.; Ambrosio, G; Andreev, N.; Whitson, G.; Zlobin, A.; /Fermilab

    2007-07-01

    Tests were performed to assess the viability of several cable insulation systems for use in Nb{sub 3}Sn accelerator magnets. Insulated stacks of cables were subjected to reaction cycles commonly used for Nb{sub 3}Sn coils. After reaction and epoxy impregnation, current leakage between turns was measured at pressures up to 180 MPa and turn-to-turn potentials up to 500V. Systems consisting of S-2 glass, ceramic fiber, and E-glass were tested. Several methods of applying the insulation were incorporated, including sleeves and various spiral wrapped configurations. Methods of sample preparation and testing are described and results are reported.

  11. Nb3Sn Quadrupoles in the LHC IR Phase I Upgrade

    SciTech Connect

    Zlobin,A.; Johnstone, J.; Kashikhin, V.; Mokhov, N.; Rakhno, I.; deMaria, R.; Peggs, S.; Robert-Demolaize, F.; Wanderer, P.

    2008-06-23

    After a number of years of operation at nominal parameters, the LHC will be upgraded for higher luminosity. This paper discusses the possibility of using a limited number of Nb{sub 3}Sn quadrupoles for hybrid optics layouts for the LHC Phase I luminosity upgrades with both NbTi and Nb{sub 3}Sn quadrupoles. Magnet parameters and issues related to using Nb{sub 3}Sn quadrupoles including aperture, gradient, magnetic length, field quality, operation margin, et cetera are discussed.

  12. Nb3Sn quadrupoles in the LHC IR Phase I upgrade

    SciTech Connect

    Zlobin, A.V.; Johnstone, J.A.; Kashikhin, V.V.; Mokhov, N.V.; Rakhno, I.L.; de Maria, R.; Peggs, S.; Robert-Demolaize, G.; Wanderer, P.; /Brookhaven

    2008-06-01

    After a number of years of operation at nominal parameters, the LHC will be upgraded to a higher luminosity. This paper discusses the possibility of using a limited number of Nb{sub 3}Sn quadrupoles for hybrid optics layouts for the LHC Phase I luminosity upgrades with both NbTi and Nb{sub 3}Sn quadrupoles. Magnet parameters and issues related to using Nb{sub 3}Sn quadrupoles including aperture, gradient, magnetic length, field quality, operation margin, et cetera are discussed.

  13. Effect of Axial Loading on Quench Performance in Nb3Sn Magnets

    SciTech Connect

    Ambrosio, G.; Bordini, B.; Caspi, S.; Dietderich, D.R.; Felice, H.; Hafalia, A.R.; Hannaford, C.R.; Lizarazo, J.; Lietzke, A.F.; McInturff, A.D.; Sabbi, G.L.; DiMarco, J.D.; Tartaglia, M.; Vedrice, P.; Ferracin, P.

    2008-06-01

    A series of tests has been performed at Lawrence Berkeley National Laboratory (LBNL) and Fermi National Accelerator Laboratory (FNAL) with the goal of assessing the influence of coil axial pre-load on Nb{sub 3}Sn magnet training. The tests involved two subscale Nb{sub 3}Sn magnets: SQ02, a quadrupole magnet fabricated as part of the US LHC Accelerator Research Program (LARP), and SD01, a dipole magnet developed in collaboration between CEA/Saclay and LBNL. Both magnets used similar Nb{sub 3}Sn flat racetrack coils from LBNL Subscale Magnet Program, and implemented an axial support system composed of stainless steel end-plates and aluminum rods. The system was designed to withstand full longitudinal electro-magnetic forces and provide controllable preloads. Quench performances, training, and quench locations have been recorded in various axial loading conditions. Test results are reported.

  14. MAGNETIC PARAMETERS OF A NB3SN SUPERCONDUCTING MAGNET FOR A 56 HGz ECR ION SOURCE

    SciTech Connect

    Ferracin, P.; Caspi, S.; Felice, H.; Leitner, D.; Lyneis, C. M.; Prestemon, S.; Sabbi, G. L.; Todd, D. S.

    2009-05-04

    Third generation Electron Cyclotron Resonance (ECR) ion sources operate at microwave frequencies between 20 and 30 GHz and employ NbTi superconducting magnets with a conductor peak field of 6-7 T. A significant gain in performance can be achieved by replacing NbTi with Nb{sub 3}Sn, allowing solenoids and sextupole coils to reach a field of 15 T in the windings. In this paper we describe the design of a Nb{sub 3}Sn superconducting magnet for a fourth generation ECR source operating at a microwave frequency of 56 GHz. The magnet design features a configuration with an internal sextupole magnet surrounded by three solenoids. A finite element magnetic model has been used to investigate conductor peak fields and the operational margins. Results of the numerical analysis are presented and discussed.

  15. Role of Acetyl-Phosphate in Activation of the Rrp2-RpoN-RpoS Pathway in Borrelia burgdorferi

    PubMed Central

    Xu, Haijun; Caimano, Melissa J.; Lin, Tao; He, Ming; Radolf, Justin D.; Norris, Steven J.; Gheradini, Frank; Wolfe, Alan J.; Yang, X. Frank

    2010-01-01

    Borrelia burgdorferi, the Lyme disease spirochete, dramatically alters its transcriptome and proteome as it cycles between the arthropod vector and mammalian host. During this enzootic cycle, a novel regulatory network, the Rrp2-RpoN-RpoS pathway (also known as the σ54–σS sigma factor cascade), plays a central role in modulating the differential expression of more than 10% of all B. burgdorferi genes, including the major virulence genes ospA and ospC. However, the mechanism(s) by which the upstream activator and response regulator Rrp2 is activated remains unclear. Here, we show that none of the histidine kinases present in the B. burgdorferi genome are required for the activation of Rrp2. Instead, we present biochemical and genetic evidence that supports the hypothesis that activation of the Rrp2-RpoN-RpoS pathway occurs via the small, high-energy, phosphoryl-donor acetyl phosphate (acetyl∼P), the intermediate of the Ack-Pta (acetate kinase-phosphate acetyltransferase) pathway that converts acetate to acetyl-CoA. Supplementation of the growth medium with acetate induced activation of the Rrp2-RpoN-RpoS pathway in a dose-dependent manner. Conversely, the overexpression of Pta virtually abolished acetate-induced activation of this pathway, suggesting that acetate works through acetyl∼P. Overexpression of Pta also greatly inhibited temperature and cell density-induced activation of RpoS and OspC, suggesting that these environmental cues affect the Rrp2-RpoN-RpoS pathway by influencing acetyl∼P. Finally, overexpression of Pta partially reduced infectivity of B. burgdorferi in mice. Taken together, these findings suggest that acetyl∼P is one of the key activating molecule for the activation of the Rrp2-RpoN-RpoS pathway and support the emerging concept that acetyl∼P can serve as a global signal in bacterial pathogenesis. PMID:20862323

  16. Microprocessor, Setx, Xrn2, and Rrp6 co-operate to induce premature termination of transcription by RNAPII.

    PubMed

    Wagschal, Alexandre; Rousset, Emilie; Basavarajaiah, Poornima; Contreras, Xavier; Harwig, Alex; Laurent-Chabalier, Sabine; Nakamura, Mirai; Chen, Xin; Zhang, Ke; Meziane, Oussama; Boyer, Frédéric; Parrinello, Hugues; Berkhout, Ben; Terzian, Christophe; Benkirane, Monsef; Kiernan, Rosemary

    2012-09-14

    Transcription elongation is increasingly recognized as an important mechanism of gene regulation. Here, we show that microprocessor controls gene expression in an RNAi-independent manner. Microprocessor orchestrates the recruitment of termination factors Setx and Xrn2, and the 3'-5' exoribonuclease, Rrp6, to initiate RNAPII pausing and premature termination at the HIV-1 promoter through cleavage of the stem-loop RNA, TAR. Rrp6 further processes the cleavage product, which generates a small RNA that is required to mediate potent transcriptional repression and chromatin remodeling at the HIV-1 promoter. Using chromatin immunoprecipitation coupled to high-throughput sequencing (ChIP-seq), we identified cellular gene targets whose transcription is modulated by microprocessor. Our study reveals RNAPII pausing and premature termination mediated by the co-operative activity of ribonucleases, Drosha/Dgcr8, Xrn2, and Rrp6, as a regulatory mechanism of RNAPII-dependent transcription elongation.

  17. High-performance superconductors for Fusion Nuclear Science Facility

    DOE PAGES

    Zhai, Yuhu; Kessel, Chuck; Barth, Christian; ...

    2016-11-09

    High-performance superconducting magnets play an important role in the design of the next step large-scale, high-field fusion reactors such as the fusion nuclear science facility (FNSF) and the spherical tokamak (ST) pilot plant beyond ITER. Here, Princeton Plasma Physics Laboratory is currently leading the design studies of the FNSF and the ST pilot plant study. ITER, which is under construction in the south of France, utilizes the state-of-the-art low temperature superconducting magnet technology based on the cable-in-conduit conductor design, where over a thousand multifilament Nb3Sn superconducting strands are twisted together to form a high-current-carrying cable inserted into a steel jacketmore » for coil windings. We present design options of the high-performance superconductors in the winding pack for the FNSF toroidal field magnet system based on the toroidal field radial build from the system code. For the low temperature superconductor options, the advanced JcNb3Sn RRP strands (Jc > 1000 A/mm2 at 16 T, 4 K) from Oxford Superconducting Technology are under consideration. For the high-temperature superconductor options, the rectangular-shaped high-current HTS cable made of stacked YBCO tapes will be considered to validate feasibility of TF coil winding pack design for the ST-FNSF magnets.« less

  18. Evolutionarily Conserved Function of RRP36 in Early Cleavages of the Pre-rRNA and Production of the 40S Ribosomal Subunit ▿ †

    PubMed Central

    Gérus, Marie; Bonnart, Chrystelle; Caizergues-Ferrer, Michèle; Henry, Yves; Henras, Anthony K.

    2010-01-01

    Ribosome biogenesis in eukaryotes is a major cellular activity mobilizing the products of over 200 transcriptionally coregulated genes referred to as the rRNA and ribosome biosynthesis regulon. We investigated the function of an essential, uncharacterized gene of this regulon, renamed RRP36. We show that the Rrp36p protein is nucleolar and interacts with 90S and pre-40S preribosomal particles. Its depletion affects early cleavages of the 35S pre-rRNA and results in a rapid decrease in mature 18S rRNA levels. Rrp36p is a novel component of the 90S preribosome, the assembly of which has been suggested to result from the stepwise incorporation of several modules, including the tUTP/UTP-A, PWP2/UTP-B, and UTP-C subcomplexes. We show that Rrp36p depletion does not impair the incorporation of these subcomplexes and the U3 small nucleolar RNP into preribosomes. In contrast, depletion of components of the UTP-A or UTP-B modules, but not Rrp5p, prevents Rrp36p recruitment and reduces its accumulation levels. In parallel, we studied the human orthologue of Rrp36p in HeLa cells, and we show that the function of this protein in early cleavages of the pre-rRNA has been conserved through evolution in eukaryotes. PMID:20038530

  19. Metallographic autopsies of full-scale ITER prototype cable-in-conduit conductors after full cyclic testing in SULTAN: III. The importance of strand surface roughness in long twist pitch conductors

    NASA Astrophysics Data System (ADS)

    Sanabria, Charlie; Lee, Peter J.; Starch, William; Devred, Arnaud; Larbalestier, David C.

    2016-07-01

    As part of the ITER conductor qualification process, 3 m long cable-in-conduit conductors (CICCs) were tested at the SULTAN facility under conditions simulating ITER operation so as to establish the current-sharing temperature, T cs, as a function of multiple full Lorentz force loading cycles. After a comprehensive evaluation of both the toroidal field (TF) and the central solenoid (CS) conductors, it was found that T cs degradation was common in long twist pitch TF conductors while short twist pitch CS conductors showed some T cs increase. However, one kind of TF conductors containing superconducting strand fabricated by the Bochvar Institute of Inorganic Materials (VNIINM) avoided T cs degradation despite having long twist pitch. In our earlier metallographic autopsies of long and short twist pitch CS conductors, we observed a substantially greater transverse strand movement under Lorentz force loading for long twist pitch conductors, while short twist pitch conductors had negligible transverse movement. With help from the literature, we concluded that the transverse movement was not the source of T cs degradation but rather an increase of the compressive strain in the Nb3Sn filaments possibly induced by longitudinal movement of the wires. Like all TF conductors this TF VNIINM conductor showed large transverse motions under Lorentz force loading, but T cs actually increased, as in all short twist pitch CS conductors. We here propose that the high surface roughness of the VNIINM strand may be responsible for the suppression of the compressive strain enhancement (characteristic of long twist pitch conductors). It appears that increasing strand surface roughness could improve the performance of long twist pitch CICCs.

  20. Metallographic autopsies of full-scale ITER prototype cable-in-conduit conductors after full cyclic testing in SULTAN: III. The importance of strand surface roughness in long twist pitch conductors

    DOE PAGES

    Sanabria, Charlie; Lee, Peter J.; Starch, William; ...

    2016-05-31

    As part of the ITER conductor qualification process, 3 m long Cable-in-Conduit Conductors (CICCs) were tested at the SULTAN facility under conditions simulating ITER operation so as to establish the current sharing temperature, Tcs, as a function of multiple full Lorentz force loading cycles. After a comprehensive evaluation of both the Toroidal Field (TF) and the Central Solenoid (CS) conductors, it was found that Tcs degradation was common in long twist pitch TF conductors while short twist pitch CS conductors showed some Tcs increase. However, one kind of TF conductors containing superconducting strand fabricated by the Bochvar Institute of Inorganicmore » Materials (VNIINM) avoided Tcs degradation despite having long twist pitch. In our earlier metallographic autopsies of long and short twist pitch CS conductors, we observed a substantially greater transverse strand movement under Lorentz force loading for long twist pitch conductors, while short twist pitch conductors had negligible transverse movement. With help from the literature, we concluded that the transverse movement was not the source of Tcs degradation but rather an increase of the compressive strain in the Nb3Sn filaments possibly induced by longitudinal movement of the wires. Like all TF conductors this TF VNIINM conductor showed large transverse motions under Lorentz force loading, but Tcs actually increased, as in all short twist pitch CS conductors. We here propose that the high surface roughness of the VNIINM strand may be responsible for the suppression of the compressive strain enhancement (characteristic of long twist pitch conductors). Furthermore, it appears that increasing strand surface roughness could improve the performance of long twist pitch CICCs.« less

  1. RRP1, a Saccharomyces cerevisiae gene affecting rRNA processing and production of mature ribosomal subunits.

    PubMed Central

    Fabian, G R; Hopper, A K

    1987-01-01

    The Saccharomyces cerevisiae mutant ts351 had been shown to affect processing of 27S pre-rRNA to mature 25S and 5.8S rRNAs (C. Andrew, A. K. Hopper, and B. D. Hall, Mol. Gen. Genet. 144:29-37, 1976). We showed that this strain contains two mutations leading to temperature-sensitive lethality. The rRNA-processing defect, however, is a result of only one of the two mutations. We designated the lesion responsible for the rRNA-processing defect rrp1 and showed that it is located on the right arm of chromosome IV either allelic to or tightly linked to mak21. This rrp1 lesion also results in hypersensitivity to aminoglycoside antibiotics and a reduced 25S/18S rRNA ratio at semipermissive temperatures. We cloned the RRP1 gene and provide evidence that it encodes a moderately abundant mRNA which is in lower abundance and larger than most mRNAs encoding ribosomal proteins. Images PMID:3549696

  2. A Nucleolar Protein, Ribosomal RNA Processing 1 Homolog B (RRP1B), Enhances the Recruitment of Cellular mRNA in Influenza Virus Transcription

    PubMed Central

    Su, Wen-Chi; Hsu, Shih-Feng; Lee, Yi-Yuan; Jeng, King-Song

    2015-01-01

    ABSTRACT Influenza A virus (IAV) undergoes RNA transcription by a unique capped-mRNA-dependent transcription, which is carried out by the viral RNA-dependent RNA polymerase (RdRp), consisting of the viral PA, PB1, and PB2 proteins. However, how the viral RdRp utilizes cellular factors for virus transcription is not clear. Previously, we conducted a genome-wide pooled short hairpin RNA (shRNA) screen to identify host factors important for influenza A virus replication. Ribosomal RNA processing 1 homolog B (RRP1B) was identified as one of the candidates. RRP1B is a nucleolar protein involved in ribosomal biogenesis. Upon IAV infection, part of RRP1B was translocated from the nucleolus to the nucleoplasm, where viral RNA synthesis likely takes place. The depletion of RRP1B significantly reduced IAV mRNA transcription in a minireplicon assay and in virus-infected cells. Furthermore, we showed that RRP1B interacted with PB1 and PB2 of the RdRp and formed a coimmunoprecipitable complex with RdRp. The depletion of RRP1B reduced the amount of capped mRNA in the RdRp complex. Taken together, these findings indicate that RRP1B is a host factor essential for IAV transcription and provide a target for new antivirals. IMPORTANCE Influenza virus is an important human pathogen that causes significant morbidity and mortality and threatens the human population with epidemics and pandemics every year. Due to the high mutation rate of the virus, antiviral drugs targeting viral proteins might ultimately lose their effectiveness. An alternative strategy that explores the genetic stability of host factors indispensable for influenza virus replication would thus be desirable. Here, we characterized the rRNA processing 1 homolog B (RRP1B) protein as an important cellular factor for influenza A virus transcription. We showed that silencing RRP1B hampered viral RNA-dependent RNA polymerase (RdRp) activity, which is responsible for virus transcription and replication. Furthermore, we

  3. Intrinsic variability in Pv, RRP size, Ca(2+) channel repertoire, and presynaptic potentiation in individual synaptic boutons.

    PubMed

    Ariel, Pablo; Hoppa, Michael B; Ryan, Timothy A

    2012-01-01

    The strength of individual synaptic contacts is considered a key modulator of information flow across circuits. Presynaptically the strength can be parsed into two key parameters: the size of the readily releasable pool (RRP) and the probability that a vesicle in that pool will undergo exocytosis when an action potential fires (Pv). How these variables are controlled and the degree to which they vary across individual nerve terminals is crucial to understand synaptic plasticity within neural circuits. Here we report robust measurements of these parameters in rat hippocampal neurons and their variability across populations of individual synapses. We explore the diversity of presynaptic Ca(2+) channel repertoires and evaluate their effect on synaptic strength at single boutons. Finally, we study the degree to which synapses can be differentially modified by a known potentiator of presynaptic function, forskolin. Our experiments revealed that both Pv and RRP spanned a large range, even for synapses made by the same axon, demonstrating that presynaptic efficacy is governed locally at the single synapse level. Synapses varied greatly in their dependence on N or P/Q type Ca(2+) channels for neurotransmission, but there was no association between specific channel repertoires and synaptic efficacy. Increasing cAMP concentration using forskolin enhanced synaptic transmission in a Ca(2+)-independent manner that was inversely related with a synapse's initial Pv, and independent of its RRP size. We propose a simple model based on the relationship between Pv and calcium entry that can account for the variable potentiation of synapses based on initial probability of vesicle fusion.

  4. 2D/3D quench simulation using ANSYS for epoxy impregnated Nb3Sn high field magnets

    SciTech Connect

    Ryuji Yamada et al.

    2002-09-19

    A quench program using ANSYS is developed for the high field collider magnet for three-dimensional analysis. Its computational procedure is explained. The quench program is applied to a one meter Nb{sub 3}Sn high field model magnet, which is epoxy impregnated. The quench simulation program is used to estimate the temperature and mechanical stress inside the coil as well as over the whole magnet. It is concluded that for the one meter magnet with the presented cross section and configuration, the thermal effects due to the quench is tolerable. But we need much more quench study and improvements in the design for longer magnets.

  5. Test Results of LARP Nb3Sn Quadrupole Magnets Using a Shell-based Support Structure (TQS)

    SciTech Connect

    Caspi, S.; Dietderich, D. R.; Felice, H.; Ferracin, P.; Hafalia, R.; Hannaford, C. R.; Lietzke, A. F.; Lizarazo, J.; Sabbi, G.; Wang, X.; Ghosh, A.; Wanderer, P.; Ambrosio, G.; Barzi, E.; Bossert, R.; Chlachidze, G.; Feher, S.; Kashikhin, V. V.; Lamm, M.; Tartaglia, M. A.; Zlobin, A. V.; Bajko, M.; Bordini, B.; DeRijk, G.; Giloux, C.; Karppinen, M.; Perez, J. C.; Rossi, L.; Siemko, A.; Todesco, E.

    2008-08-17

    Among the magnet development program of a large-aperture Nb{sub 3}Sn superconducting quadrupole for the Large Hadron Collider luminosity upgrade, six quadrupole magnets were built and tested using a shell based key and bladder technology (TQS). The 1 m long 90 mm aperture magnets are part o fthe US LHC Accelerator Research Program (LARP) aimed at demonstrating Nb{sub 3}Sn technology by the year 2009, of a 3.6 m long magnet capable of achieving 200 T/m. In support of the LARP program the TQS magnets were tested at three different laboratories, LBNL, FNAL and CERN and while at CERN a technology-transfer and a four days magnet disassembly and reassembly were included. This paper summarizes the fabrication, assembly, cool-down and test results of the six magnets and compres measruements with design expectations.

  6. A Review of the Properties of Nb3Sn and Their Variation with A15Composition, Morphology and Strain State

    SciTech Connect

    Godeke, Arno

    2006-03-27

    Significant efforts can be found throughout the literature to optimize the current carrying capacity of Nb{sub 3}Sn superconducting wires. The achievable transport current density in wires depends on the A15 composition, morphology and strain state. The A15 sections in wires contain, due to compositional inhomogeneities resulting from solid state diffusion A15 formation reactions, a distribution of superconducting properties. The A15 grain size can be different from wire to wire and is also not necessarily homogeneous across the A15 regions. Strain is always present in composite wires, and the strain state changes as a result of thermal contraction differences and Lorentz forces in magnet systems. To optimize the transport properties it is thus required to identify how composition, grain size and strain state influence the superconducting properties. This is not accurately possible in inhomogeneous and spatially complex systems such as wires. This article therefore gives an overview of the available literature on simplified, well defined(quasi--)homogeneous laboratory samples. After more than 50 years of research on superconductivity in Nb{sub 3}Sn, a significant amount of results are available, but these are scattered over a multitude of publications. Two reviews exist on the basic properties of A15 materials in general, but no specific review for Nb{sub 3}Sn is available. This article is intended to provide such an overview. It starts with a basic description of the Niobium--Tin intermetallic. After this it maps the influence of Sn content on the electron--phonon interaction strength and on the field-temperature phase boundary. The literature on the influence of Cu, Ti and Ta additions will then be briefly summarized.This is followed by a review on the effects of grain size and strain. The article is concluded with a summary of the main results.

  7. Measurements of the persistent current decay and snapback effect in Nb3Sn Fermilab-built accelerator prototype magnets

    SciTech Connect

    Velev, G.V.; Chlachidze, G.; DiMarco, J.; Kashikhin, V.V.; /Fermilab

    2012-05-01

    In recent years, Fermilab has been performing an intensive R an D program on Nb{sub 3}Sn accelerator magnets. This program has included dipole and quadrupole magnets for different programs and projects, including LARP and VLHC. A systematic study of the persistent current decay and snapback effect in the fields of these magnets was executed at the Fermilab Magnet Test Facility. The decay and snapback were measured under a range of conditions including variations of the current ramp parameters and flattop and injection plateau durations. This study has mostly focused on the dynamic behavior of the normal sextupole and dodecapole components in dipole and quadrupole magnets respectively. The paper summarizes the recent measurements and presents a comparison with previously measured NbTi magnets.

  8. ASSEMBLY AND TEST OF A 120 MM BORE 15 T NB3SN QUADRUPOLE FOR THE LHC UPGRADE

    SciTech Connect

    Felice, H.; Caspi, S.; Cheng, D.; Dietderich, D.; Ferracin, P.; Hafalia, R.; Joseph, J.; Lizarazo, J.; Sabbi, G. L.; Wang, X.; Anerella, M.; Ghosh, A. K.; Schmalzle, J.; Wanderer, P.; Ambrosio, G.; Bossert, R.; Zlobin, A. V.

    2010-05-23

    In support of the Large Hadron Collider (LHC) luminosity upgrade, the US LHC Accelerator Research Program (LARP) has been developing a 1-meter long, 120 mm bore Nb{sub 3}Sn IR quadrupole magnet (HQ). With a design short sample gradient of 219 T/m at 1.9 K and a peak field approaching 15 T, one of the main challenges of this magnet is to provide appropriate mechanical support to the coils. Compared to the previous LARP Technology Quadrupole and Long Quadrupole magnets, the purpose of HQ is also to demonstrate accelerator quality features such as alignment and cooling. So far, 8 HQ coils have been fabricated and 4 of them have been assembled and tested in HQ01a. This paper presents the mechanical assembly and test results of HQ01a.

  9. Fabrication and Test of 90-mm Nb3Sn Quadrupole Model Based on Dipole-type Collar

    SciTech Connect

    Bossert, R.; Andreev, N.; Chlachidze, G.; Kashikhin, V.S.; Kashikhin, V.V.; Lamm, M.J.; Nobrega, F.; Novitski, I.; Tartaglia, M.; Velev, G.; Zlobin, A.V.; /Fermilab

    2010-07-29

    A series of 90-mm TQC quadrupole models with a collar-based mechanical structure has been fabricated and tested within the framework of the US-LHC Accelerator Research Program (LARP) using quadrupole-symmetric stainless steel collar laminations. This paper describes the design features, construction and test of TQC02Eb, the first TQC made with dipole-type collar and collaring techniques. Magnet test includes quench performance and field quality measurements at 4.5 and 1.9 K. Results of model performance for TQC quadrupoles based on dipole-type and quadrupole-type collars are compared and discussed.

  10. Test Results of the First 3.7 m Long Nb3Sn Quadrupole by LARP and Future Plans

    SciTech Connect

    Ambrosio, G.; Schmalzle, J.; Andreev, N.; Anerella, M.; Barzi, E.; Bingham, B.; Bocian, D.; Bossert, R.; Caspi, S.; Chlachidize, G.; Dietderich, D.; Escallier, J.; Felice, H.; Ferracin, P.; Ghosh, A.; Godeke, A.; Hafalia, R.; Hannaford, R.; Jochen, G.; Kashikhin, V.V.; Kim, M.J.; Kovach, P.; Lam, M.; McInturff, A.; Muratore, J.; Nobrega, F.; Novitshy, I.; Orris, D.; Prebys, E.; Prestemon, S.; Sabbi, G.L.; Schmalzle, J.; Sylvester, C.; Tartaglia, M.; Turrioni, D.; Velev, G.; Wanderer, P.; Whitson, G.; Zlobin, A.V.

    2011-08-03

    In December 2009 during its first cold test, LQS01, the first Long Nb{sub 3}Sn Quadrupole made by LARP (LHC Accelerator Research Program, a collaboration of BNL, FNAL, LBNL and SLAC), reached its target field gradient of 200 T/m. This target was set in 2005 by the US Department of Energy, CERN and LARP, as a significant milestone toward the development of Nb{sub 3}Sn quadrupoles for possible use in LHC luminosity upgrades. LQS01 is a 90 mm aperture, 3.7 m long quadrupole using Nb{sub 3}Sn coils. The coil layout is equal to the layout used in the LARP Technological Quadrupoles (TQC and TQS models). Pre-stress and support are provided by a segmented aluminum shell pre-loaded using bladders and keys, similarly to the TQS models. After the first test the magnet was disassembled, reassembled with an optimized pre-stress, and reached 222 T/m at 4.5 K. In this paper we present the results of both tests and the next steps of the Long Quadrupole R and D.

  11. Field Quality of the First LARP Nb3Sn 3.7 m-Long Quadrupole Model of LQ Series

    SciTech Connect

    Velev, G.V.; Schmalzle, J.; Ambrosio, G.; Andreev, N.; Anerella, M.; Bossert, R.; Caspi, S.; Chlachidze, G.; DiMarco, J.; Escallier, J.; Felice, H.; Ferracin, P.; Kashikhin, V.V.; Lamm, M.J.; Nobrega, F.; Prebys, E.; Sabbi, G.L.; Tartaglia, M.; Wanderer, P.; Zlobin, A.V.

    2011-08-03

    The US-LHC accelerator research program (LARP) built and tested the first 3.7-m long Nb{sub 3}Sn quadrupole model of LQ series with a 90 mm bore diameter and a target field gradient of 200 T/m. The LQ series, developed in collaboration among FNAL, LBNL and BNL, is a scale up of the previously tested 1-m long technology quadrupoles of TQ series based on similar coils and two different mechanical structures (shell-based TQS and collar-based TQC), with a primary goal of demonstrating the Nb{sub 3}Sn accelerator magnet technology for the luminosity upgrade of LHC interaction regions. In this paper, we present the field quality measurements in the first 3.7-m long LQS01 model based on the modified TQS mechanical structure. The results are compared to the expectations from the magnet geometry and magnetic properties of coils and iron yoke. Moreover, we present a comparison between this magnet and the short models previously measured.

  12. Design and Fabrication of a Supporting Structure for 3.6m Long Nb3Sn Racetrack Coils

    SciTech Connect

    Ambrosio, G.; Anerella, M.; Barzi, E.; Caspi, Shlomo; Cheng, Daniel; Dietderich, Daniel; Gourlay, Steve; Hafalia, A. Ray; Hannaford, Charles; Lietzke, Alan; Nobrega, A.R.; Sabbi, GianLuca; Schmalzle, J.; Wanderer, R. J; Zlobin, A.V.; Ferracin, P.

    2007-06-01

    As part of the LHC Accelerator Research Program (LARP), three US national laboratories (BNL, FNAL, and LBNL) are currently engaged in the development of superconducting magnets for the LHC Interaction Regions (IR) beyond the current design. As a first step towards the development of long Nb{sub 3}Sn quadrupole magnets, a 3.6 m long structure, based on the LBNL Subscale Common-Coil Magnet design, will be fabricated, assembled, and tested with aluminum-plate 'dummy coils'. The structure features an aluminum shell pre-tensioned over iron yokes using pressurized bladders and locking keys (bladder and key technology). Pre-load homogeneity and mechanical responses are monitored with pressure sensitive films and strain gauges mounted on the aluminum shell and the dummy coils. The details of the design and fabrication are presented and discussed, and the expected mechanical behavior is analyzed with finite element models.

  13. Use of High Resolution DAQ System to Aid Diagnosis of HD2b, a High Performance Nb3Sn Dipole

    SciTech Connect

    Lizarazo, J.; Doering, D.; Doolittle, L.; Galvin, J.; Caspi, S.; Dietderich, D. R.; Felice, H.; Ferracin, P.; Godeke, A.; Joseph, J.; Lietzke, A. F.; Ratti, A.; Sabbi, G. L.; Trillaud, F.; Wang, X.; Zimmerman, S.

    2008-08-17

    A novel voltage monitoring system to record voltage transients in superconducting magnets is being developed at LBNL. This system has 160 monitoring channels capable of measuring differential voltages of up to 1.5kV with 100kHz bandwidth and 500kS/s digitizing rate. This paper presents analysis results from data taken with a 16 channel prototype system. From that analysis we were able to diagnose a change in the current-temperature margin of the superconducting cable by analyzing Flux-Jump data collected after a magnet energy extraction failure during testing of a high field Nb{sub 3}Sn dipole.

  14. Assembly and Test of a Support Structure for 3.5 m Long Nb3Sn Racetrack Coils.

    SciTech Connect

    Ferracin,P.; Ambrosio, G.; Anerella, M.; Caspi, S.; Cheng, D.W.; Felice, H.; Hafalia, A.R.; Hannaford, C.R.; Lietzke, A.F.; Lizarazo, J.; Muratore, J.; Sabbi, G.L.; Schmalzle, J.; Thomas, R.; Wanderer, P.J.

    2007-08-27

    The LHC Accelerator Research Program (LARP) is currently developing 4 m long Nb{sub 3}Sn quadrupole magnets for a possible upgrade of the LHC Interaction Regions (IR). In order to provide a reliable test bed for the fabrication and test of long Nb{sub 3}Sn coils, LARP has started the development of the long racetrack magnet LRS01. The magnet is composed of two 3.6 m long racetrack coils contained in a support structure based on an aluminum shell pre-tensioned with water-pressurized bladders and interference keys. For the phase-one test of the assembly procedure and loading operation, the structure was pre-stressed at room temperature and cooled down to 77 K with instrumented, solid aluminum 'dummy coils'. Mechanical behavior and stress homogeneity were monitored with strain gauges mounted on the shell and the dummy coils. The dummy coils were replaced with reacted and impregnated Nb{sub 3}Sn coils in a second assembly procedure, followed by cool-down to 4.5 K and powered magnet test. This paper reports on the assembly and loading procedures of the support structure as well as the comparison between strain gauge data and 3D model predictions.

  15. Assembly and Test of a Support Structure for 3.6 m Long Nb3Sn Racetrack Coils

    SciTech Connect

    Ambrosio, G.; Anerella, M.; Caspi, S.; Cheng, D.W.; Felice, H.; Hafalia, A.R.; Hannaford, C.R.; Lietzke, A.F.; Lizarazo, J.; Muratore, J.; Sabbi, G.L.; Schmalzle, J.; Thomas, R.; Wanderer, P.J.; Ferracin, P.

    2008-06-01

    The LHC Accelerator Research Program (LARP) is currently developing 4 m long Nb{sub 3}Sn quadrupole magnets for a possible upgrade of the LHC Interaction Regions (IR). In order to provide a reliable test bed for the fabrication and test of long Nb{sub 3}Sn coils, LARP has started the development of the long racetrack magnet LRS01. The magnet is composed of two 3.6 m long racetrack coils contained in a support structure based on an aluminum shell pre-tensioned with water-pressurized bladders and interference keys. For the phase-one test of the assembly procedure and loading operation, the structure was pre-stressed at room temperature and cooled down to 77 K with instrumented, solid aluminum 'dummy coils'. Mechanical behavior and stress homogeneity were monitored with strain gauges mounted on the shell and the dummy coils. The dummy coils were replaced with reacted and impregnated Nb{sub 3}Sn coils in a second assembly procedure, followed by cool-down to 4.5 K and powered magnet test. This paper report on the assembly and loading procedures of the support structure as well as the comparison between strain gauge data and 3D model predictions.

  16. Study of the effects of high temperatures during quenches on the performance of a small Nb(3)Sn racetrack magnet

    SciTech Connect

    Linda Imbasciati et al.

    2004-03-23

    Several high field Nb{sub 3}Sn magnets of different design are under development for future particle accelerators. The high levels of stored energy in these magnets and the high current densities in the conductor can cause high peak temperatures during a quench. The thermal gradients generated in the epoxy-impregnated magnet coils during the fast temperature rise can result in high thermo-mechanical stresses. Considering the sensitivity of Nb{sub 3}Sn to strain and epoxy cracks, it is important to define a maximum acceptable temperature in the coils during a quench which does not cause degradation of the magnet performance. A program was launched at Fermilab to study the effects of thermo-mechanical stress in Nb{sub 3}Sn coils, supported by experiments and by analysis. In collaboration with LBNL, a sub-scaled magnet was built and instrumented to measure the effect of the thermo-mechanical shock during magnet quenches. The magnet consisted of two racetrack coils, assembled in a common coil configuration with a small gap in between. During the test, the magnet reached the maximum field of {approx} 11 T at the short sample current of 9100 A. Temperature excursions up to 400 K did not diminish the magnet quench performance; only after temperature excursions over 430 K, the magnet showed detraining effects, which reduced occasionally the quench current of about 6%. Signs of irreversible degradation (reducing the maximum current of about 3%) appeared only after temperature excursions over 550 K.

  17. Optimization and test of a 120mm LARP Nb3Sn quadrupole coil using magnetic mirror structure

    SciTech Connect

    Bossert, R.; Ambrosio, G.; Andreev, N.; Anerella, M.; Barzi, E.; Caspi, S.; Cheng, D.; Chlachidze, G.; Dietderich, D.; Felice, H.; Ferracin, P.; /LBL, Berkeley /Brookhaven /LBL, Berkeley /Fermilab /LBL, Berkeley /Brookhaven

    2011-09-01

    The US-LARP collaboration is developing a new generation of large-aperture high-field quadrupoles based on Nb{sub 3}Sn superconductor for the LHC upgrades. The development and implementation of this new technology involves the fabrication and testing of series of model magnets, coils and other components with various design and processing features. New 120-mm HQ coils made of Rutherford cable, one with an interlayer resistive core, and both with optimized reaction processes, were fabricated and tested using a quadrupole mirror structure under operating conditions similar to those in a real magnet. The coils were instrumented with voltage taps and strain gauges to study the mechanical and quench performance. Quench antenna and temperature gauges were installed in the mirror structure to measure the coil temperature and locate quench origins. This paper presents details of the coil design and fabrication procedures, coil assembly and pre-stress in the quadrupole mirror structure, and coil test results.

  18. Effect of Dual Cathode Buffer Layer on the Charge Carrier Dynamics of rrP3HT:PCBM Based Bulk Heterojunction Solar Cell.

    PubMed

    Singh, Ashish; Dey, Anamika; Das, Dipjyoti; Iyer, Parameswar Krishnan

    2016-05-04

    In bulk heterojunction (BHJ) solar cells, the buffer layer plays a vital role in enhancing the power conversion efficiency (PCE) by improving the charge carrier dynamics. A comprehensive understanding of the contacts is especially essential in order to optimize the performance of organic solar cells (OSCs). Although there are several fundamental reports on this subject, a proper correlation of the physical processes with experimental evidence at the photoactive layer and contact materials is essential. In this work, we incorporated three different additional buffer layers, namely, tris(8-hydroxyquinolinato) aluminum (Alq3), bathophenanthroline (BPhen) or bathocuproine (BCP) with LiF/Al as conventional cathode contact in both rrP3HT:PC61BM and rrP3HT:PC71BM blend BHJ solar cells and their corresponding photovoltaic performances were systematically correlated with their energy level diagram. The device with dual cathode buffer layer having ITO/PEDOT:PSS/blend polymer/BCP/LiF/Al configuration showed the best device performance with PCE, η = 4.96%, Jsc = 13.53 mA/cm(2), Voc = 0.60 V and FF= 61% for rrP3HT:PC71BM and PCE, η = 4.5% with Jsc = 13.3 mA/cm(2), Voc = 0.59 V and FF = 59% for rrP3HT:PC61BM. This drastic improvement in PCE in both the device configurations are due to the combined effects of better hole-blocking capacity of BCP and low work function provided by LiF/Al with the blend polymer. These results successfully explain the role of dual cathode buffer layers and their contribution to the PCE improvement and overall device performance with rrP3HT:PCBM based BHJ solar cell.

  19. The Dictyostelium discoideum RNA-dependent RNA polymerase RrpC silences the centromeric retrotransposon DIRS-1 post-transcriptionally and is required for the spreading of RNA silencing signals

    PubMed Central

    Wiegand, Stephan; Meier, Doreen; Seehafer, Carsten; Malicki, Marek; Hofmann, Patrick; Schmith, Anika; Winckler, Thomas; Földesi, Balint; Boesler, Benjamin; Nellen, Wolfgang; Reimegård, Johan; Käller, Max; Hällman, Jimmie; Emanuelsson, Olof; Avesson, Lotta; Söderbom, Fredrik; Hammann, Christian

    2014-01-01

    Dictyostelium intermediate repeat sequence 1 (DIRS-1) is the founding member of a poorly characterized class of retrotransposable elements that contain inverse long terminal repeats and tyrosine recombinase instead of DDE-type integrase enzymes. In Dictyostelium discoideum, DIRS-1 forms clusters that adopt the function of centromeres, rendering tight retrotransposition control critical to maintaining chromosome integrity. We report that in deletion strains of the RNA-dependent RNA polymerase RrpC, full-length and shorter DIRS-1 messenger RNAs are strongly enriched. Shorter versions of a hitherto unknown long non-coding RNA in DIRS-1 antisense orientation are also enriched in rrpC– strains. Concurrent with the accumulation of long transcripts, the vast majority of small (21 mer) DIRS-1 RNAs vanish in rrpC– strains. RNASeq reveals an asymmetric distribution of the DIRS-1 small RNAs, both along DIRS-1 and with respect to sense and antisense orientation. We show that RrpC is required for post-transcriptional DIRS-1 silencing and also for spreading of RNA silencing signals. Finally, DIRS-1 mis-regulation in the absence of RrpC leads to retrotransposon mobilization. In summary, our data reveal RrpC as a key player in the silencing of centromeric retrotransposon DIRS-1. RrpC acts at the post-transcriptional level and is involved in spreading of RNA silencing signals, both in the 5′ and 3′ directions. PMID:24369430

  20. The DEAD-box Protein Rok1 Orchestrates 40S and 60S Ribosome Assembly by Promoting the Release of Rrp5 from Pre-40S Ribosomes to Allow for 60S Maturation.

    PubMed

    Khoshnevis, Sohail; Askenasy, Isabel; Johnson, Matthew C; Dattolo, Maria D; Young-Erdos, Crystal L; Stroupe, M Elizabeth; Karbstein, Katrin

    2016-06-01

    DEAD-box proteins are ubiquitous regulators of RNA biology. While commonly dubbed "helicases," their activities also include duplex annealing, adenosine triphosphate (ATP)-dependent RNA binding, and RNA-protein complex remodeling. Rok1, an essential DEAD-box protein, and its cofactor Rrp5 are required for ribosome assembly. Here, we use in vivo and in vitro biochemical analyses to demonstrate that ATP-bound Rok1, but not adenosine diphosphate (ADP)-bound Rok1, stabilizes Rrp5 binding to 40S ribosomes. Interconversion between these two forms by ATP hydrolysis is required for release of Rrp5 from pre-40S ribosomes in vivo, thereby allowing Rrp5 to carry out its role in 60S subunit assembly. Furthermore, our data also strongly suggest that the previously described accumulation of snR30 upon Rok1 inactivation arises because Rrp5 release is blocked and implicate a previously undescribed interaction between Rrp5 and the DEAD-box protein Has1 in mediating snR30 accumulation when Rrp5 release from pre-40S subunits is blocked.

  1. The DEAD-box Protein Rok1 Orchestrates 40S and 60S Ribosome Assembly by Promoting the Release of Rrp5 from Pre-40S Ribosomes to Allow for 60S Maturation

    PubMed Central

    Khoshnevis, Sohail; Askenasy, Isabel; Dattolo, Maria D.; Young-Erdos, Crystal L.; Stroupe, M. Elizabeth; Karbstein, Katrin

    2016-01-01

    DEAD-box proteins are ubiquitous regulators of RNA biology. While commonly dubbed “helicases,” their activities also include duplex annealing, adenosine triphosphate (ATP)-dependent RNA binding, and RNA-protein complex remodeling. Rok1, an essential DEAD-box protein, and its cofactor Rrp5 are required for ribosome assembly. Here, we use in vivo and in vitro biochemical analyses to demonstrate that ATP-bound Rok1, but not adenosine diphosphate (ADP)-bound Rok1, stabilizes Rrp5 binding to 40S ribosomes. Interconversion between these two forms by ATP hydrolysis is required for release of Rrp5 from pre-40S ribosomes in vivo, thereby allowing Rrp5 to carry out its role in 60S subunit assembly. Furthermore, our data also strongly suggest that the previously described accumulation of snR30 upon Rok1 inactivation arises because Rrp5 release is blocked and implicate a previously undescribed interaction between Rrp5 and the DEAD-box protein Has1 in mediating snR30 accumulation when Rrp5 release from pre-40S subunits is blocked. PMID:27280440

  2. Cotranscriptional Recruitment of RNA Exosome Cofactors Rrp47p and Mpp6p and Two Distinct Trf-Air-Mtr4 Polyadenylation (TRAMP) Complexes Assists the Exonuclease Rrp6p in the Targeting and Degradation of an Aberrant Messenger Ribonucleoprotein Particle (mRNP) in Yeast*

    PubMed Central

    Stuparevic, Igor; Mosrin-Huaman, Christine; Hervouet-Coste, Nadège; Remenaric, Mateja; Rahmouni, A. Rachid

    2013-01-01

    The cotranscriptional mRNA processing and packaging reactions that lead to the formation of export-competent messenger ribonucleoprotein particles (mRNPs) are under the surveillance of quality control steps. Aberrant mRNPs resulting from faulty events are retained in the nucleus with ensuing elimination of their mRNA component. The molecular mechanisms by which the surveillance system recognizes defective mRNPs and stimulates their destruction by the RNA degradation machinery are still not completely elucidated. Using an experimental approach in which mRNP formation in yeast is disturbed by the action of the bacterial Rho helicase, we have shown previously that the targeting of Rho-induced aberrant mRNPs is mediated by Rrp6p, which is recruited cotranscriptionally in association with Nrd1p following Rho action. Here we investigated the specific involvement in this quality control process of different cofactors associated with the nuclear RNA degradation machinery. We show that, in addition to the main hydrolytic action of the exonuclease Rrp6p, the cofactors Rrp47p, Mpp6p as well as the Trf-Air-Mtr4 polyadenylation (TRAMP) components Trf4p, Trf5p, and Air2p contribute significantly by stimulating the degradation process upon their cotranscriptional recruitment. Trf4p and Trf5p are apparently recruited in two distinct TRAMP complexes that both contain Air2p as component. Surprisingly, Rrp47p appears to play an important role in mutual protein stabilization with Rrp6p, which highlights a close association between the two partners. Together, our results provide an integrated view of how different cofactors of the RNA degradation machinery cooperate to target and eliminate aberrant mRNPs. PMID:24047896

  3. Stressed Kevlar strand test

    SciTech Connect

    Golopol, H.; Clarkson, J.; Moore, R.; Hetherington, N.

    1981-09-10

    Kevlar is a polyaramid fiber used in fiber composites. In order to characterize this material, we determined the effect of time, temperature, and chemical environment on the strength retention of stressed Kevlar strands. In this work, we applied a stress load of 20% of the ultimate tensile strength (UTS). Strands were hung with a suitable weight in a closed container. Each container was then provided with its own heater and chemical environment. No significant loss of strength retention was found on these stressed strands. 4 figures, 5 tables.

  4. Mutations of EXOSC3/Rrp40p associated with neurological diseases impact ribosomal RNA processing functions of the exosome in S. cerevisiae.

    PubMed

    Gillespie, Abby; Gabunilas, Jason; Jen, Joanna C; Chanfreau, Guillaume F

    2017-04-01

    The RNA exosome is a conserved multiprotein complex that achieves a large number of processive and degradative functions in eukaryotic cells. Recently, mutations have been mapped to the gene encoding one of the subunits of the exosome, EXOSC3 (yeast Rrp40p), which results in pontocerebellar hypoplasia with motor neuron degeneration in human patients. However, the molecular impact of these mutations in the pathology of these diseases is not well understood. To investigate the molecular consequences of mutations in EXOSC3 that lead to neurological diseases, we analyzed the effect of three of the mutations that affect conserved residues of EXOSC3/Rrp40p (G31A, G191C, and W238R; G8A, G148C, and W195R, respectively, in human and yeast) in S. cerevisiae We show that the severity of the phenotypes of these mutations in yeast correlate with that of the disease in human patients, with the W195R mutant showing the strongest growth and RNA processing phenotypes. Furthermore, we show that these mutations affect more severely pre-ribosomal RNA processing functions of the exosome rather than other nuclear processing or surveillance functions. These results suggest that delayed or defective pre-rRNA processing might be the primary defect responsible for the pathologies detected in patients with mutations affecting EXOSC3 function in residues conserved throughout eukaryotes.

  5. Mutations of EXOSC3/Rrp40p associated with neurological diseases impact ribosomal RNA processing functions of the exosome in S. cerevisiae

    PubMed Central

    Gillespie, Abby; Gabunilas, Jason; Jen, Joanna C.; Chanfreau, Guillaume F.

    2017-01-01

    The RNA exosome is a conserved multiprotein complex that achieves a large number of processive and degradative functions in eukaryotic cells. Recently, mutations have been mapped to the gene encoding one of the subunits of the exosome, EXOSC3 (yeast Rrp40p), which results in pontocerebellar hypoplasia with motor neuron degeneration in human patients. However, the molecular impact of these mutations in the pathology of these diseases is not well understood. To investigate the molecular consequences of mutations in EXOSC3 that lead to neurological diseases, we analyzed the effect of three of the mutations that affect conserved residues of EXOSC3/Rrp40p (G31A, G191C, and W238R; G8A, G148C, and W195R, respectively, in human and yeast) in S. cerevisiae. We show that the severity of the phenotypes of these mutations in yeast correlate with that of the disease in human patients, with the W195R mutant showing the strongest growth and RNA processing phenotypes. Furthermore, we show that these mutations affect more severely pre-ribosomal RNA processing functions of the exosome rather than other nuclear processing or surveillance functions. These results suggest that delayed or defective pre-rRNA processing might be the primary defect responsible for the pathologies detected in patients with mutations affecting EXOSC3 function in residues conserved throughout eukaryotes. PMID:28053271

  6. Design and Analysis of TQS01, a 90 mm Nb3Sn Model Quadrupole for LHC Luminosity Upgrade Based on a Key and Bladder Assembly

    SciTech Connect

    Caspi, S.; Ambrosio, G.; Andreev, N.; Barzi, E.; Bossert, R.C.; Dietderich, D.R.; Ferracin, P.; Ghosh, A.; Gourlay, S.A.; Hafalia, A.R.; Hannaford, C.R.; Kashikhin, V.S.; Kashikhin, V.V.; Lietzke, A.F.; Mattafirri, S.; McInturff, A.D.; Novitsky, I.V.; Sabbi, G.L.; Turrioni, D.; Yamada, R.; Zlobin, A.V.

    2006-06-01

    The US LHC Accelerator Research Program (LARP) is developing Nb{sub 3}Sn accelerator magnet technology for the LHC luminosity upgrade. Two 90 mm 'Technology Quadrupole' models (TQS01, TQC01) are being developed in close collaboration between LBNL and FNAL, using identical coil design, but two different support structures. The TQS01 structure was developed and tested at LBNL. With this approach coils are supported by an outer aluminum shell and assembled using keys and bladders. In contrast, the second model TQC01, utilize stainless steel collars and a thick stainless steel skin. This paper describes the TQS01 model magnet, its 3D ANSYS stress analysis, and anticipated instrumentation and assembly procedure.

  7. Test Results of LARP 3.6 m Nb3Sn Racetrack Coils Support by Full-length and Segmented Shell Structures

    SciTech Connect

    Muratore, Joseph F.; Ambrosio, Giorgio; Anerella, Michael; Barzi, Emanuela; Bossert, Rodger; Caspi, Shlomo; Cheng, D. W.; Cozzolino, John; Dietderich, Daniel R.; Escallier, John; Feher, Sandor; Felice, Helene; Ferracin, Paolo; Ganetis, George; Ghosh, Arup K.; Gupta, Ramesh C.; Hafalia, A. R.; Hannaford, C. R.; Joshi, Piyush; Kovach, Paul; Lietzke, A. F.; Louie, Wing; Marone, Andrew; McInturff, Al D.; Nobrega, F.; Sabbi, GianLuca; Schmalzle, Jesse; Thomas, Richard; Turrioni, Daniele; Wanderer, Peter

    2008-08-17

    As part of the LHC Accelerator Research Program (LARP) to build a high performance quadrupole magnet with Nb{sub 3}Sn conductor, a pair of 3.6 m-long Nb{sub 3}Sn racetrack coils has been made at Brookhaven National Laboratory (BNL) and installed in two shell-type support structures built by Lawrence Berkeley National Laboratory (LBL). These magnet assemblies have been tested at 4.5 K at BNL to gauge the effect of extended length and prestress on the mechanical performance of the long structure compared to earlier short models. This paper presents the results of quench testing and compares the overall performance of the two versions of the support structure. We also summarize the shell strain measurements and discuss the variation of quench current with ramp rate.

  8. Test Results of 15 T Nb3Sn Quadrupole Magnet HQ01 with a 120 mm Bore for the LHC Luminosity Upgrade

    SciTech Connect

    Caspi, S.; Schmalzle, J.; Ambrosio, G.; Anerella, M.; Barzi, E.; Bingham, B.; Bossert, R.; Cheng, D.W.; Chlachidze, G.; Dietderich, D.R.; Felice, H.; Ferracin, P.; Ghosh, A.; Hafalia, A.R.; Hannaford, C.R.; Joseph, J.; Kashikhin, V.V.; Sabbi, G.L.; Schmalzle, J.; Wanderer,; P.l Xiaorong, W.; Zlobin, A.V.

    2011-08-03

    In support of the luminosity upgrade of the Large Hadron Collider (LHC), the US LHC Accelerator Research Program (LARP) has been developing a 1-meter long, 120 mm bore Nb{sub 3}Sn IR quadrupole magnet (HQ). With a short sample gradient of 219 T/m at 1.9 K and a conductor peak field of 15 T, the magnet will operate under higher forces and stored-energy levels than that of any previous LARP magnet models. In addition, HQ has been designed to incorporate accelerator quality features such as precise coil alignment and adequate cooling. The first 6 coils (out of the 8 fabricated so far) have been assembled and used in two separate tests-HQ01a and HQ01b. This paper presents design parameters, summary of the assemblies, the mechanical behavior as well as the performance of HQ01a and HQ01b.

  9. Assembly and Loading of LQS01, a Shell-Based 3.7 m Long Nb3Sn Quadrupole Magnet for LARP

    SciTech Connect

    Ferracin, P.; Ambrosio, G.; Anerella, M.; Bingham, B.; Bossert, R.; Caspi, S.; Cheng, D. W.; Chlachidze, G.; Felice, H.; Hafalia, A. R.; Hannaford, C. R.; Mumper, W.; Nobrega, F.; Prestemon, S.; Sabbi, G. L.; Schmalzle, J.; Sylvester, C.; Tartaglia, M.; Wanderer, P.; Zlobin, A.

    2009-10-19

    The LHC Accelerator Research Program (LARP) has been engaged in the fabrication of the 3.7 m long quadrupole magnet LQS01 in order to demonstrate that Nb{sub 3}Sn magnets are a viable option for future LHC Luminosity upgrades. The LQS01 design, a scale-up of the 1 m long Technology Quadrupole TQS, includes four 3.4 m long cos(theta) coils contained in a support structure based on four 1 m long aluminum shells pre-tensioned with water-pressurized bladders (shell-type structure). In order to verify assembly procedures and loading operations, the structure was pre-stressed around solid aluminum 'dummy coils' and cooled-down to 77 K. Mechanical behavior and stress variations were monitored with strain gauges mounted on the structure and on the dummy coils. The dummy coils were then replaced with Nb{sub 3}Sn coils in a second assembly and loading procedure, in preparation for the cool-down and test. This paper reports on the cool-down test with dummy coils and on the assembly and loading of LQS01, with a comparison between 3D finite element model predictions and strain gauge data.

  10. Fabrication and Test of a 3.7 m Long Support Structure for the LARP Nb3Sn Quadrupole Magnet LQS01

    SciTech Connect

    Ferracin, P.; Ambrosio, G.; Anerella, M.; Bingham, B.; Bossert, R.; Caspi, S.; Cheng, D.W.; Felice, H.; Hafalia, A. R.; Hannaford, C. R.; Nobrega, F.; Prestemon, S.; Sabbi, G. L.; Schmalzle, J.; Trillaud, F.; Wanderer, P.; Zlobin, A. V.

    2008-08-17

    The 3.7 m long quadrupole magnet LQS01 represents a major step of the US LHC Accelerator Research Program (LARP) towards the development of long Nb{sub 3}Sn accelerator quadrupole magnets for a LHC Luminosity upgrade. The magnet support structure is a scale up of the 1 m long Technology Quadrupole TQS design with some modifications suggested by TQS model test results. It includes an aluminum shell pre-tensioned over iron yokes using pressurized bladders and locking keys (bladder and key technology). The axial support is provided by two stainless steel end plates compressed against the coil ends by four stainless steel rods. The structure, instrumented with strain gauges, has been fabricated and assembled around four aluminum 'dummy coils' to determine pre-load homogeneity and mechanical characteristics during cool-down. After presenting the main magnetic and mechanical parameters of LQS01, we report in this paper on the design, assembly, and test of the support structure, with a comparison between strain gauges data and 3D finite element model results.

  11. Classifying Saturn's F Ring Strands

    NASA Astrophysics Data System (ADS)

    Albers, Nicole; Sremcevic, M.; Esposito, L. W.; Colwell, J. E.

    2009-09-01

    The Cassini Ultraviolet Imaging Spectrograph (UVIS) High Speed Photometer (HSP) has recorded more than 113 stellar occultations by Saturn's F ring providing measurements with ring plane resolutions of a few dozen meters and better. Inner and outer F ring strands have been seen throughout the Cassini mission where they revealed themselves as non-continuous, azimuthally and temporally highly variable structures. In the light of a more accurate orbit description of the F ring core we find evidence for a ring that becomes dynamically more active as the system approaches anti-apse alignment with Prometheus. This is consistent with the observed increased strand activity. A recent strand that morphologically resembles the core is the strongest seen to date and points to the intricate relation between core and strands indicating the strands' violent creation. Using more than 150 identifications of various strands, we trace their kinematics and infer dynamical timescales and photometric properties. Implications for the dynamical evolution of the F ring will be discussed. This research was supported by the Cassini Project.

  12. Cryptography with DNA binary strands.

    PubMed

    Leier, A; Richter, C; Banzhaf, W; Rauhe, H

    2000-06-01

    Biotechnological methods can be used for cryptography. Here two different cryptographic approaches based on DNA binary strands are shown. The first approach shows how DNA binary strands can be used for steganography, a technique of encryption by information hiding, to provide rapid encryption and decryption. It is shown that DNA steganography based on DNA binary strands is secure under the assumption that an interceptor has the same technological capabilities as sender and receiver of encrypted messages. The second approach shown here is based on steganography and a method of graphical subtraction of binary gel-images. It can be used to constitute a molecular checksum and can be combined with the first approach to support encryption. DNA cryptography might become of practical relevance in the context of labelling organic and inorganic materials with DNA 'barcodes'.

  13. Double stranded nucleic acid biochips

    DOEpatents

    Chernov, Boris; Golova, Julia

    2006-05-23

    This invention describes a new method of constructing double-stranded DNA (dsDNA) microarrays based on the use of pre-synthesized or natural DNA duplexes without a stem-loop structure. The complementary oligonucleotide chains are bonded together by a novel connector that includes a linker for immobilization on a matrix. A non-enzymatic method for synthesizing double-stranded nucleic acids with this novel connector enables the construction of inexpensive and robust dsDNA/dsRNA microarrays. DNA-DNA and DNA-protein interactions are investigated using the microarrays.

  14. Hyperchromicity and strand separation in bacterial DNA.

    PubMed

    FREIFELDER, D; DAVISON, P F

    1962-05-01

    Studies of the per cent of strand separation of N(14)-N(15) hybrid coli DNA heated to various temperatures in formaldehyde have shown that the process of strand separation is a function of temperature and formaldehyde concentration and is directly related to the measured hyperchromicity. No strands separate until about 75 per cent of full hyperchromicity is obtained, and even at apparently full hyperchromicity a large fraction of the strands may be held together, possibly by guanine-cytosine-rich regions.

  15. Stranded costs: Is the market paying attention?

    SciTech Connect

    Ros, A.; Domagalski, J.; O`Connor, P.R.

    1996-05-15

    This article is a discussion of the effects of the stranded costs issue on the market and book value of electric utility stocks. Mathematical models were used to determine whether stranded costs, as measured by Moody`s Investor Services and S&P, can explain variability if equity performance as expressed by the market-to-book value ratio. The models adequately explain the variances and show that increased exposure to stranded costs leads to reduced market value.

  16. Hyperchromicity and Strand Separation in Bacterial DNA

    PubMed Central

    Freifelder, David; Davison, Peter F.

    1962-01-01

    Studies of the per cent of strand separation of N14-N15 hybrid coli DNA heated to various temperatures in formaldehyde have shown that the process of strand separation is a function of temperature and formaldehyde concentration and is directly related to the measured hyperchromicity. No strands separate until about 75 per cent of full hyperchromicity is obtained, and even at apparently full hyperchromicity a large fraction of the strands may be held together, possibly by guanine-cytosine-rich regions. PMID:13894962

  17. Thermophoresis of single stranded DNA.

    PubMed

    Reineck, Philipp; Wienken, Christoph J; Braun, Dieter

    2010-01-01

    The manipulation and analysis of biomolecules in native bulk solution is highly desired; however, few methods are available. In thermophoresis, the thermal analog to electrophoresis, molecules are moved along a microscopic temperature gradient. Its theoretical foundation is still under debate, but practical applications for analytics in biology show considerable potential. Here we measured the thermophoresis of highly diluted single stranded DNA using an all-optical capillary approach. Temperature gradients were created locally by an infrared laser. The thermal depletion of oligonucleotides of between 5 and 50 bases in length were investigated by fluorescence at various salt concentrations. To a good approximation, the previously tested capacitor model describes thermophoresis: the Soret coefficient linearly depends on the Debye length and is proportional to the DNA length to the power of 0.35, dictated by the conformation-based size scaling of the diffusion coefficient. The results form the basis for quantitative DNA analytics using thermophoresis.

  18. A Biomechanical Comparison of 4-Strand and 5-Strand Anterior Cruciate Ligament Graft Constructs

    PubMed Central

    Broadhead, Matthew L.; Singla, Animesh A.; Bertollo, Nicky; Broe, David; Walsh, William R.

    2017-01-01

    Hamstring tendon autografts are used for reconstruction of the anterior cruciate ligament. This study tested the hypothesis that a 5-strand hamstring autograft construct is superior in strength to a 4-strand construct. Four-strand and 5-strand tendon grafts constructs were prepared from ovine flexor tendons and then tested in a uniaxial electromechanical load system with suspensory fixation. The 4-strand and 5-strand constructs were pre-conditioned, stress-relaxed and loaded to ultimate failure. Stress-relaxation, stiffness and ultimate load were compared using a one-way ANOVA. There were no statistical differences in stress-relaxation, initial stiffness, secondary stiffness or ultimate load between 4-strand and 5-strand split tendon graft constructs. Inconsistent failure patterns for both 4-strand and 5-strand constructs were observed. The additional strand in the 5-strand construct may be shielded from stress with additional weakness secondary to the use of suspensory fixation. The potential biological benefit of religamentization and bony integration, with more autologous tissue in the intra-articular space and bony tunnels remains unknown. PMID:28286624

  19. Unraveling the strands of Saturn's F ring

    USGS Publications Warehouse

    Murray, C.D.; Gordon, M.K.; Giuliatti, Winter S.M.

    1997-01-01

    Several high-resolution Voyager 2 images of Saturn's F ring show that it is composed of at least four separate, non-intersecting strands extending ~45?? in longitude. Voyager 1 images show that the two brightest strands appear to intersect, giving rise to a "braided" morphology. From a study of all available Voyager images the detectable radial structure is cataloged and reviewed. Previous indications that there is fine material interior to the orbit of the F ring are confirmed. Evidence is presented that a model of four strands with comparable eccentricities and nearly aligned perichrones is consistent with all the Voyager observations. The observed perichrone offset of the two brightest strands suggests a minimum radial separation of ~20 km, which implies intersection of these strands when their finite radial widths are taken into account. The longitude range of such an intersection includes that observed in the Voyager 1 "braid" images. The proximity of these two strands at some longitudes may account for the apparent differences in the ring between the Voyager encounters, as well as provide a source for the short-lived features detected in the Hubble Space Telescope images of the F ring. There is no evidence that the locations of the individual strands are determined by resonant perturbations with known satellites. It is proposed that the radial structure is formed by the localized action of small satellites orbiting within the strand region. ?? 1997 Academic Press.

  20. Coding capacity of complementary DNA strands.

    PubMed Central

    Casino, A; Cipollaro, M; Guerrini, A M; Mastrocinque, G; Spena, A; Scarlato, V

    1981-01-01

    A Fortran computer algorithm has been used to analyze the nucleotide sequence of several structural genes. The analysis performed on both coding and complementary DNA strands shows that whereas open reading frames shorter than 100 codons are randomly distributed on both DNA strands, open reading frames longer than 100 codons ("virtual genes") are significantly more frequent on the complementary DNA strand than on the coding one. These "virtual genes" were further investigated by looking at intron sequences, splicing points, signal sequences and by analyzing gene mutations. On the basis of this analysis coding and complementary DNA strands of several eukaryotic structural genes cannot be distinguished. In particular we suggest that the complementary DNA strand of the human epsilon-globin gene might indeed code for a protein. PMID:7015290

  1. DNA strand patterns on aluminium thin films.

    PubMed

    Khatir, Nadia Mahmoudi; Banihashemian, Seyedeh Maryam; Periasamy, Vengadesh; Majid, Wan Haliza Abd; Rahman, Saadah Abdul; Shahhosseini, Fatemeh

    2011-01-01

    A new patterning method using Deoxyribose Nucleic Acid (DNA) strands capable of producing nanogaps of less than 100 nm is proposed and investigated in this work. DNA strands from Bosenbergia rotunda were used as the fundamental element in patterning DNA on thin films of aluminium (Al) metal without the need for any lithographic techniques. The DNA strands were applied in buffer solutions onto thin films of Al on silicon (Si) and the chemical interactions between the DNA strands and Al creates nanometer scale arbitrary patterning by direct transfer of the DNA strands onto the substrate. This simple and cost-effective method can be utilized in the fabrication of various components in electronic chips for microelectronics and Nano Electronic Mechanical System (NEMS) applications in general.

  2. Modelling Toehold-Mediated RNA Strand Displacement

    PubMed Central

    Šulc, Petr; Ouldridge, Thomas E.; Romano, Flavio; Doye, Jonathan P.K.; Louis, Ard A.

    2015-01-01

    We study the thermodynamics and kinetics of an RNA toehold-mediated strand displacement reaction with a recently developed coarse-grained model of RNA. Strand displacement, during which a single strand displaces a different strand previously bound to a complementary substrate strand, is an essential mechanism in active nucleic acid nanotechnology and has also been hypothesized to occur in vivo. We study the rate of displacement reactions as a function of the length of the toehold and temperature and make two experimentally testable predictions: that the displacement is faster if the toehold is placed at the 5′ end of the substrate; and that the displacement slows down with increasing temperature for longer toeholds. PMID:25762335

  3. Modelling toehold-mediated RNA strand displacement.

    PubMed

    Šulc, Petr; Ouldridge, Thomas E; Romano, Flavio; Doye, Jonathan P K; Louis, Ard A

    2015-03-10

    We study the thermodynamics and kinetics of an RNA toehold-mediated strand displacement reaction with a recently developed coarse-grained model of RNA. Strand displacement, during which a single strand displaces a different strand previously bound to a complementary substrate strand, is an essential mechanism in active nucleic acid nanotechnology and has also been hypothesized to occur in vivo. We study the rate of displacement reactions as a function of the length of the toehold and temperature and make two experimentally testable predictions: that the displacement is faster if the toehold is placed at the 5' end of the substrate; and that the displacement slows down with increasing temperature for longer toeholds.

  4. Magnet design considerations for Fusion Nuclear Science Facility

    SciTech Connect

    Zhai, Yuhu; Kessel, Chuck; El-guebaly, Laila; Titus, Peter

    2016-02-25

    The Fusion Nuclear Science Facility (FNSF) is a nuclear confinement facility to provide a fusion environment with components of the reactor integrated together to bridge the technical gaps of burning plasma and nuclear science between ITER and the demonstration power plant (DEMO). Compared to ITER, the FNSF is smaller in size but generates much higher magnetic field, 30 times higher neutron fluence with 3 orders of magnitude longer plasma operation at higher operating temperatures for structures surrounding the plasma. Input parameters to the magnet design from system code analysis include magnetic field of 7.5 T at the plasma center with plasma major radius of 4.8 m and minor radius of 1.2 m, and a peak field of 15.5 T on the TF coils for FNSF. Both low temperature superconductor (LTS) and high temperature superconductor (HTS) are considered for the FNSF magnet design based on the state-of-the-art fusion magnet technology. The higher magnetic field can be achieved by using the high performance ternary Restack Rod Process (RRP) Nb3Sn strands for toroidal field (TF) magnets. The circular cable-in-conduit conductor (CICC) design similar to ITER magnets and a high aspect ratio rectangular CICC design are evaluated for FNSF magnets but low activation jacket materials may need to be selected. The conductor design concept and TF coil winding pack composition and dimension based on the horizontal maintenance schemes are discussed. Neutron radiation limits for the LTS and HTS superconductors and electrical insulation materials are also reviewed based on the available materials previously tested. As a result, the material radiation limits for FNSF magnets are defined as part of the conceptual design studies for FNSF magnets.

  5. Magnet design considerations for Fusion Nuclear Science Facility

    DOE PAGES

    Zhai, Yuhu; Kessel, Chuck; El-guebaly, Laila; ...

    2016-02-25

    The Fusion Nuclear Science Facility (FNSF) is a nuclear confinement facility to provide a fusion environment with components of the reactor integrated together to bridge the technical gaps of burning plasma and nuclear science between ITER and the demonstration power plant (DEMO). Compared to ITER, the FNSF is smaller in size but generates much higher magnetic field, 30 times higher neutron fluence with 3 orders of magnitude longer plasma operation at higher operating temperatures for structures surrounding the plasma. Input parameters to the magnet design from system code analysis include magnetic field of 7.5 T at the plasma center withmore » plasma major radius of 4.8 m and minor radius of 1.2 m, and a peak field of 15.5 T on the TF coils for FNSF. Both low temperature superconductor (LTS) and high temperature superconductor (HTS) are considered for the FNSF magnet design based on the state-of-the-art fusion magnet technology. The higher magnetic field can be achieved by using the high performance ternary Restack Rod Process (RRP) Nb3Sn strands for toroidal field (TF) magnets. The circular cable-in-conduit conductor (CICC) design similar to ITER magnets and a high aspect ratio rectangular CICC design are evaluated for FNSF magnets but low activation jacket materials may need to be selected. The conductor design concept and TF coil winding pack composition and dimension based on the horizontal maintenance schemes are discussed. Neutron radiation limits for the LTS and HTS superconductors and electrical insulation materials are also reviewed based on the available materials previously tested. As a result, the material radiation limits for FNSF magnets are defined as part of the conceptual design studies for FNSF magnets.« less

  6. Marine mammal strandings in the New Caledonia region, Southwest Pacific.

    PubMed

    Borsa, Philippe

    2006-04-01

    Four hundred twenty three marine mammals, in 72 stranding events, were recorded between 1877 and 2005 in New Caledonia, the Loyalty Islands, and Vanuatu in the southwest Pacific. Sixteen species were represented in this count, including: minke whale, Balaenoptera acutorostrata (1 single stranding), sei whale, B. borealis (1 single stranding), blue whale, B. musculus (1 single stranding), humpback whale, Megaptera novaeangliae (2 single strandings), giant sperm whale, Physeter macrocephalus (18 single strandings, 2 pair strandings), pygmy sperm whale, Kogia breviceps (5 single strandings), dwarf sperm whale, K. sima (2 single strandings, 1 triple stranding), Blainville's beaked whale, Mesoplodon densirostris (2 single strandings), short-finned pilot whale, Globicephala macrorhynchus (4 strandings, 56 individuals), melon-headed whale, Peponocephala electra (1 single stranding and 2 mass strandings totalling 231 individuals), common dolphin, Delphinus delphis (1 single stranding), spinner dolphin, Stenella longirostris (1 pair stranding and 2 mass strandings of groups of approximately 30 individuals each), Indian Ocean bottlenose dolphin, Tursiops aduncus (2 single strandings), dugong, Dugong dugon (14 single strandings), and New Zealand fur seal, Arctocephalus forsteri (3 single strandings). A stranded rorqual identified as an Antarctic minke whale (B. bonaerensis), with coloration patterns that did not match known descriptions, was also reported. Sei whale was recorded for the first time in the tropical Southwest Pacific region and Antarctic minke whale, melon-headed whale, and Indian Ocean bottlenose dolphin were recorded for the first time in New Caledonia. Strandings of sperm whales were most frequent in the spring, but also occurred in autumn months, suggesting a seasonal pattern of occurrence possibly related to seasonal migration. One stranded humpback whale bore the scars of a killer whale's attack and one dugong was injured by a shark. Scars left by

  7. Stranded superconducting cable of improved design

    NASA Technical Reports Server (NTRS)

    Brooks, J.; Laverick, C.; Lobell, G. M.; Purcell, J.

    1970-01-01

    High-current cable developed in liquid helium cooled magnets uses aluminum wire interspersed with the superconductor strands. The aluminum maintains higher electrical conductivity, is light in weight, and has low thermal capacity.

  8. DNA strand displacement system running logic programs.

    PubMed

    Rodríguez-Patón, Alfonso; Sainz de Murieta, Iñaki; Sosík, Petr

    2014-01-01

    The paper presents a DNA-based computing model which is enzyme-free and autonomous, not requiring a human intervention during the computation. The model is able to perform iterated resolution steps with logical formulae in conjunctive normal form. The implementation is based on the technique of DNA strand displacement, with each clause encoded in a separate DNA molecule. Propositions are encoded assigning a strand to each proposition p, and its complementary strand to the proposition ¬p; clauses are encoded comprising different propositions in the same strand. The model allows to run logic programs composed of Horn clauses by cascading resolution steps. The potential of the model is demonstrated also by its theoretical capability of solving SAT. The resulting SAT algorithm has a linear time complexity in the number of resolution steps, whereas its spatial complexity is exponential in the number of variables of the formula.

  9. Bubbles in live-stranded dolphins

    PubMed Central

    Dennison, S.; Moore, M. J.; Fahlman, A.; Moore, K.; Sharp, S.; Harry, C. T.; Hoppe, J.; Niemeyer, M.; Lentell, B.; Wells, R. S.

    2012-01-01

    Bubbles in supersaturated tissues and blood occur in beaked whales stranded near sonar exercises, and post-mortem in dolphins bycaught at depth and then hauled to the surface. To evaluate live dolphins for bubbles, liver, kidneys, eyes and blubber–muscle interface of live-stranded and capture-release dolphins were scanned with B-mode ultrasound. Gas was identified in kidneys of 21 of 22 live-stranded dolphins and in the hepatic portal vasculature of 2 of 22. Nine then died or were euthanized and bubble presence corroborated by computer tomography and necropsy, 13 were released of which all but two did not re-strand. Bubbles were not detected in 20 live wild dolphins examined during health assessments in shallow water. Off-gassing of supersaturated blood and tissues was the most probable origin for the gas bubbles. In contrast to marine mammals repeatedly diving in the wild, stranded animals are unable to recompress by diving, and thus may retain bubbles. Since the majority of beached dolphins released did not re-strand it also suggests that minor bubble formation is tolerated and will not lead to clinically significant decompression sickness. PMID:21993505

  10. Bubbles in live-stranded dolphins.

    PubMed

    Dennison, S; Moore, M J; Fahlman, A; Moore, K; Sharp, S; Harry, C T; Hoppe, J; Niemeyer, M; Lentell, B; Wells, R S

    2012-04-07

    Bubbles in supersaturated tissues and blood occur in beaked whales stranded near sonar exercises, and post-mortem in dolphins bycaught at depth and then hauled to the surface. To evaluate live dolphins for bubbles, liver, kidneys, eyes and blubber-muscle interface of live-stranded and capture-release dolphins were scanned with B-mode ultrasound. Gas was identified in kidneys of 21 of 22 live-stranded dolphins and in the hepatic portal vasculature of 2 of 22. Nine then died or were euthanized and bubble presence corroborated by computer tomography and necropsy, 13 were released of which all but two did not re-strand. Bubbles were not detected in 20 live wild dolphins examined during health assessments in shallow water. Off-gassing of supersaturated blood and tissues was the most probable origin for the gas bubbles. In contrast to marine mammals repeatedly diving in the wild, stranded animals are unable to recompress by diving, and thus may retain bubbles. Since the majority of beached dolphins released did not re-strand it also suggests that minor bubble formation is tolerated and will not lead to clinically significant decompression sickness.

  11. Test results of the FER/ITER conductors in the FENIX test facility

    NASA Astrophysics Data System (ADS)

    Sugimoto, M.; Isono, T.; Koizumi, K.; Takahashi, Y.; Nishi, M.; Okuno, K.; Yoshida, K.; Nakajima, H.; Ando, T.; Hosono, F.

    1994-07-01

    The Japan Atomic Energy Research Institute (JAERI) has developed the Advanced Disk and the Hollow Monolithic conductors for the FER/ITER Toroidal Field coils. The Advanced Disk conductor is a Cable-in-Conduit conductor which consists of 324 Nb3Sn strands. The Hollow monolithic conductor has hollow cooling channels and 23 Nb3Sn strands. The JA-FENIX sample consists of a pair of straight legs: one leg is the Advanced disk conductor and another is the Hollow Monolithic one. The FENIX facility at the Lawrence Livermore National Laboratory (LLNL) can provide a magnetic field up to 13T on a sample conductor of over 40cm-length. The performance test of the JA-sample was carried out in Autumn 1992. The critical current, the current sharing temperature, and the stability margin of each conductor were measured in this test. These results are presented and discussed.

  12. LRV1 viral particles in Leishmania guyanensis contain double-stranded or single-stranded RNA.

    PubMed Central

    Weeks, R; Aline, R F; Myler, P J; Stuart, K

    1992-01-01

    The 32-nm-diameter spherical viral particles found in the cytoplasm of Leishmania guyanensis CUMC1-1A sediment at 130S and have a buoyant density of approximately 1.4 g/ml in cesium chloride gradients. These particles contain a 5.3-kb double-stranded RNA, while single-stranded RNA that corresponds to the viral positive strand is associated with less-dense particles. These results suggest a conservative and sequential mode of LRV1 viral RNA replication that is exemplified by the ScV L-A virus of yeast. Images PMID:1738198

  13. Rescue Your Campus from "Stranded" Costs.

    ERIC Educational Resources Information Center

    Kadamus, David A.

    2003-01-01

    Discusses how to deal with the pressures to defer maintenance on campus buildings, including the issue of accelerated cycles of obsolescence, which "stranded" costs to avoid and to accept, and specific strategies to gain control of the physical asset portfolio. (EV)

  14. Untangling the Strands of the Fourteenth Amendment.

    ERIC Educational Resources Information Center

    Lupu, Ira C.

    1979-01-01

    Explores trends in the Court's interpretation of the libertarian and egalitarian dimensions of the Fourteenth Amendment and offers a theory of the two strands. Available from Michigan Law Review, Hutchins Hall, Ann Arbor, MI 48109; single issues $3.50. (Author/IRT)

  15. Neurobrucellosis in Stranded Dolphins, Costa Rica

    PubMed Central

    Hernández-Mora, Gabriela; González-Barrientos, Rocío; Morales, Juan-Alberto; Chaves-Olarte, Esteban; Guzmán-Verri, Caterina; Baquero-Calvo, Elías; De-Miguel, María-Jesús; Marín, Clara-María; Blasco, José-María

    2008-01-01

    Ten striped dolphins, Stenella coeruleoalba, stranded along the Costa Rican Pacific coast, had meningoencephalitis and antibodies against Brucella spp. Brucella ceti was isolated from cerebrospinal fluid of 6 dolphins and 1 fetus. S. coeruleoalba constitutes a highly susceptible host and a potential reservoir for B. ceti transmission. PMID:18760012

  16. Determination of recovery length in spiral strands

    SciTech Connect

    Raoof, M.; Kraincanic, I.

    1994-12-31

    On the offshore scene, the ever growing demands placed on moorings for conventional semi-submersible platforms, coupled with the requirements for guys to new structural forms such as compliant towers has led to the use of larger and longer ropes and spiral strands. Much emphasis has recently been placed on suitable forms of discard criteria based on the remaining fatigue life (or strength) of the spiral strands and wire ropes. It is now well established that, depending on the type of cable (strand or rope) application, the influence of broken wires on the strength of the cable is not directly equivalent to a loss of area of steel: the number and distribution of wire breaks around a cable cross-section and also along its length are both important. With sufficient friction, a broken wire will be capable of supporting its total share of the load in a relatively short length called the recovery length. The determination of recovery length for any type of steel cable, therefore, is of importance as a first step towards developing realistic guidelines for cable discard criteria. The present paper presents a theoretical model for predicting the recovery length in any layer of an axially preloaded spiral strand. Based on a series of theoretical parametric studies, a straightforward method is proposed for obtaining reasonable estimates of variations in the recovery length in any layer of a strand with changes in the lay angle. In view of the simple nature of the final results, these should prove of interest to practicing engineers. Moreover, the final recommendations should prove of some value in the context of length effects associated with axial fatigue loading of cables under laboratory conditions which has recently attracted much attention: the question here is how to determine a minimum length for test specimens whose axial fatigue life under laboratory conditions may safely be used to represent those of the much longer cables in the field.

  17. High field superconductor development and understanding project, Final Report

    SciTech Connect

    Larbalestier, David C.; Lee, Peter J.

    2009-07-15

    Over 25 years the Applied Superconductivity Center at the University of Wisconsin-Madison provided a vital technical resource to the High Energy Physics community covering development in superconducting strand for HEP accelerator magnet development. In particular the work of the group has been to develop the next generation of high field superconductors for high field application. Grad students Mike Naus, Chad Fischer, Arno Godeke and Matt Jewell improved our understanding of the microstructure and microchemistry of Nb3Sn and their impact on the physical and mechanical properties. The success of this work has led to the continued funding of this work at the ASC after it moved to the NHMFL and also to direct funding from BNL for some aspects of Nb3Sn cable evaluation.

  18. Performance verification tests of JT-60SA CS model coil

    NASA Astrophysics Data System (ADS)

    Obana, Tetsuhiro; Murakami, Haruyuki; Takahata, Kazuya; Hamaguchi, Shinji; Chikaraishi, Hirotaka; Mito, Toshiyuki; Imagawa, Shinsaku; Kizu, Kaname; Natsume, Kyohei; Yoshida, Kiyoshi

    2015-11-01

    As a final check of the coil manufacturing method of the JT-60 Super Advanced (JT-60SA) central solenoid (CS), we verified the performance of a CS model coil. The model coil comprised a quad-pancake wound with a Nb3Sn cable-in-conduit conductor. Measurements of the critical current, joint resistance, pressure drop, and magnetic field were conducted in the verification tests. In the critical-current measurement, the critical current of the model coil coincided with the estimation derived from a strain of -0.62% for the Nb3Sn strands. As a result, critical-current degradation caused by the coil manufacturing process was not observed. The results of the performance verification tests indicate that the model coil met the design requirements. Consequently, the manufacturing process of the JT-60SA CS was established.

  19. RNA-catalysed synthesis of complementary-strand RNA

    NASA Astrophysics Data System (ADS)

    Doudna, Jennifer A.; Szostak, Jack W.

    1989-06-01

    The Tetrahymena ribozyme can splice together multiple oligonucleotides aligned on a template strand to yield a fully complementary product strand. This reaction demonstrates the feasibility of RNA-catalysed RNA replications.

  20. Evidence for hydrophobic catalysis of DNA strand exchange.

    PubMed

    Feng, B; Westerlund, F; Nordén, B

    2015-04-30

    The catalytic role of hydrophobic co-solutes in DNA strand exchange is demonstrated by FRET kinetics. Two mechanisms that contribute to this are base stacking destabilisation and nucleation-promoted DNA strand invasion. We propose that hydrophobic catalysis is involved in the strand-exchange activity of recombination enzymes.

  1. Fish stranding in freshwater systems: sources, consequences, and mitigation.

    PubMed

    Nagrodski, Alexander; Raby, Graham D; Hasler, Caleb T; Taylor, Mark K; Cooke, Steven J

    2012-07-30

    Fish can become stranded when water levels decrease, often rapidly, as a result of anthropogenic (e.g., canal drawdown, hydropeaking, vessel wakes) and natural (e.g., floods, drought, winter ice dynamics) events. We summarize existing research on stranding of fish in freshwater, discuss the sources, consequences, and mitigation options for stranding, and report current knowledge gaps. Our literature review revealed that ∼65.5% of relevant peer-reviewed articles were found to focus on stranding associated with hydropower operations and irrigation projects. In fact, anthropogenic sources of fish stranding represented 81.8% of available literature compared to only 19.9% attributed to natural fish stranding events. While fish mortality as a result of stranding is well documented, our analysis revealed that little is known about the sublethal and long-term consequences of stranding on growth and population dynamics. Furthermore, the contribution of stranding to annual mortality rates is poorly understood as are the potential ecosystem-scale impacts. Mitigation strategies available to deal with stranding include fish salvage, ramping rate limitations, and physical habitat works (e.g., to contour substrate to minimize stranding). However, a greater knowledge of the factors that cause fish stranding would promote the development and refinement of mitigation strategies that are economically and ecologically sustainable.

  2. The Parameter of Preposition Stranding: A View from Child English

    ERIC Educational Resources Information Center

    Sugisaki, Koji; Snyder, William

    2006-01-01

    In this squib we examine the time course of children's acquisition of English to evaluate the basic insights of Kayne's (1981; 1984) proposals on preposition stranding. Kayne argued that the availability of preposition stranding (P-stranding) in English is parametrically linked to the availability of double object datives and the prepositional…

  3. A Double-Strand Elastic Rod Theory

    NASA Astrophysics Data System (ADS)

    Moakher, Maher; Maddocks, John H.

    2005-07-01

    Motivated by applications in the modeling of deformations of the DNA double helix, we construct a continuum mechanics model of two elastically interacting elastic strands. The two strands are described in terms of averaged, or macroscopic, variables plus an additional small, internal or microscopic, perturbation. We call this composite structure a birod. The balance laws for the macroscopic configuration variables of the birod can be cast in the form of a classic Cosserat rod model with coupling to the internal balance laws through the constitutive relations. The internal balance laws for the microstructure variables also take a mathematical form analogous to that for a Cosserat rod, but with coupling to the macroscopic system through terms corresponding to distributed force and couple loads.

  4. Method and apparatus for testing a forward-moving strand

    DOEpatents

    Ducommun, Joel; Vulliens, Philippe

    1980-01-01

    In a method for testing a continuously forward-moving strand a light beam which passes along a plane that extends approximately perpendicularly to the longitudinal axis of the strand is introduced into the strand. The brightness value is measured on a place of the strand exterior which is distal from the light incidence place by means of at least one photoelectronic element disposed directly on the strand exterior and the measured result is evaluated in a gating circuit which is electrically connected to the photoelectronic element.

  5. Biological consequences of strand breaks in plasmid and viral DNA.

    PubMed Central

    Schulte-Frohlinde, D.

    1987-01-01

    Some biological consequences of strand breakage in biologically active single- and double-stranded plasmid and viral DNA are examined. A double-strand break in DNA produced by restriction-endonucleases in aqueous solution is not a 100% lethal damage. The survival depends strongly on the structure of the end groups. Evidence is presented that survival is the result of a balance between degradation and repair. The enzymatically produced double-strand break (dsb) is a potentially lethal damage similar to the irradiation-produced dsb in cells. Results with double-stranded biologically active DNA treated either with gamma-rays, heat, pancrease nuclease or UV-light in aqueous solution suggest that a single-strand damage is also a potentially lethal damage. Mechanisms for conversion of single-strand damage to lethal events are discussed. PMID:3307866

  6. The multiple personalities of Watson and Crick strands

    PubMed Central

    2011-01-01

    Background In genetics it is customary to refer to double-stranded DNA as containing a "Watson strand" and a "Crick strand." However, there seems to be no consensus in the literature on the exact meaning of these two terms, and the many usages contradict one another as well as the original definition. Here, we review the history of the terminology and suggest retaining a single sense that is currently the most useful and consistent. Proposal The Saccharomyces Genome Database defines the Watson strand as the strand which has its 5'-end at the short-arm telomere and the Crick strand as its complement. The Watson strand is always used as the reference strand in their database. Using this as the basis of our standard, we recommend that Watson and Crick strand terminology only be used in the context of genomics. When possible, the centromere or other genomic feature should be used as a reference point, dividing the chromosome into two arms of unequal lengths. Under our proposal, the Watson strand is standardized as the strand whose 5'-end is on the short arm of the chromosome, and the Crick strand as the one whose 5'-end is on the long arm. Furthermore, the Watson strand should be retained as the reference (plus) strand in a genomic database. This usage not only makes the determination of Watson and Crick unambiguous, but also allows unambiguous selection of reference stands for genomics. Reviewers This article was reviewed by John M. Logsdon, Igor B. Rogozin (nominated by Andrey Rzhetsky), and William Martin. PMID:21303550

  7. Amplification methods bias metagenomic libraries of uncultured single-stranded and double-stranded DNA viruses.

    PubMed

    Kim, Kyoung-Ho; Bae, Jin-Woo

    2011-11-01

    Investigation of viruses in the environment often requires the amplification of viral DNA before sequencing of viral metagenomes. In this study, two of the most widely used amplification methods, the linker amplified shotgun library (LASL) and multiple displacement amplification (MDA) methods, were applied to a sample from the seawater surface. Viral DNA was extracted from viruses concentrated by tangential flow filtration and amplified by these two methods. 454 pyrosequencing was used to read the metagenomic sequences from different libraries. The resulting taxonomic classifications of the viruses, their functional assignments, and assembly patterns differed substantially depending on the amplification method. Only double-stranded DNA viruses were retrieved from the LASL, whereas most sequences in the MDA library were from single-stranded DNA viruses, and double-stranded DNA viral sequences were minorities. Thus, the two amplification methods reveal different aspects of viral diversity.

  8. Method of preparing and applying single stranded DNA probes to double stranded target DNAs in situ

    DOEpatents

    Gray, Joe W.; Pinkel, Daniel

    1991-01-01

    A method is provided for producing single stranded non-self-complementary nucleic acid probes, and for treating target DNA for use therewith. Probe is constructed by treating DNA with a restriction enzyme and an exonuclease to form template/primers for a DNA polymerase. The digested strand is resynthesized in the presence of labeled nucleoside triphosphate precursor. Labeled single stranded fragments are separated from the resynthesized fragments to form the probe. Target DNA is treated with the same restriction enzyme used to construct the probe, and is treated with an exonuclease before application of the probe. The method significantly increases the efficiency and specificity of hybridization mixtures by increasing effective probe concentration by eliminating self-hybridization between both probe and target DNAs, and by reducing the amount of target DNA available for mismatched hybridizations.

  9. Method of preparing and applying single stranded DNA probes to double stranded target DNAs in situ

    DOEpatents

    Gray, J.W.; Pinkel, D.

    1991-07-02

    A method is provided for producing single stranded non-self-complementary nucleic acid probes, and for treating target DNA for use therewith. The probe is constructed by treating DNA with a restriction enzyme and an exonuclease to form template/primers for a DNA polymerase. The digested strand is resynthesized in the presence of labeled nucleoside triphosphate precursor. Labeled single stranded fragments are separated from the resynthesized fragments to form the probe. Target DNA is treated with the same restriction enzyme used to construct the probe, and is treated with an exonuclease before application of the probe. The method significantly increases the efficiency and specificity of hybridization mixtures by increasing effective probe concentration by eliminating self-hybridization between both probe and target DNAs, and by reducing the amount of target DNA available for mismatched hybridizations. No Drawings

  10. Strand invasion promoted by recombination protein of coliphage

    NASA Astrophysics Data System (ADS)

    Rybalchenko, Nataliya; Golub, Efim I.; Bi, Baoyuan; Radding, Charles M.

    2004-12-01

    Studies of phage in vivo have indicated that its own recombination enzymes, protein and exonuclease, are capable of catalyzing two dissimilar pathways of homologous recombination that are widely distributed in nature: single-strand annealing and strand invasion. The former is an enzymatic splicing of overlapping ends of broken homologous DNA molecules, whereas the latter is characterized by the formation of a three-stranded synaptic intermediate and subsequent strand exchange. Previous studies in vitro have shown that protein has annealing activity, and that exonuclease, acting on branched substrates, can produce a perfect splice that requires only ligation for completion. The present study shows that protein can initiate strand invasion in vitro, as evidenced both by the formation of displacement loops (D-loops) in superhelical DNA and by strand exchange between colinear single-stranded and double-stranded molecules. Thus, protein can catalyze steps that are central to both strand annealing and strand invasion pathways of recombination. These observations add protein to a set of diverse proteins that appear to promote recognition of homology by a unitary mechanism governed by the intrinsic dynamic properties of base pairs in DNA. genetic recombination | phage λ

  11. A strand graph semantics for DNA-based computation.

    PubMed

    Petersen, Rasmus L; Lakin, Matthew R; Phillips, Andrew

    2016-06-13

    DNA nanotechnology is a promising approach for engineering computation at the nanoscale, with potential applications in biofabrication and intelligent nanomedicine. DNA strand displacement is a general strategy for implementing a broad range of nanoscale computations, including any computation that can be expressed as a chemical reaction network. Modelling and analysis of DNA strand displacement systems is an important part of the design process, prior to experimental realisation. As experimental techniques improve, it is important for modelling languages to keep pace with the complexity of structures that can be realised experimentally. In this paper we present a process calculus for modelling DNA strand displacement computations involving rich secondary structures, including DNA branches and loops. We prove that our calculus is also sufficiently expressive to model previous work on non-branching structures, and propose a mapping from our calculus to a canonical strand graph representation, in which vertices represent DNA strands, ordered sites represent domains, and edges between sites represent bonds between domains. We define interactions between strands by means of strand graph rewriting, and prove the correspondence between the process calculus and strand graph behaviours. Finally, we propose a mapping from strand graphs to an efficient implementation, which we use to perform modelling and simulation of DNA strand displacement systems with rich secondary structure.

  12. Method for producing labeled single-stranded nucleic acid probes

    DOEpatents

    Dunn, John J.; Quesada, Mark A.; Randesi, Matthew

    1999-10-19

    Disclosed is a method for the introduction of unidirectional deletions in a cloned DNA segment. More specifically, the method comprises providing a recombinant DNA construct comprising a DNA segment of interest inserted in a cloning vector, the cloning vector having an f1 endonuclease recognition sequence adjacent to the insertion site of the DNA segment of interest. The recombinant DNA construct is then contacted with the protein pII encoded by gene II of phage f1 thereby generating a single-stranded nick. The nicked DNA is then contacted with E. coli Exonuclease III thereby expanding the single-stranded nick into a single-stranded gap. The single-stranded gapped DNA is then contacted with a single-strand-specific endonuclease thereby producing a linearized DNA molecule containing a double-stranded deletion corresponding in size to the single-stranded gap. The DNA treated in this manner is then incubated with DNA ligase under conditions appropriate for ligation. Also disclosed is a method for producing single-stranded DNA probes. In this embodiment, single-stranded gapped DNA, produced as described above, is contacted with a DNA polymerase in the presence of labeled nucleotides to fill in the gap. This DNA is then linearized by digestion with a restriction enzyme which cuts outside the DNA segment of interest. The product of this digestion is then denatured to produce a labeled single-stranded nucleic acid probe.

  13. Repair of DNA Double-Strand Breaks

    NASA Astrophysics Data System (ADS)

    Falk, Martin; Lukasova, Emilie; Kozubek, Stanislav

    The genetic information of cells continuously undergoes damage induced by intracellular processes including energy metabolism, DNA replication and transcription, and by environmental factors such as mutagenic chemicals and UV and ionizing radiation. This causes numerous DNA lesions, including double strand breaks (DSBs). Since cells cannot escape this damage or normally function with a damaged genome, several DNA repair mechanisms have evolved. Although most "single-stranded" DNA lesions are rapidly removed from DNA without permanent damage, DSBs completely break the DNA molecule, presenting a real challenge for repair mechanisms, with the highest risk among DNA lesions of incorrect repair. Hence, DSBs can have serious consequences for human health. Therefore, in this chapter, we will refer only to this type of DNA damage. In addition to the biochemical aspects of DSB repair, which have been extensively studied over a long period of time, the spatio-temporal organization of DSB induction and repair, the importance of which was recognized only recently, will be considered in terms of current knowledge and remaining questions.

  14. Why double-stranded RNA resists condensation.

    PubMed

    Tolokh, Igor S; Pabit, Suzette A; Katz, Andrea M; Chen, Yujie; Drozdetski, Aleksander; Baker, Nathan; Pollack, Lois; Onufriev, Alexey V

    2014-01-01

    The addition of small amounts of multivalent cations to solutions containing double-stranded DNA leads to inter-DNA attraction and eventual condensation. Surprisingly, the condensation is suppressed in double-stranded RNA, which carries the same negative charge as DNA, but assumes a different double helical form. Here, we combine experiment and atomistic simulations to propose a mechanism that explains the variations in condensation of short (25 base-pairs) nucleic acid (NA) duplexes, from B-like form of homopolymeric DNA, to mixed sequence DNA, to DNA:RNA hybrid, to A-like RNA. Circular dichroism measurements suggest that duplex helical geometry is not the fundamental property that ultimately determines the observed differences in condensation. Instead, these differences are governed by the spatial variation of cobalt hexammine (CoHex) binding to NA. There are two major NA-CoHex binding modes--internal and external--distinguished by the proximity of bound CoHex to the helical axis. We find a significant difference, up to 5-fold, in the fraction of ions bound to the external surfaces of the different NA constructs studied. NA condensation propensity is determined by the fraction of CoHex ions in the external binding mode.

  15. recA protein-catalyzed strand assimilation: stimulation by Escherichia coli single-stranded DNA-binding protein.

    PubMed Central

    McEntee, K; Weinstock, G M; Lehman, I R

    1980-01-01

    The single-stranded DNA-binding protein of Escherichia coli significantly alters the strand assimilation reaction catalyzed by recA protein [McEntee, K., Weinstock, G. M. & Lehman, I. R. (1979) Proc. Natl. Acad. Sci. USA 76, 2615--2619]. The binding protein (i) increases the rate and extent of strand assimilation into homologous duplex DNA, (ii) enhances the formation of a complex between recA protein and duplex DNA in the presence of homologous or heterologous single-stranded DNA, (iii) reduces the rate and extent of ATP hydrolysis catalyzed by recA protein in the presence of single-stranded DNA, (iv) reduces the high concentration of recA protein required for strand assimilation, and (v) permits detection of strand assimilation in the presence of the ATP analog, adenosine 5'-O-(O-thiotriphosphate). Single-stranded DNA-binding protein purified from a binding protein mutant (lexC) is considerably less effective than wild-type binding protein in stimulating strand assimilation, a result which suggests that single-stranded DNA-binding protein participates in general recombination in vivo. PMID:6244589

  16. Translocation of double strand DNA into a biological nanopore

    NASA Astrophysics Data System (ADS)

    Chatkaew, Sunita; Mlayeh, Lamia; Leonetti, Marc; Homble, Fabrice

    2009-03-01

    Translocation of double strand DNA across a unique mitochondrial biological nanopore (VDAC) is observed by an electrophysiological method. Characteristics of opened and sub-conductance states of VDAC are studied. When the applied electric potential is beyond ± 20 mV, VDAC transits to a sub-conductance state. Plasmids (circular double strand DNA) with a diameter greater than that of the channel shows the current reduction into the channel during the interaction but the state with zero-current is not observed. On the contrary, the interaction of linear double strand DNA with the channel shows the current reduction along with the zero-current state. These show the passages of linear double strand DNA across the channel and the electrostatic effect due to the surface charges of double strand DNA and channel for circular and linear double strand DNA.

  17. Strong gold atom strands formed by incorporation of carbon atoms

    NASA Astrophysics Data System (ADS)

    Oshima, Yoshifumi; Kurui, Yoshihiko; Nguyen, Huy Duy; Ono, Tomoya; Takayanagi, Kunio

    2011-07-01

    Single metal atom strands have attracted significant interest because of their unique properties, such as quantization effects and a high degree of strength. Recently it was suggested that the strength of a gold atom strand can be enhanced by the insertion of an impurity atom, but it has not been experimentally investigated. Using a transmission electron microscope under ultrahigh vacuum conditions, we observed that gold atoms were pulled out one by one from a carbon-contaminated gold (111) surface to form a long atom strand. The strand was so strong that it did not break even upon bending. Supported by first-principles calculations, the strand was found to have two carbon atoms at each gold atom interval. Our observations suggest that the carbon atoms act as a glue to form a long gold atom strand.

  18. Atomic force microscopy of single- and double-stranded DNA.

    PubMed Central

    Hansma, H G; Sinsheimer, R L; Li, M Q; Hansma, P K

    1992-01-01

    A method has been developed for imaging single-stranded DNA with the atomic force microscope (AFM). phi X174 single-stranded DNA in formaldehyde on mica can be imaged in the AFM under propanol or butanol or in air. Measured lengths of most molecules are on the order of 1 mu, although occasionally more extended molecules with lengths of 1.7 to 1.9 mu are seen. Single-stranded DNA in the AFM generally appears lumpier than double-stranded DNA, even when extended. Images of double-stranded lambda DNA in the AFM show more sharp kinks and bends than are typically observed in the electron microscope. Dense, aggregated fields of double-stranded plasmids can be converted by gentle rinsing with hot water to well spread fields. Images PMID:1386422

  19. DNA Strand Breaks, Neurodegeneration and Aging in the Brain

    PubMed Central

    Katyal, Sachin; McKinnon, Peter J.

    2013-01-01

    Defective responses to DNA single- or double-strand breaks can result in neurological disease, underscoring the critical importance of DNA repair for neural homeostasis. Human DNA repair-deficient syndromes are generally congenital, in which brain pathology reflects the consequences of developmentally incurred DNA damage. Although, it is unclear to what degree DNA strand-break repair defects in mature neural cells contributes to disease pathology. However, DNA single-strand breaks are a relatively common lesion which if not repaired can impact cells via interference with transcription. Thus, this lesion, and probably to a lesser extent DNA double strand breaks, may be particularly relevant to aging in the neural cell population. In this review we will examine the consequences of defective DNA strand break repair towards homeostasis in the brain. Further, we also consider the utility of mouse models as reagents to understand the connection between DNA strand breaks and aging in the brain. PMID:18455751

  20. Establishing a Marine Mammal Stranding Network in the Bahamas

    DTIC Science & Technology

    2008-01-01

    Marine Mammal Stranding Network in the Bahamas Diane Elaine Claridge Bahamas Marine Mammal Research Organisation P.O. Box AB...are to establish a marine mammal stranding network in the Bahamas to better understand the conservation needs of marine mammals in the Bahamas, with...well as the biology of marine mammals . The stranding network will be structured so that it will become self-sufficient and able to continue into

  1. New progress of ITER-PF strand production in WST

    NASA Astrophysics Data System (ADS)

    Li, J. F.; Liu, W. T.; Yan, L. X.; H, J.; Gao, H. X.; Liu, J. W.; Du, S. J.; Liu, X. H.; Feng, Y.; Zhang, P. X.; Liu, S.; Li, H. W.; Niu, E. W.

    2014-05-01

    ITER Poloidal Field (PF) systems consist of 6 independent coils with different dimensions and require NbTi superconductor and copper strands. Western Superconducting Technologies Co.,Ltd.(WST) will supply PF2-5 NbTi strand for ITER, and over 14,000 km of NbTi strands have been produced in the past two years. Main performance of NbTi strands, including critical current, n value, wire diameter, Cu/non-Cu ratio, hysteresis loss and RRR are reported and analysed in this paper.

  2. Regulation of DNA Strand Displacement Using Allosteric DNA Toehold.

    PubMed

    Yang, Xiaolong; Tang, Yanan; Traynor, Sarah M; Li, Feng

    2016-10-05

    Toehold-mediated DNA strand displacement is the fundamental basis for the construction and operation of diverse DNA devices, including circuits, machines, sensors, and reconfigurable structures. Controllable activation and regulation of toeholds are critical to construct devices with multistep, autonomous, and complex behaviors. A handful of unique toehold activation mechanisms, including toehold-exchange, associative toehold, and remote toehold, have been developed and are often combined to achieve desired strand displacement behaviors and functions. Here we report an allosteric DNA toehold (A-toehold) design that allows the flexible regulation of DNA strand displacement by splitting an input strand into an A-toehold and branch migration domain. Because of its simplicity, the A-toehold mechanism can be a useful addition to the current toolbox of DNA strand displacement techniques. We demonstrated that A-toehold enabled a number of interesting functions that were previously shown using more sophisticated DNA strand displacement systems, including 1) continuously tuning the rate of strand displacement, 2) dynamic control of strand displacement reactions, and 3) selective activation of multiple strand displacement reactions. Moreover, by combining A-toehold and toehold-exchange mechanisms, we have successfully constructed a non-covalent DNA catalysis network that resembles an allosteric enzyme.

  3. A methodology to identify stranded generation facilities and estimate stranded costs for Louisiana's electric utility industry

    NASA Astrophysics Data System (ADS)

    Cope, Robert Frank, III

    1998-12-01

    The electric utility industry in the United States is currently experiencing a new and different type of growing pain. It is the pain of having to restructure itself into a competitive business. Many industry experts are trying to explain how the nation as a whole, as well as individual states, will implement restructuring and handle its numerous "transition problems." One significant transition problem for federal and state regulators rests with determining a utility's stranded costs. Stranded generation facilities are assets which would be uneconomic in a competitive environment or costs for assets whose regulated book value is greater than market value. At issue is the methodology which will be used to estimate stranded costs. The two primary methods are known as "Top-Down" and "Bottom-Up." The "Top-Down" approach simply determines the present value of the losses in revenue as the market price for electricity changes over a period of time into the future. The problem with this approach is that it does not take into account technical issues associated with the generation and wheeling of electricity. The "Bottom-Up" approach computes the present value of specific strandable generation facilities and compares the resulting valuations with their historical costs. It is regarded as a detailed and difficult, but more precise, approach to identifying stranded assets and their associated costs. This dissertation develops a "Bottom-Up" quantitative, optimization-based approach to electric power wheeling within the state of Louisiana. It optimally evaluates all production capabilities and coordinates the movement of bulk power through transmission interconnections of competing companies in and around the state. Sensitivity analysis to this approach is performed by varying seasonal consumer demand, electric power imports, and transmission inter-connection cost parameters. Generation facility economic dispatch and transmission interconnection bulk power transfers, specific

  4. Why double-stranded RNA resists condensation

    SciTech Connect

    Tolokh, Igor S.; Pabit, Suzette; Katz, Andrea M.; Chen, Yujie; Drozdetski, Aleksander; Baker, Nathan A.; Pollack, Lois; Onufriev, Alexey

    2014-09-15

    The addition of small amounts of multivalent cations to solutions containing double-stranded DNA leads to attraction between the negatively charged helices and eventually to condensation. Surprisingly, this effect is suppressed in double-stranded RNA, which carries the same charge as the DNA, but assumes a different double helical form. However, additional characterization of short (25 base-pairs) nucleic acid (NA) duplex structures by circular dichroism shows that measured differences in condensation are not solely determined by duplex helical geometry. Here we combine experiment, theory, and atomistic simulations to propose a mechanism that connects the observed variations in condensation of short NA duplexes with the spatial variation of cobalt hexammine (CoHex) binding at the NA duplex surface. The atomistic picture that emerged showed that CoHex distributions around the NA reveals two major NA-CoHex binding modes -- internal and external -- distinguished by the proximity of bound CoHex to the helical axis. Decreasing trends in experimentally observed condensation propensity of the four studied NA duplexes (from B-like form of homopolymeric DNA, to mixed sequence DNA, to DNA:RNA hybrid, to A-like RNA) are explained by the progressive decrease of a single quantity: the fraction of CoHex ions in the external binding mode. Thus, while NA condensation depends on a complex interplay between various structural and sequence features, our coupled experimental and theoretical results suggest a new model in which a single parameter connects the NA condensation propensity with geometry and sequence dependence of CoHex binding.

  5. Progress in the Long $${\\rm Nb}_{3}{\\rm Sn}$$ Quadrupole R&D by LARP

    DOE PAGES

    Ambrosio, G.; Andreev, N.; Anerella, M.; ...

    2011-11-14

    After the successful test of the first long Nb3Sn quadrupole (LQS01) the US LHC Accelerator Research Program (LARP, a collaboration of BNL, FNAL, LBNL and SLAC) is assessing training memory, reproducibility, and other accelerator quality features of long Nb3Sn quadrupole magnets. LQS01b (a reassembly of LQS01 with more uniform and higher pre-stress) was subjected to a full thermal cycle and reached the previous plateau of 222 T/m at 4.5 K in two quenches. A new set of four coils, made of the same type of conductor used in LQS01 (RRP 54/61 by Oxford Superconducting Technology), was assembled in the LQS01more » structure and tested at 4.5 K and lower temperatures. The new magnet (LQS02) reached the target gradient (200 T/m) only at 2.6 K and lower temperatures, at intermediate ramp rates. The preliminary test analysis, here reported, showed a higher instability in the limiting coil than in the other coils of LQS01 and LQS02.« less

  6. TOPICAL REVIEW: Prospects for improving the intrinsic and extrinsic properties of magnesium diboride superconducting strands

    NASA Astrophysics Data System (ADS)

    Collings, E. W.; Sumption, M. D.; Bhatia, M.; Susner, M. A.; Bohnenstiehl, S. D.

    2008-10-01

    many cases less than 15% of the conductor's cross-sectional area is able to carry transport current. It is pointed out that densification in association with the elimination of grain-boundary blocking phases would yield fivefold-to-tenfold increases in Jc in relevant regimes, enabling the performance of MgB2 in selected applications to compete with that of Nb3Sn.

  7. New insights on single-stranded versus double-stranded DNA library preparation for ancient DNA.

    PubMed

    Wales, Nathan; Carøe, Christian; Sandoval-Velasco, Marcela; Gamba, Cristina; Barnett, Ross; Samaniego, José Alfredo; Madrigal, Jazmín Ramos; Orlando, Ludovic; Gilbert, M Thomas P

    2015-12-01

    An innovative single-stranded DNA (ssDNA) library preparation method has sparked great interest among ancient DNA (aDNA) researchers, especially after reports of endogenous DNA content increases >20-fold in some samples. To investigate the behavior of this method, we generated ssDNA and conventional double-stranded DNA (dsDNA) libraries from 23 ancient and historic plant and animal specimens. We found ssDNA library preparation substantially increased endogenous content when dsDNA libraries contained <3% endogenous DNA, but this enrichment is less pronounced when dsDNA preparations successfully recover short endogenous DNA fragments (mean size < 70 bp). Our findings can help researchers determine when to utilize the time- and resource-intensive ssDNA library preparation method.

  8. Saliva of Lygus lineolaris digests double stranded ribonucleic acids

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The prospects for development of highly specific pesticides based on double stranded ribonucleic acid have been a recent focus of scientific research. Creative applications have been proposed and demonstrated. However, not all insects are sensitive to double stranded RNA (dsRNA) gene knockdown effec...

  9. 75 FR 4104 - Prestressed Concrete Steel Wire Strand From China

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-01-26

    ... COMMISSION Prestressed Concrete Steel Wire Strand From China AGENCY: United States International Trade... concrete steel wire strand, provided for in subheading 7312.10.30 of the Harmonized Tariff Schedule of the... suitable for use in prestressed concrete (both pre-tensioned and post- tensioned) applications. The...

  10. The economics of stranded investment - a two-way street

    SciTech Connect

    Cearley, R.; McKinzie, L.

    1995-11-01

    In the transition to deregulation, the risk, costs and benefits of utility assets are transferred from the customer to the investor, creating potential stranded benefits as well as stranded costs. Investors may be better or worse off depending on whether an asset`s cost is below or above market. Regulators can minimize unintended wealth transfers by compensating each potential loser in the transition. The amount of investment stranded - i.e., the portion of plant that is above market value - does seem to be a murky issue. This article sets a framework for evaluating stranded investment and traces the possible welfare effects of different policies to address it. It defines {open_quote}stranded costs,{close_quote} {open_quote}stranded investment,{close_quote} and {open_quote}stranded benefits.{close_quote} It addresses their interrelationship, and shows that the redefinition of property rights during the transition to a competitive market is what leads to stranded investment. The elimination of the utility`s exclusive franchise - i.e., its obligation to serve and customers` obligation to pay - leads to the redefinition of those property rights as they pertain to the costs, benefits and risks associated with existing utility generation. Finally, the authors address the possible welfare implications from this transition.

  11. Alpha Helices Are More Robust to Mutations than Beta Strands

    PubMed Central

    Abrusán, György

    2016-01-01

    The rapidly increasing amount of data on human genetic variation has resulted in a growing demand to identify pathogenic mutations computationally, as their experimental validation is currently beyond reach. Here we show that alpha helices and beta strands differ significantly in their ability to tolerate mutations: helices can accumulate more mutations than strands without change, due to the higher numbers of inter-residue contacts in helices. This results in two patterns: a) the same number of mutations causes less structural change in helices than in strands; b) helices diverge more rapidly in sequence than strands within the same domains. Additionally, both helices and strands are significantly more robust than coils. Based on this observation we show that human missense mutations that change secondary structure are more likely to be pathogenic than those that do not. Moreover, inclusion of predicted secondary structure changes shows significant utility for improving upon state-of-the-art pathogenicity predictions. PMID:27935949

  12. Relationship between marine mammal stranding events and offshore earthquakes

    NASA Astrophysics Data System (ADS)

    Grant, Rachel; Savirina, Anna; Hoppit, Will

    2014-05-01

    The causes of marine mammal stranding events are largely unknown, but may relate to ocean currents, severe weather, anthropogenic noise pollution, and other factors. Large stranding events have been suggested to occur as a result of offshore earthquakes but there is little evidence as yet to support this hypothesis. Stranding events occur in hotspots, which are sometimes areas of high seismic activity, such as Taiwan, and other times, in areas that are removed from seismic zones, such as Cape Cod. We analyse a large and robust dataset of marine mammal stranding data collected off the coast of Washington and Oregon from 1999 to 2010, to look for statistical connections to offshore earthquakes. We looked forward, as well as backward in time from significant seismic events, to ascertain whether stranding occurrences, if connected to earthquakes, are a result of the earthquake preparation period or the earthquake itself. Possible mechanisms are discussed.

  13. Computing in mammalian cells with nucleic acid strand exchange

    PubMed Central

    Pochekailov, Sergii; Kirschman, Jonathan L.; Santangelo, Philip J.; Seelig, Georg

    2015-01-01

    DNA strand displacement has been widely used for the design of molecular circuits, motors, and sensors in cell-free settings. Recently, it has been shown that this technology can also operate in biological environments, but capabilities remain limited. Here, we look to adapt strand displacement and exchange reactions to mammalian cells and report DNA circuitry that can directly interact with a native mRNA. We began by optimizing the cellular performance of fluorescent reporters based on four-way strand exchange reactions and identified robust design principles by systematically varying the molecular structure, chemistry and delivery method. Next, we developed and tested AND and OR logic gates based on four-way strand exchange, demonstrating the feasibility of multi-input logic. Finally, we established that functional siRNA could be activated through strand exchange, and used native mRNA as programmable scaffolds for co-localizing gates and visualizing their operation with subcellular resolution. PMID:26689378

  14. Computing in mammalian cells with nucleic acid strand exchange

    NASA Astrophysics Data System (ADS)

    Groves, Benjamin; Chen, Yuan-Jyue; Zurla, Chiara; Pochekailov, Sergii; Kirschman, Jonathan L.; Santangelo, Philip J.; Seelig, Georg

    2016-03-01

    DNA strand displacement has been widely used for the design of molecular circuits, motors, and sensors in cell-free settings. Recently, it has been shown that this technology can also operate in biological environments, but capabilities remain limited. Here, we look to adapt strand displacement and exchange reactions to mammalian cells and report DNA circuitry that can directly interact with a native mRNA. We began by optimizing the cellular performance of fluorescent reporters based on four-way strand exchange reactions and identified robust design principles by systematically varying the molecular structure, chemistry and delivery method. Next, we developed and tested AND and OR logic gates based on four-way strand exchange, demonstrating the feasibility of multi-input logic. Finally, we established that functional siRNA could be activated through strand exchange, and used native mRNA as programmable scaffolds for co-localizing gates and visualizing their operation with subcellular resolution.

  15. Stranded investment, prices and privacy factor in FERC rulings

    SciTech Connect

    O`Driscoll, M.

    1993-07-16

    The Federal Energy Regulatory Commission upheld its rejection of United Illuminating Co.`s bid to recover stranded investment costs. Since UI has no wholesale customers, it is a matter best left to state regulators, FERC said. UI`s stranded investment recovery plan was part of the company`s transmission access tariff, which provides for open access transmission service at cost-based rates. FERC ordered UI to delete the stranded investment provisions, saying UI was trying to recover in its wholesale transmission rates the costs of generation facility investments that were incurred to provide service to retail customers that leave its system, reasoning that UI was seeking protection from what may be legitimate retail franchise competition, which is a state matter. UI, however, said deleting the stranded investment provision would preclude it from arguing in an individual rate filling under the transmission tariff that stranded investment costs should be borne by the wheeling customer.

  16. Dynamic DNA nanotechnology using strand-displacement reactions

    NASA Astrophysics Data System (ADS)

    Zhang, David Yu; Seelig, Georg

    2011-02-01

    The specificity and predictability of Watson-Crick base pairing make DNA a powerful and versatile material for engineering at the nanoscale. This has enabled the construction of a diverse and rapidly growing set of DNA nanostructures and nanodevices through the programmed hybridization of complementary strands. Although it had initially focused on the self-assembly of static structures, DNA nanotechnology is now also becoming increasingly attractive for engineering systems with interesting dynamic properties. Various devices, including circuits, catalytic amplifiers, autonomous molecular motors and reconfigurable nanostructures, have recently been rationally designed to use DNA strand-displacement reactions, in which two strands with partial or full complementarity hybridize, displacing in the process one or more pre-hybridized strands. This mechanism allows for the kinetic control of reaction pathways. Here, we review DNA strand-displacement-based devices, and look at how this relatively simple mechanism can lead to a surprising diversity of dynamic behaviour.

  17. Markers of Decompression Stress of Mass Stranded/Live Caught and Released vs. Single Stranded Marine Mammals

    DTIC Science & Technology

    2012-09-30

    University of Pennsylvania Philadelphia PA 19104 Kathleen Moore International Fund for Animal Welfare Yarmouth Port MA 02675 Randall Wells...stress in cetaceans . After undertaking a baseline experiment in Steller sea lions, this project will compare and contrast health, body condition, and...presence of bubbles with markers for decompression stress in mass stranded cetaceans , and compare these indices with single stranded individuals

  18. Vacuum brazing of carbon nanotube strands

    NASA Astrophysics Data System (ADS)

    Wu, Wei

    Carbon nanotubes (CNTs) discovered at 1991 have attracted great interest for applications in Nano-Electro-Mechanical-Systems (NEMS). However, the search for methods to join CNTs with metallic parts has been a worldwide challenge. Many efforts have been devoted to manipulating individual CNTs and joining them to each other. Joining processes so far attempted are premature and fall short of efficiency for joint quality evaluation. Thus, it has been found necessary to work on macro CNTs strands which are easy to handle via macro joining techniques. In this study, vacuum brazing technology has been developed for joining macro CNTs strands with Ni using a Ti-Ag-Cu alloy. The brazing mechanism has been confirmed as due to TiC formation at the CNTs/Ti-Ag-Cu interface. To evaluate this novel vacuum brazing technique for CNTs joining, the temperature effect on the brazing mechanism, microstructure and stoichiometry at joint interface needed to be understood. Firstly, the influence of temperature (from room temperature to 1000°C) on mechanical behaviour of CNTs was well examined. The ultimate tensile strength (UTS) of CNTs was measured to be a maximum at 900°C. Then, the mechanical performance of the joints was investigated from 850°C to 1000°C, and the fracture modes of the joints were identified. The UTS of joint also achieves maximum at 900°C. Below 900°C, due to little TiC formation, the bonding is weak thus leading to interfacial fracture. Above 900°C, due to much TiC formation, the bonding is strong thus resulting in CNTs fracture. Furthermore, the vacuum brazing technique was applied to join CNTs to Ni contact wires used as a lamp filament. Compared to the filament joined by Ag paste or mechanical connection, the illumination of the brazed CNTs filament was stronger. The current density of the brazed filament was superior to the Ag paste connected filament. This may represent a promising way to produce energy saving lamps.

  19. A double-stranded DNA rotaxane.

    PubMed

    Ackermann, Damian; Schmidt, Thorsten L; Hannam, Jeffrey S; Purohit, Chandra S; Heckel, Alexander; Famulok, Michael

    2010-06-01

    Mechanically interlocked molecules such as rotaxanes and catenanes have potential as components of molecular machinery. Rotaxanes consist of a dumb-bell-shaped molecule encircled by a macrocycle that can move unhindered along the axle, trapped by bulky stoppers. Previously, rotaxanes have been made from a variety of molecules, but not from DNA. Here, we report the design, assembly and characterization of rotaxanes in which both the dumb-bell-shaped molecule and the macrocycle are made of double-stranded DNA, and in which the axle of the dumb-bell is threaded through the macrocycle by base pairing. The assembly involves the formation of pseudorotaxanes, in which the macrocycle and the axle are locked together by hybridization. Ligation of stopper modules to the axle leads to the characteristic dumb-bell topology. When an oligonucleotide is added to release the macrocycle from the axle, the pseudorotaxanes are either converted to mechanically stable rotaxanes, or they disassemble by means of a slippage mechanism to yield a dumb-bell and a free macrocycle. Our DNA rotaxanes allow the fields of mechanically interlocked molecules and DNA nanotechnology to be combined, thus opening new possibilities for research into molecular machines and synthetic biology.

  20. A double-stranded DNA rotaxane

    NASA Astrophysics Data System (ADS)

    Ackermann, Damian; Schmidt, Thorsten L.; Hannam, Jeffrey S.; Purohit, Chandra S.; Heckel, Alexander; Famulok, Michael

    2010-06-01

    Mechanically interlocked molecules such as rotaxanes and catenanes have potential as components of molecular machinery. Rotaxanes consist of a dumb-bell-shaped molecule encircled by a macrocycle that can move unhindered along the axle, trapped by bulky stoppers. Previously, rotaxanes have been made from a variety of molecules, but not from DNA. Here, we report the design, assembly and characterization of rotaxanes in which both the dumb-bell-shaped molecule and the macrocycle are made of double-stranded DNA, and in which the axle of the dumb-bell is threaded through the macrocycle by base pairing. The assembly involves the formation of pseudorotaxanes, in which the macrocycle and the axle are locked together by hybridization. Ligation of stopper modules to the axle leads to the characteristic dumb-bell topology. When an oligonucleotide is added to release the macrocycle from the axle, the pseudorotaxanes are either converted to mechanically stable rotaxanes, or they disassemble by means of a slippage mechanism to yield a dumb-bell and a free macrocycle. Our DNA rotaxanes allow the fields of mechanically interlocked molecules and DNA nanotechnology to be combined, thus opening new possibilities for research into molecular machines and synthetic biology.

  1. Parasites in stranded cetaceans of Patagonia.

    PubMed

    Berón-Vera, Bárbara; Crespo, Enrique A; Raga, Juan A

    2008-08-01

    There is an increasing interest in parasites of marine mammals of Argentina. Here, we examined several poorly known cetaceans, i.e., 2 spectacled porpoises and 1 Burmeister's porpoise (Phocoenidae), and 1 Gray's beaked whale and 1 Cuvier's beaked whale (Ziphidae); we also updated the parasite information for 1 sperm whale (Physeteridae). These hosts strand only occasionally. We found Anisakis simplex s.l. in 2 spectacled porpoises and the Burmeister's porpoise, and recorded its distribution among the stomach chambers. Anisakis physeteris infected the sperm whale; Corynosoma cetaceum occurred in the duodenal ampulla of the Burmeister's porpoise; Corynosoma australe was found in the posterior-most region of the intestine of 1 spectacled porpoise, while another one had Tetrabothrius sp. in the anal crypts; Corynosoma bullosum and Corynosoma sp. were found in the sperm whale. The only digenean found was Pholeter gastrophilus in the Burmeister's porpoise. Merocercoids of Phyllobothrium delphini were present in the blubber of 1 spectacled porpoise, the sperm whale, and the Gray's beaked whale, while Scolex pleuronectis infected the Gray's beaked whale and 1 spectacled porpoise. No parasites were recovered from the Cuvier's beaked whale. Poor parasite-species assemblages are consistent in marine mammals of Patagonia. Given the conservation status of these hosts, the limited parasitological information gathered is valuable for conservation or management of these hosts in Patagonia.

  2. Recombination in Eukaryotic Single Stranded DNA Viruses

    PubMed Central

    Martin, Darren P.; Biagini, Philippe; Lefeuvre, Pierre; Golden, Michael; Roumagnac, Philippe; Varsani, Arvind

    2011-01-01

    Although single stranded (ss) DNA viruses that infect humans and their domesticated animals do not generally cause major diseases, the arthropod borne ssDNA viruses of plants do, and as a result seriously constrain food production in most temperate regions of the world. Besides the well known plant and animal-infecting ssDNA viruses, it has recently become apparent through metagenomic surveys of ssDNA molecules that there also exist large numbers of other diverse ssDNA viruses within almost all terrestrial and aquatic environments. The host ranges of these viruses probably span the tree of life and they are likely to be important components of global ecosystems. Various lines of evidence suggest that a pivotal evolutionary process during the generation of this global ssDNA virus diversity has probably been genetic recombination. High rates of homologous recombination, non-homologous recombination and genome component reassortment are known to occur within and between various different ssDNA virus species and we look here at the various roles that these different types of recombination may play, both in the day-to-day biology, and in the longer term evolution, of these viruses. We specifically focus on the ecological, biochemical and selective factors underlying patterns of genetic exchange detectable amongst the ssDNA viruses and discuss how these should all be considered when assessing the adaptive value of recombination during ssDNA virus evolution. PMID:21994803

  3. Recombination in eukaryotic single stranded DNA viruses.

    PubMed

    Martin, Darren P; Biagini, Philippe; Lefeuvre, Pierre; Golden, Michael; Roumagnac, Philippe; Varsani, Arvind

    2011-09-01

    Although single stranded (ss) DNA viruses that infect humans and their domesticated animals do not generally cause major diseases, the arthropod borne ssDNA viruses of plants do, and as a result seriously constrain food production in most temperate regions of the world. Besides the well known plant and animal-infecting ssDNA viruses, it has recently become apparent through metagenomic surveys of ssDNA molecules that there also exist large numbers of other diverse ssDNA viruses within almost all terrestrial and aquatic environments. The host ranges of these viruses probably span the tree of life and they are likely to be important components of global ecosystems. Various lines of evidence suggest that a pivotal evolutionary process during the generation of this global ssDNA virus diversity has probably been genetic recombination. High rates of homologous recombination, non-homologous recombination and genome component reassortment are known to occur within and between various different ssDNA virus species and we look here at the various roles that these different types of recombination may play, both in the day-to-day biology, and in the longer term evolution, of these viruses. We specifically focus on the ecological, biochemical and selective factors underlying patterns of genetic exchange detectable amongst the ssDNA viruses and discuss how these should all be considered when assessing the adaptive value of recombination during ssDNA virus evolution.

  4. Stranded costs: So what's the worry?

    SciTech Connect

    Graniere, R.J.

    1999-07-01

    This article is not concerned with the pros and cons of transforming a no-entry market into a market with unrestricted entry. The concern, instead, is with establishing the economic conditions under which stranded costs afflict the incumbents in a no-entry market undergoing a transformation to a market with unrestricted entry. What matters is an incumbent's cost structure in comparison to an entrant's cost structure. Section 1 presents a general model for a restructured electricity industry. Section 2 provides the 2 x 2 x 2 version of the model in which an incumbent and an entrant compete for the business of two customers. The intermediate bottleneck services are supplied by a regulated monopolist that does not behave anticompetitively in an effort to favor the incumbent. Section 3 contains the graphical analysis of the 2 x 2 x 2 model that is restricted to economic activity in a competitive generation market. Section 4 discusses the results of the graphical analysis that are pertinent to regulatory authorities. Section 5 sets out the conclusions derived from the analysis.

  5. 75 FR 27294 - Proposed Information Collection; Comment Request; Marine Mammal Stranding Report/Marine Mammal...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-05-14

    ... Mammal Stranding Report/Marine Mammal Rehabilitation Disposition Report AGENCY: National Oceanic and... mammal stranding report provides information on strandings so that the National Marine Fisheries Service... facilities. This information is submitted primarily by volunteer members of the marine mammal...

  6. Towards quantitative viromics for both double-stranded and single-stranded DNA viruses

    PubMed Central

    Roux, Simon; Solonenko, Natalie E.; Dang, Vinh T.; Poulos, Bonnie T.; Schwenck, Sarah M.; Goldsmith, Dawn B.; Coleman, Maureen L.; Breitbart, Mya

    2016-01-01

    Background Viruses strongly influence microbial population dynamics and ecosystem functions. However, our ability to quantitatively evaluate those viral impacts is limited to the few cultivated viruses and double-stranded DNA (dsDNA) viral genomes captured in quantitative viral metagenomes (viromes). This leaves the ecology of non-dsDNA viruses nearly unknown, including single-stranded DNA (ssDNA) viruses that have been frequently observed in viromes, but not quantified due to amplification biases in sequencing library preparations (Multiple Displacement Amplification, Linker Amplification or Tagmentation). Methods Here we designed mock viral communities including both ssDNA and dsDNA viruses to evaluate the capability of a sequencing library preparation approach including an Adaptase step prior to Linker Amplification for quantitative amplification of both dsDNA and ssDNA templates. We then surveyed aquatic samples to provide first estimates of the abundance of ssDNA viruses. Results Mock community experiments confirmed the biased nature of existing library preparation methods for ssDNA templates (either largely enriched or selected against) and showed that the protocol using Adaptase plus Linker Amplification yielded viromes that were ±1.8-fold quantitative for ssDNA and dsDNA viruses. Application of this protocol to community virus DNA from three freshwater and three marine samples revealed that ssDNA viruses as a whole represent only a minor fraction (<5%) of DNA virus communities, though individual ssDNA genomes, both eukaryote-infecting Circular Rep-Encoding Single-Stranded DNA (CRESS-DNA) viruses and bacteriophages from the Microviridae family, can be among the most abundant viral genomes in a sample. Discussion Together these findings provide empirical data for a new virome library preparation protocol, and a first estimate of ssDNA virus abundance in aquatic systems. PMID:28003936

  7. Ultrastructural evidence for intramolecular double stranding in iota-carrageenan.

    PubMed

    Abeysekera, R M; Bergström, E T; Goodall, D M; Norton, I T; Robards, A W

    1993-10-04

    Kinetic studies of primary processes of conformational ordering in gel-forming biopolymers have suggested that a change in mechanism from intermolecular to intramolecular multistrand formation occurs on lowering the concentration of biopolymer. We report here ultrastructural observations consistent with intramolecular double stranding in a carbohydrate polymer, iota-carrageenan, by arresting this process of primary conformational ordering by an ultra-rapid freeze fixation technique. High-resolution transmission electron microscopy (TEM) revealed isolated iota-carrageenan chains showing a range of morphologies (linear, circular, and hairpin) consistent with intramolecular stranding. Control experiments in which iota-carrageenan was frozen in the disordered form revealed longer and thinner strands.

  8. Test and Analysis of 4 Technology Quadrupole Shell (TQS) models for LARP

    SciTech Connect

    Caspi, S.; Ambrosio, G.; Andreev, A.N.; Barzi, E.; Bossert, R.; Dietderich, D. R.; Felice, H.; Ferracin, P.; Ghosh, A.; Hafalia, A. R.; Lietzke, A. F.; Novitski, I.; Sabbi, G.L.; Zlobin, A.V.

    2008-06-01

    Test results are reported on TQS02a, a second model in support of the development of a large-aperture Nb{sub 3}Sn superconducting quadrupole for the US LHC Accelerator Research Program (LARP). The magnet uses key and bladder technology with supporting iron yoke and an aluminum shell. Changes from the previous first model (tested in 2006) include: (1) Titanium island poles; (2) no axial island gaps during reaction; and (3) RRP Nb3Sn conductor. Design changes resulted from previous tests with three different magnet assemblies (TQS01a, TQS01b and TQS01c) using coils with bronze segmented islands, with gaps and MJR conductor The paper summarizes the assembly, cool-down and performance of TQS01a, TQS01b, TQS01c, and TQS02 and compares measurements with design expectations.

  9. 1893 ROPE ROOM189380 TON ROPE MACHINEUPPER STRAND GUIDE John ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    1893 ROPE ROOM-1893-80 TON ROPE MACHINE-UPPER STRAND GUIDE - John A. Roebling's Sons Company & American Steel & Wire Company, South Broad, Clark, Elmer, Mott & Hudson Streets, Trenton, Mercer County, NJ

  10. 65. Detail view inside Manhattan anchorage of splayed cable strands. ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    65. Detail view inside Manhattan anchorage of splayed cable strands. Jet Lowe, photographer, 1982. - Brooklyn Bridge, Spanning East River between Park Row, Manhattan and Sands Street, Brooklyn, New York County, NY

  11. Establishing a Marine Mammal Stranding Network in the Bahamas

    DTIC Science & Technology

    2009-09-30

    mammal & turtle anatomy Dr Ruth Ewing, DVM, NOAA Fisheries Sample collection: The Basics Dr Charles Manire, DVM Atlantis Dolphin Cay Rescue...the Bahamas Pedro Baranda Dolphin Experience Sea turtles : species identification, strandings, and legislation Kelly Melillo Dolphin

  12. DNA nanotechnology. Programming colloidal phase transitions with DNA strand displacement.

    PubMed

    Rogers, W Benjamin; Manoharan, Vinothan N

    2015-02-06

    DNA-grafted nanoparticles have been called "programmable atom-equivalents": Like atoms, they form three-dimensional crystals, but unlike atoms, the particles themselves carry information (the sequences of the grafted strands) that can be used to "program" the equilibrium crystal structures. We show that the programmability of these colloids can be generalized to the full temperature-dependent phase diagram, not just the crystal structures themselves. We add information to the buffer in the form of soluble DNA strands designed to compete with the grafted strands through strand displacement. Using only two displacement reactions, we program phase behavior not found in atomic systems or other DNA-grafted colloids, including arbitrarily wide gas-solid coexistence, reentrant melting, and even reversible transitions between distinct crystal phases.

  13. 75 FR 8113 - Prestressed Concrete Steel Wire Strand From China

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-02-23

    ... From the Federal Register Online via the Government Publishing Office INTERNATIONAL TRADE COMMISSION Prestressed Concrete Steel Wire Strand From China AGENCY: United States International Trade Commission. ACTION: Revised schedule for the subject investigations. DATES: Effective Date: February 16,...

  14. 215. Dennis Hill, Photographer May 1998 DETAIL VIEW OF STRAND ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    215. Dennis Hill, Photographer May 1998 DETAIL VIEW OF STRAND SHOES AND STORM CABLE EYE BARS IN YERBA BUENA ANCHORAGE, FACING EAST. - San Francisco Oakland Bay Bridge, Spanning San Francisco Bay, San Francisco, San Francisco County, CA

  15. DNA strand exchange and RecA homologs in meiosis.

    PubMed

    Brown, M Scott; Bishop, Douglas K

    2014-12-04

    Homology search and DNA strand-exchange reactions are central to homologous recombination in meiosis. During meiosis, these processes are regulated such that the probability of choosing a homolog chromatid as recombination partner is enhanced relative to that of choosing a sister chromatid. This regulatory process occurs as homologous chromosomes pair in preparation for assembly of the synaptonemal complex. Two strand-exchange proteins, Rad51 and Dmc1, cooperate in regulated homology search and strand exchange in most organisms. Here, we summarize studies on the properties of these two proteins and their accessory factors. In addition, we review current models for the assembly of meiotic strand-exchange complexes and the possible mechanisms through which the interhomolog bias of recombination partner choice is achieved.

  16. Programmable energy landscapes for kinetic control of DNA strand displacement.

    PubMed

    Machinek, Robert R F; Ouldridge, Thomas E; Haley, Natalie E C; Bath, Jonathan; Turberfield, Andrew J

    2014-11-10

    DNA is used to construct synthetic systems that sense, actuate, move and compute. The operation of many dynamic DNA devices depends on toehold-mediated strand displacement, by which one DNA strand displaces another from a duplex. Kinetic control of strand displacement is particularly important in autonomous molecular machinery and molecular computation, in which non-equilibrium systems are controlled through rates of competing processes. Here, we introduce a new method based on the creation of mismatched base pairs as kinetic barriers to strand displacement. Reaction rate constants can be tuned across three orders of magnitude by altering the position of such a defect without significantly changing the stabilities of reactants or products. By modelling reaction free-energy landscapes, we explore the mechanistic basis of this control mechanism. We also demonstrate that oxDNA, a coarse-grained model of DNA, is capable of accurately predicting and explaining the impact of mismatches on displacement kinetics.

  17. Mass stranding of Odontoceti caused by parasitogenic eighth cranial neuropathy.

    PubMed

    Morimitsu, T; Nagai, T; Ide, M; Kawano, H; Naichuu, A; Koono, M; Ishii, A

    1987-10-01

    Hearing organs of the Odontoceti from two mass strandings in 1983 and 1986 were examined histopathologically. In the 1983 stranding, two of three pilot whales (Globicephala macrorhynchus) were necropsied and numerous Nasitrema sp. were found close to the eighth cranial nerve (nervus vistibulo cochlearis) in both animals. Patchy degeneration of the eighth cranial nerve in and out of the modiolus of the cochlea was observed. In the 1986 stranding, five of 125 false killer whales (Pseudorca crassiclens) were examined and numerous trematodes (Nasitrema gondo) were found in the tympanic cavities. Severe degeneration of the eighth cranial nerve was discovered and there were many trematode eggs in the nervous and surrounding tissues. Parasitogenic eighth neuropathy is proposed again as the cause of mass stranding of the Odontoceti.

  18. Programming colloidal phase transitions with DNA strand displacement

    NASA Astrophysics Data System (ADS)

    Rogers, William; Manoharan, Vinothan

    2014-03-01

    Specific interactions induced by transient bridging of complementary DNA strands grafted to colloidal particles can direct assembly of nanostructured materials. These interactions have been used to `program' the symmetry of novel equilibrium superlattices and could in principle enable self-assembly of prescribed structures. However, the ability to program the transitions between these equilibrium phases is currently limited: DNA-mediated attractions between particles decrease monotonically and steeply with increasing temperature, resulting only in high-temperature fluids and low-temperature solids that are inherently difficult to equilibrate. We show that by introducing free DNA strands that compete to bind with the grafted ones by strand displacement, the temperature dependence of interparticle interactions can be programmed through the base sequences of displacing strands. We use this scheme to create colloids with `designer' phase behavior such as re-entrant melting, arbitrarily wide gas-solid coexistence, and reversible transitions between different binary crystals.

  19. Mismatch repair balances leading and lagging strand DNA replication fidelity.

    PubMed

    Lujan, Scott A; Williams, Jessica S; Pursell, Zachary F; Abdulovic-Cui, Amy A; Clark, Alan B; Nick McElhinny, Stephanie A; Kunkel, Thomas A

    2012-01-01

    The two DNA strands of the nuclear genome are replicated asymmetrically using three DNA polymerases, α, δ, and ε. Current evidence suggests that DNA polymerase ε (Pol ε) is the primary leading strand replicase, whereas Pols α and δ primarily perform lagging strand replication. The fact that these polymerases differ in fidelity and error specificity is interesting in light of the fact that the stability of the nuclear genome depends in part on the ability of mismatch repair (MMR) to correct different mismatches generated in different contexts during replication. Here we provide the first comparison, to our knowledge, of the efficiency of MMR of leading and lagging strand replication errors. We first use the strand-biased ribonucleotide incorporation propensity of a Pol ε mutator variant to confirm that Pol ε is the primary leading strand replicase in Saccharomyces cerevisiae. We then use polymerase-specific error signatures to show that MMR efficiency in vivo strongly depends on the polymerase, the mismatch composition, and the location of the mismatch. An extreme case of variation by location is a T-T mismatch that is refractory to MMR. This mismatch is flanked by an AT-rich triplet repeat sequence that, when interrupted, restores MMR to > 95% efficiency. Thus this natural DNA sequence suppresses MMR, placing a nearby base pair at high risk of mutation due to leading strand replication infidelity. We find that, overall, MMR most efficiently corrects the most potentially deleterious errors (indels) and then the most common substitution mismatches. In combination with earlier studies, the results suggest that significant differences exist in the generation and repair of Pol α, δ, and ε replication errors, but in a generally complementary manner that results in high-fidelity replication of both DNA strands of the yeast nuclear genome.

  20. Protein stabilization by introduction of cross-strand disulfides.

    PubMed

    Chakraborty, Kausik; Thakurela, Sudhir; Prajapati, Ravindra Singh; Indu, S; Ali, P Shaik Syed; Ramakrishnan, C; Varadarajan, Raghavan

    2005-11-08

    Disulfides cross-link residues in a protein that are separated in primary sequence and stabilize the protein through entropic destabilization of the unfolded state. While the removal of naturally occurring disulfides leads to protein destabilization, introduction of engineered disulfides does not always lead to significant stabilization of a protein. We have analyzed naturally occurring disulfides that span adjacent antiparallel strands of beta sheets (cross-strand disulfides). Cross-strand disulfides have recently been implicated as redox-based conformational switches in proteins such as gp120 and CD4. The propensity of these disulfides to act as conformational switches was postulated on the basis of the hypothesis that this class of disulfide is conformationally strained. In the present analysis, there was no evidence to suggest that cross-strand disulfides are more strained compared to other disulfides as assessed by their torsional energy. It was also observed that these disulfides occur solely at non-hydrogen-bonded (NHB) registered pairs of adjacent antiparallel strands and not at hydrogen-bonded (HB) positions as suggested previously. One of the half-cystines involved in cross-strand disulfide formation often occurs at an edge strand. Experimental confirmation of the stabilizing effects of such disulfides was carried out in Escherichia coli thioredoxin. Four pairs of cross-strand cysteines were introduced, two at HB and two at NHB pairs. Disulfides were formed in all four cases. However, as predicted from our analysis, disulfides at NHB positions resulted in an increase in melting temperature of 7-10 degrees C, while at HB positions there was a corresponding decrease of -7 degrees C. The reduced state of all proteins had similar stability.

  1. Direct Synthesis of Long Single-Walled Carbon Nanotube Strands

    NASA Astrophysics Data System (ADS)

    Zhu, H. W.; Xu, C. L.; Wu, D. H.; Wei, B. Q.; Vajtai, R.; Ajayan, P. M.

    2002-05-01

    In the processes that are used to produce single-walled nanotubes (electric arc, laser ablation, and chemical vapor deposition), the typical lengths of tangled nanotube bundles reach several tens of micrometers. We report that long nanotube strands, up to several centimeters in length, consisting of aligned single-walled nanotubes can be synthesized by the catalytic pyrolysis of n-hexane with an enhanced vertical floating technique. The long strands of nanotubes assemble continuously from arrays of nanotubes, which are intrinsically long.

  2. The N-terminal strand modulates immunoglobulin light chain fibrillogenesis

    SciTech Connect

    Pozo-Yauner, Luis del; Wall, Jonathan S.; González Andrade, Martín; Sánchez-López, Rosana; Rodríguez-Ambriz, Sandra L.; Pérez Carreón, Julio I.; and others

    2014-01-10

    Highlights: •We evaluated the impact of mutations in the N-terminal strand of 6aJL2 protein. •Mutations destabilized the protein in a position-dependent manner. •Destabilizing mutations accelerated the fibrillogenesis by shortening the lag time. •The effect on the kinetic of fibril elongation by seeding was of different nature. •The N-terminal strand is buried in the fibrillar state of 6aJL2 protein. -- Abstract: It has been suggested that the N-terminal strand of the light chain variable domain (V{sub L}) protects the molecule from aggregation by hindering spurious intermolecular contacts. We evaluated the impact of mutations in the N-terminal strand on the thermodynamic stability and kinetic of fibrillogenesis of the V{sub L} protein 6aJL2. Mutations in this strand destabilized the protein in a position-dependent manner, accelerating the fibrillogenesis by shortening the lag time; an effect that correlated with the extent of destabilization. In contrast, the effect on the kinetics of fibril elongation, as assessed in seeding experiments was of different nature, as it was not directly dependant on the degree of destabilization. This finding suggests different factors drive the nucleation-dependent and elongation phases of light chain fibrillogenesis. Finally, taking advantage of the dependence of the Trp fluorescence upon environment, four single Trp substitutions were made in the N-terminal strand, and changes in solvent exposure during aggregation were evaluated by acrylamide-quenching. The results suggest that the N-terminal strand is buried in the fibrillar state of 6aJL2 protein. This finding suggest a possible explanation for the modulating effect exerted by the mutations in this strand on the aggregation behavior of 6aJL2 protein.

  3. Analysis of guanine oxidation products in double-stranded DNA and proposed guanine oxidation pathways in single-stranded, double-stranded or quadruplex DNA.

    PubMed

    Morikawa, Masayuki; Kino, Katsuhito; Oyoshi, Takanori; Suzuki, Masayo; Kobayashi, Takanobu; Miyazawa, Hiroshi

    2014-02-10

    Guanine is the most easily oxidized among the four DNA bases, and some guanine-rich sequences can form quadruplex structures. In a previous study using 6-mer DNA d(TGGGGT), which is the shortest oligomer capable of forming quadruplex structures, we demonstrated that guanine oxidation products of quadruplex DNA differ from those of single-stranded DNA. Therefore, the hotooxidation products of double-stranded DNA (dsDNA) may also differ from that of quadruplex or single-stranded DNA, with the difference likely explaining the influence of DNA structures on guanine oxidation pathways. In this study, the guanine oxidation products of the dsDNA d(TGGGGT)/d(ACCCCA) were analyzed using HPLC and electrospray ionization-mass spectrometry (ESI-MS). As a result, the oxidation products in this dsDNA were identified as 2,5-diamino-4H-imidazol-4-one (Iz), 8-oxo-7,8-dihydroguanine (8oxoG), dehydroguanidinohydantoin (Ghox), and guanidinohydantoin (Gh). The major oxidation products in dsDNA were consistent with a combination of each major oxidation product observed in single-stranded and quadruplex DNA. We previously reported that the kinds of the oxidation products in single-stranded or quadruplex DNA depend on the ease of deprotonation of the guanine radical cation (G•+) at the N1 proton. Similarly, this mechanism was also involved in dsDNA. Deprotonation in dsDNA is easier than in quadruplex DNA and more difficult in single-stranded DNA, which can explain the formation of the four oxidation products in dsDNA.

  4. Hearing loss in stranded odontocete dolphins and whales.

    PubMed

    Mann, David; Hill-Cook, Mandy; Manire, Charles; Greenhow, Danielle; Montie, Eric; Powell, Jessica; Wells, Randall; Bauer, Gordon; Cunningham-Smith, Petra; Lingenfelser, Robert; DiGiovanni, Robert; Stone, Abigale; Brodsky, Micah; Stevens, Robert; Kieffer, George; Hoetjes, Paul

    2010-11-03

    The causes of dolphin and whale stranding can often be difficult to determine. Because toothed whales rely on echolocation for orientation and feeding, hearing deficits could lead to stranding. We report on the results of auditory evoked potential measurements from eight species of odontocete cetaceans that were found stranded or severely entangled in fishing gear during the period 2004 through 2009. Approximately 57% of the bottlenose dolphins and 36% of the rough-toothed dolphins had significant hearing deficits with a reduction in sensitivity equivalent to severe (70-90 dB) or profound (>90 dB) hearing loss in humans. The only stranded short-finned pilot whale examined had profound hearing loss. No impairments were detected in seven Risso's dolphins from three different stranding events, two pygmy killer whales, one Atlantic spotted dolphin, one spinner dolphin, or a juvenile Gervais' beaked whale. Hearing impairment could play a significant role in some cetacean stranding events, and the hearing of all cetaceans in rehabilitation should be tested.

  5. A model capturing novel strand symmetries in bacterial DNA

    SciTech Connect

    Sobottka, Marcelo; Hart, Andrew G.

    2011-07-15

    Highlights: {yields} We propose a simple stochastic model to construct primitive DNA sequences. {yields} The model provide an explanation for Chargaff's second parity rule in primitive DNA sequences. {yields} The model is also used to predict a novel type of strand symmetry in primitive DNA sequences. {yields} We extend the results for bacterial DNA sequences and compare distributional properties intrinsic to the model to statistical estimates from 1049 bacterial genomes. {yields} We find out statistical evidences that the novel type of strand symmetry holds for bacterial DNA sequences. -- Abstract: Chargaff's second parity rule for short oligonucleotides states that the frequency of any short nucleotide sequence on a strand is approximately equal to the frequency of its reverse complement on the same strand. Recent studies have shown that, with the exception of organellar DNA, this parity rule generally holds for double-stranded DNA genomes and fails to hold for single-stranded genomes. While Chargaff's first parity rule is fully explained by the Watson-Crick pairing in the DNA double helix, a definitive explanation for the second parity rule has not yet been determined. In this work, we propose a model based on a hidden Markov process for approximating the distributional structure of primitive DNA sequences. Then, we use the model to provide another possible theoretical explanation for Chargaff's second parity rule, and to predict novel distributional aspects of bacterial DNA sequences.

  6. DNA Origami with Double Stranded DNA as a Unified Scaffold

    PubMed Central

    Yang, Yang; Han, Dongran; Nangreave, Jeanette; Liu, Yan; Yan, Hao

    2013-01-01

    Scaffolded DNA origami is a widely used technology for self-assembling precisely structured nanoscale objects that contain a large number of addressable features. Typical scaffolds are long, single strands of DNA (ssDNA) that are folded into distinct shapes through the action of many, short ssDNA staples that are complementary to several different domains of the scaffold. However, sources of long single stranded DNA are scarce, limiting the size and complexity of structures that can be assembled. Here we demonstrated that dsDNA scaffolds can be directly used to fabricate integrated DNA origami structures that incorporate both of the constituent ssDNA molecules. Two basic principles were employed in the design of scaffold folding paths – folding path asymmetry and periodic convergence of the two ssDNA scaffold strands. Asymmetry in the folding path minimizes unwanted complementarity between staples, and incorporating an offset between the folding paths of each ssDNA scaffold strand reduces the number of times that complementary portions of the strands are brought into close proximity with one another, both of which decrease the likelihood of dsDNA scaffold recovery. Meanwhile, the folding paths of the two ssDNA scaffold strands were designed to periodically converge to promote the assembly of a single, unified structure rather than two individual ones. Our results reveal that this basic strategy can be used to reliably assemble integrated DNA nanostructures from dsDNA scaffolds. PMID:22830653

  7. Application of strand meshes to complex aerodynamic flow fields

    NASA Astrophysics Data System (ADS)

    Katz, Aaron; Wissink, Andrew M.; Sankaran, Venkateswaran; Meakin, Robert L.; Chan, William M.

    2011-07-01

    We explore a new approach for viscous computational fluid dynamics calculations for external aerodynamics around geometrically complex bodies that incorporates nearly automatic mesh generation and efficient flow solution methods. A prismatic-like grid using "strands" is grown a short distance from the body surface to capture the viscous boundary layer, and adaptive Cartesian grids are used throughout the rest of the domain. The approach presents several advantages over established methods: nearly automatic grid generation from triangular or quadrilateral surface tessellations, very low memory overhead, automatic mesh adaptivity for time-dependent problems, and fast and efficient solvers from structured data in both the strand and Cartesian grids.The approach is evaluated for complex geometries and flow fields. We investigate the effects of strand length and strand vector smoothing to understand the effects on computed solutions. Results of three applications using the strand-adaptive Cartesian approach are given, including a NACA wing, isolated V-22 (TRAM) rotor in hover, and the DLR-F6 wing-body transport. The results from these cases show that the strand approach can successfully resolve near-body and off-body features as well as or better than established methods.

  8. Conformations of double stranded DNA: the effect of breathing bubbles

    NASA Astrophysics Data System (ADS)

    Huang, Aiqun; Bhattacharya, Aniket

    2015-03-01

    A double stranded DNA (dsDNA) is a natural semi-flexible biopolymer with persistence length ~ 50 nm, while a single stranded (ss) DNA is very flexible whose persistence length is one order of magnitude smaller (3-5 nm). Depending on the temperature and sequence, the two strands in a dsDNA can locally denature into two single strands and form bubbles along the polymer chain, i.e. dsDNA exists in the form of a combination of double strands and single strands, exhibiting a heterogeneity of bending rigidity. In our study, we adopt a coarse grained model of dsDNA developed by Kim et al. [J. Y. Kim, J. H. Jeon, and W. Sung, J. Chem. Phys. 128, 055101 2008] and further improve it by incorporating excluded volume effect and sequence heterogeneity. In this model, a dsDNA is described as two semi-flexible chains paired with each other by hydrogen bonding, the stacking interaction is designed such that the persistence length of the paired chains interpolates 3 nm and 50 nm depending on the fraction of the melted base pairs. By performing Langevin dynamics simulation we study the bubble statistics as a function of temperature and sequence and how the bubbles affect local bending rigidity and the chain conformations. We compare our results with those from WLC model.

  9. The N-terminal strand modulates immunoglobulin light chain fibrillogenesis.

    PubMed

    del Pozo-Yauner, Luis; Wall, Jonathan S; González Andrade, Martín; Sánchez-López, Rosana; Rodríguez-Ambriz, Sandra L; Pérez Carreón, Julio I; Ochoa-Leyva, Adrián; Fernández-Velasco, D Alejandro

    2014-01-10

    It has been suggested that the N-terminal strand of the light chain variable domain (V(L)) protects the molecule from aggregation by hindering spurious intermolecular contacts. We evaluated the impact of mutations in the N-terminal strand on the thermodynamic stability and kinetic of fibrillogenesis of the V(L) protein 6aJL2. Mutations in this strand destabilized the protein in a position-dependent manner, accelerating the fibrillogenesis by shortening the lag time; an effect that correlated with the extent of destabilization. In contrast, the effect on the kinetics of fibril elongation, as assessed in seeding experiments was of different nature, as it was not directly dependant on the degree of destabilization. This finding suggests different factors drive the nucleation-dependent and elongation phases of light chain fibrillogenesis. Finally, taking advantage of the dependence of the Trp fluorescence upon environment, four single Trp substitutions were made in the N-terminal strand, and changes in solvent exposure during aggregation were evaluated by acrylamide-quenching. The results suggest that the N-terminal strand is buried in the fibrillar state of 6aJL2 protein. This finding suggest a possible explanation for the modulating effect exerted by the mutations in this strand on the aggregation behavior of 6aJL2 protein.

  10. Protein-free parallel triple-stranded DNA complex formation

    PubMed Central

    Shchyolkina, A. K.; Timofeev, E. N.; Lysov, Yu. P.; Florentiev, V. L.; Jovin, T. M.; Arndt-Jovin, D. J.

    2001-01-01

    A 14 nt DNA sequence 5′-AGAATGTGGCAAAG-3′ from the zinc finger repeat of the human KRAB zinc finger protein gene ZNF91 bearing the intercalator 2-methoxy,6-chloro,9-amino acridine (Acr) attached to the sugar–phosphate backbone in various positions has been shown to form a specific triple helix (triplex) with a 16 bp hairpin (intramolecular) or a two-stranded (intermolecular) duplex having the identical sequence in the same (parallel) orientation. Intramolecular targets with the identical sequence in the antiparallel orientation and a non-specific target sequence were tested as controls. Apparent binding constants for formation of the triplex were determined by quantitating electrophoretic band shifts. Binding of the single-stranded oligonucleotide probe sequence to the target led to an increase in the fluorescence anisotropy of acridine. The parallel orientation of the two identical sequence segments was confirmed by measurement of fluorescence resonance energy transfer between the acridine on the 5′-end of the probe strand as donor and BODIPY-Texas Red on the 3′-amino group of either strand of the target duplex as acceptor. There was full protection from OsO4-bipyridine modification of thymines in the probe strand of the triplex, in accordance with the presumed triplex formation, which excluded displacement of the homologous duplex strand by the probe–intercalator conjugate. The implications of these results for the existence of protein-independent parallel triplexes are discussed. PMID:11160932

  11. Red Tide Strands South African Rock Lobsters

    NASA Technical Reports Server (NTRS)

    2002-01-01

    Although some red tides form a healthy part of phytoplankton production, recurrent harmful or toxic blooms also occur, with results depending upon the type of plankton and on atmospheric and oceanic conditions. At Elands Bay in South Africa's Western Cape province, about 1000 tons of rock lobsters beached themselves during February 2002, when the decay of dense blooms of phytoplankton caused a rapid reduction in the oxygen concentration of nearshore waters. The lobsters (or crayfish, as they are known locally) moved toward the breaking surf in search of oxygen, but were stranded by the retreating tide.

    The Multi-angle Imaging SpectroRadiometer's nadir camera acquired these red, green, blue composites on February 2 and 18, 2002, during Terra orbits 11315 and 11548. The colors have been accentuated to highlight the bloom, and land and water have been enhanced separately. The two views show the shoreward migration of the algal bloom. Each image represents an area of about 205 kilometers x 330 kilometers. Elands Bay is situated near the mouth of the Doring River, about 75 kilometers northeast of the jutting Cape Columbine.

    The term 'red tide' is used to refer to a number of different types of phytoplankton blooms of various hues. The wine color of certain parts of this bloom are consistent with the ciliate species Mesodinium rubrum, which has been associated with recurring harmful algal blooms along the Western Cape coast. Under these conditions, the lobsters are not poisoned. During the recent event, government and military staff transported as many of the living lobsters as possible to areas that were less affected by the red tide. At the same time, people came from across South Africa to gather the undersized creatures for food. The effects of the losses on the maritime economy are expected to be felt over the next few years.

    MISR was built and is managed by NASA's Jet Propulsion Laboratory, Pasadena, CA, for NASA's Office of Earth Science, Washington

  12. Red Tide Strands South African Rock Lobsters

    NASA Technical Reports Server (NTRS)

    2002-01-01

    Although some red tides form a healthy part of phytoplankton production, recurrent harmful or toxic blooms also occur, with results depending upon the type of plankton and on atmospheric and oceanic conditions. At Elands Bay in South Africa's Western Cape province, about 1000 tons of rock lobsters beached themselves during February 2002, when the decay of dense blooms of phytoplankton caused a rapid reduction in the oxygen concentration of nearshore waters. The lobsters (or crayfish, as they are known locally) moved toward the breaking surf in search of oxygen, but were stranded by the retreating tide. The Multi-angle Imaging SpectroRadiometer's nadir camera acquired these red, green, blue composites on February 2 and 18, 2002, during Terra orbits 11315 and 11548. The colors have been accentuated to highlight the bloom, and land and water have been enhanced separately. The two views show the shoreward migration of the algal bloom. Each image represents an area of about 205 kilometers x 330 kilometers. Elands Bay is situated near the mouth of the Doring River, about 75 kilometers northeast of the jutting Cape Columbine. The term 'red tide' is used to refer to a number of different types of phytoplankton blooms of various hues. The wine color of certain parts of this bloom are consistent with the ciliate species Mesodinium rubrum, which has been associated with recurring harmful algal blooms along the Western Cape coast. Under these conditions, the lobsters are not poisoned. During the recent event, government and military staff transported as many of the living lobsters as possible to areas that were less affected by the red tide. At the same time, people came from across South Africa to gather the undersized creatures for food. The effects of the losses on the maritime economy are expected to be felt over the next few years. MISR was built and is managed by NASA's Jet Propulsion Laboratory, Pasadena, CA, for NASA's Office of Earth Science, Washington, DC. The Terra

  13. Markers of Decompression Stress of Mass Stranded/Live Caught and Released vs. Single Stranded Marine Mammals

    DTIC Science & Technology

    2013-09-30

    Martin, V. and Arbelo, M. (2005). Gas and fat embolic syndrome involving a mass stranding of beaked whales (Family Ziphiidae) exposed to... Fraser , W. (1990). Complement activation involvement in decompression sickness of rabbits. Undersea Biomed Res. 17, 51-66.

  14. In Vivo Conversion of the Single-Stranded DNA of the Kilham Rat Virus to a Double-Stranded Form

    PubMed Central

    Salzman, Lois Ann; White, Wesley

    1973-01-01

    Kilham rat virus (KRV) contains linear, single-stranded DNA in the virion. The fate of radioactive viral DNA was followed after infection of monolayer cells. Within 60 min after infection of cells, 28 to 42% of the parental viral DNA is converted to a new form. This new DNA form is believed to be double stranded and linear on the basis of its sedimentation in neutral and alkaline sucrose gradients, elution from hydroxyapatite columns, its buoyant density in equilibrium CsCl density gradients, and appearance in the electron microscope. The double-stranded linear KRV DNA may be analogous to the replicative form of certain bacteriophages, including φX174, which contain single-stranded circular genomes. Images PMID:4347430

  15. The importance of becoming double-stranded: Innate immunity and the kinetic model of HIV-1 central plus strand synthesis

    SciTech Connect

    Poeschla, Eric

    2013-06-20

    Central initiation of plus strand synthesis is a conserved feature of lentiviruses and certain other retroelements. This complication of the standard reverse transcription mechanism produces a transient “central DNA flap” in the viral cDNA, which has been proposed to mediate its subsequent nuclear import. This model has assumed that the important feature is the flapped DNA structure itself rather than the process that produces it. Recently, an alternative kinetic model was proposed. It posits that central plus strand synthesis functions to accelerate conversion to the double-stranded state, thereby helping HIV-1 to evade single-strand DNA-targeting antiviral restrictions such as APOBEC3 proteins, and perhaps to avoid innate immune sensor mechanisms. The model is consistent with evidence that lentiviruses must often synthesize their cDNAs when dNTP concentrations are limiting and with data linking reverse transcription and uncoating. There may be additional kinetic advantages for the artificial genomes of lentiviral gene therapy vectors. - Highlights: • Two main functional models for HIV central plus strand synthesis have been proposed. • In one, a transient central DNA flap in the viral cDNA mediates HIV-1 nuclear import. • In the other, multiple kinetic consequences are emphasized. • One is defense against APOBEC3G, which deaminates single-stranded DNA. • Future questions pertain to antiviral restriction, uncoating and nuclear import.

  16. C. elegans telomeres contain G-strand and C-strand overhangs that are bound by distinct proteins.

    PubMed

    Raices, Marcela; Verdun, Ramiro E; Compton, Sarah A; Haggblom, Candy I; Griffith, Jack D; Dillin, Andrew; Karlseder, Jan

    2008-03-07

    Single-strand extensions of the G strand of telomeres are known to be critical for chromosome-end protection and length regulation. Here, we report that in C. elegans, chromosome termini possess 3' G-strand overhangs as well as 5' C-strand overhangs. C tails are as abundant as G tails and are generated by a well-regulated process. These two classes of overhangs are bound by two single-stranded DNA binding proteins, CeOB1 and CeOB2, which exhibit specificity for G-rich or C-rich telomeric DNA. Strains of worms deleted for CeOB1 have elongated telomeres as well as extended G tails, whereas CeOB2 deficiency leads to telomere-length heterogeneity. Both CeOB1 and CeOB2 contain OB (oligo-saccharide/oligo-nucleotide binding) folds, which exhibit structural similarity to the second and first OB folds of the mammalian telomere binding protein hPOT1, respectively. Our results suggest that C. elegans telomere homeostasis relies on a novel mechanism that involves 5' and 3' single-stranded termini.

  17. 75 FR 37382 - Notice of Antidumping Duty Order: Prestressed Concrete Steel Wire Strand from the People's...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-06-29

    ... International Trade Administration Notice of Antidumping Duty Order: Prestressed Concrete Steel Wire Strand from... duty order on prestressed concrete steel wire strand (``PC strand'') from the People's Republic of... material injury to a U.S. industry. See Prestressed Concrete Steel Wire Strand from China...

  18. 75 FR 36678 - Prestressed Concrete Steel Wire Strand From China; Determinations

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-06-28

    ... COMMISSION Prestressed Concrete Steel Wire Strand From China; Determinations On the basis of the record \\1... of prestressed concrete steel wire strand (PC strand), provided for in subheading 7312.10.30 of the... (June 2010), entitled Prestressed Concrete Steel Wire Strand from China: Investigation Nos....

  19. Stranding Events of Kogia Whales along the Brazilian Coast

    PubMed Central

    Moura, Jailson F.; Acevedo-Trejos, Esteban; Tavares, Davi C.; Meirelles, Ana C. O.; Silva, Cristine P. N.; Oliveira, Larissa R.; Santos, Roberta A.; Wickert, Janaína C.; Machado, Rodrigo; Siciliano, Salvatore; Merico, Agostino

    2016-01-01

    The genus Kogia, which comprises only two extant species, Kogia sima and Kogia breviceps, represents one of the least known groups of cetaceans in the global ocean. In some coastal regions, however, stranding events of these species have been relatively common over the last decades. Stranding provides the opportunity to investigate the biology of these cetaceans and to explore the epidemiological aspects associated with the mortality of the organisms found on the beach. A number of disturbances (including pelagic fisheries, chemical pollution, boat strikes, and noise pollution) have been confirmed to pose a particular threat to the Kogia species. However, no study has yet investigated potential relationships between environmental conditions and stranding events. Here we analyse how a collection of environmental, physical, and biological variables, such as wind, sea surface temperature (SST), water depth, and chlorophyll-a, correlate to Kogia stranding events along the Brazilian coast. The results of our statistical analyses suggest that K. sima is more likely found in warm tropical waters, which provide an explanation for the high frequency of stranding in northeastern Brazilian coast. In contrast, K. breviceps appears to have a preference for temperate and productive waters. Wind speed results to be also an important factor for predicting Kogia strandings in Brazilian coast. Additionally, literature information in combination with our own data and analyses of stomach contents confirms that oceanic cephalopods constitute the primary nutritional source of both Kogia species. By using the available information as a qualitative proxy for habitat preference and feeding ecology, our study provides a novel and comprehensive assessment of Kogia stranding data in relation to environmental conditions along the Brazilian coast. PMID:26730951

  20. Role of stranded gas in increasing global gas supplies

    USGS Publications Warehouse

    Attanasi, E.D.; Freeman, P.A.

    2013-01-01

    This report synthesizes the findings of three regional studies in order to evaluate, at the global scale, the contribution that stranded gas resources can make to global natural gas supplies. Stranded gas, as defined for this study, is natural gas in discovered conventional gas and oil fields that is currently not commercially producible for either physical or economic reasons. The regional studies evaluated the cost of bringing the large volumes of undeveloped gas in stranded gas fields to selected markets. In particular, stranded gas fields of selected Atlantic Basin countries, north Africa, Russia, and central Asia are screened to determine whether the volumes are sufficient to meet Europe’s increasing demand for gas imports. Stranded gas fields in Russia, central Asia, Southeast Asia, and Australia are also screened to estimate development, production, and transport costs and corresponding gas volumes that could be supplied to Asian markets in China, India, Japan, and South Korea. The data and cost analysis presented here suggest that for the European market and the markets examined in Asia, the development of stranded gas provides a way to meet projected gas import demands for the 2020-to-2040 period. Although this is a reconnaissance-type appraisal, it is based on volumes of gas that are associated with individual identified fields. Individual field data were carefully examined. Some fields were not evaluated because current technology was insufficient or it appeared the gas was likely to be held off the export market. Most of the evaluated stranded gas can be produced and delivered to markets at costs comparable to historical prices. Moreover, the associated volumes of gas are sufficient to provide an interim supply while additional technologies are developed to unlock gas diffused in shale and hydrates or while countries transition to making a greater use of renewable energy sources.

  1. Stranding Events of Kogia Whales along the Brazilian Coast.

    PubMed

    Moura, Jailson F; Acevedo-Trejos, Esteban; Tavares, Davi C; Meirelles, Ana C O; Silva, Cristine P N; Oliveira, Larissa R; Santos, Roberta A; Wickert, Janaína C; Machado, Rodrigo; Siciliano, Salvatore; Merico, Agostino

    2016-01-01

    The genus Kogia, which comprises only two extant species, Kogia sima and Kogia breviceps, represents one of the least known groups of cetaceans in the global ocean. In some coastal regions, however, stranding events of these species have been relatively common over the last decades. Stranding provides the opportunity to investigate the biology of these cetaceans and to explore the epidemiological aspects associated with the mortality of the organisms found on the beach. A number of disturbances (including pelagic fisheries, chemical pollution, boat strikes, and noise pollution) have been confirmed to pose a particular threat to the Kogia species. However, no study has yet investigated potential relationships between environmental conditions and stranding events. Here we analyse how a collection of environmental, physical, and biological variables, such as wind, sea surface temperature (SST), water depth, and chlorophyll-a, correlate to Kogia stranding events along the Brazilian coast. The results of our statistical analyses suggest that K. sima is more likely found in warm tropical waters, which provide an explanation for the high frequency of stranding in northeastern Brazilian coast. In contrast, K. breviceps appears to have a preference for temperate and productive waters. Wind speed results to be also an important factor for predicting Kogia strandings in Brazilian coast. Additionally, literature information in combination with our own data and analyses of stomach contents confirms that oceanic cephalopods constitute the primary nutritional source of both Kogia species. By using the available information as a qualitative proxy for habitat preference and feeding ecology, our study provides a novel and comprehensive assessment of Kogia stranding data in relation to environmental conditions along the Brazilian coast.

  2. Translating Ribosomes Inhibit Poliovirus Negative-Strand RNA Synthesis

    PubMed Central

    Barton, David J.; Morasco, B. Joan; Flanegan, James B.

    1999-01-01

    Poliovirus has a single-stranded RNA genome of positive polarity that serves two essential functions at the start of the viral replication cycle in infected cells. First, it is translated to synthesize viral proteins and, second, it is copied by the viral polymerase to synthesize negative-strand RNA. We investigated these two reactions by using HeLa S10 in vitro translation-RNA replication reactions. Preinitiation RNA replication complexes were isolated from these reactions and then used to measure the sequential synthesis of negative- and positive-strand RNAs in the presence of different protein synthesis inhibitors. Puromycin was found to stimulate RNA replication overall. In contrast, RNA replication was inhibited by diphtheria toxin, cycloheximide, anisomycin, and ricin A chain. Dose-response experiments showed that precisely the same concentration of a specific drug was required to inhibit protein synthesis and to either stimulate or inhibit RNA replication. This suggested that the ability of these drugs to affect RNA replication was linked to their ability to alter the normal clearance of translating ribosomes from the input viral RNA. Consistent with this idea was the finding that the protein synthesis inhibitors had no measurable effect on positive-strand synthesis in normal RNA replication complexes. In marked contrast, negative-strand synthesis was stimulated by puromycin and was inhibited by cycloheximide. Puromycin causes polypeptide chain termination and induces the dissociation of polyribosomes from mRNA. Cycloheximide and other inhibitors of polypeptide chain elongation “freeze” ribosomes on mRNA and prevent the normal clearance of ribosomes from viral RNA templates. Therefore, it appears that the poliovirus polymerase was not able to dislodge translating ribosomes from viral RNA templates and mediate the switch from translation to negative-strand synthesis. Instead, the initiation of negative-strand synthesis appears to be coordinately regulated

  3. Multiple sensors ensure guide strand selection in human RNAi pathways.

    PubMed

    Noland, Cameron L; Doudna, Jennifer A

    2013-05-01

    Small RNAs guide RNA-induced silencing complexes (RISCs) to bind to cognate mRNA transcripts and trigger silencing of protein expression during RNA interference (RNAi) in eukaryotes. A fundamental aspect of this process is the asymmetric loading of one strand of a short interfering RNA (siRNA) or microRNA (miRNA) duplex onto RISCs for correct target recognition. Here, we use a reconstituted system to determine the extent to which the core components of the human RNAi machinery contribute to RNA guide strand selection. We show that Argonaute2 (Ago2), the endonuclease that binds directly to siRNAs and miRNAs within RISC, has intrinsic but substrate-dependent RNA strand selection capability. This activity can be enhanced substantially when Ago2 is in complex with the endonuclease Dicer and the double-stranded RNA-binding proteins (dsRBPs)-trans-activation response (TAR) RNA-binding protein (TRBP) or protein activator of PKR (PACT). The extent to which human Dicer/dsRBP complexes contribute to strand selection is dictated by specific duplex parameters such as thermodynamics, 5' nucleotide identity, and structure. Surprisingly, our results also suggest that strand selection for some miRNAs is enhanced by PACT-containing complexes but not by those containing TRBP. Furthermore, overall mRNA targeting by miRNAs is disfavored for complexes containing TRBP but not PACT. These findings demonstrate that multiple proteins collaborate to ensure optimal strand selection in humans and reveal the possibility of delineating RNAi pathways based on the presence of TRBP or PACT.

  4. The excluded DNA strand is SEW important for hexameric helicase unwinding.

    PubMed

    Carney, Sean M; Trakselis, Michael A

    2016-10-01

    Helicases are proposed to unwind dsDNA primarily by translocating on one strand to sterically exclude and separate the two strands. Hexameric helicases in particular have been shown to encircle one strand while physically excluding the other strand. In this article, we will detail experimental methods used to validate specific interactions with the excluded strand on the exterior surface of hexameric helicases. Both qualitative and quantitative methods are described to identify an excluded strand interaction, determine the exterior interacting residues, and measure the dynamics of binding. The implications of exterior interactions with the nontranslocating strand are discussed and include forward unwinding stabilization, regulation of the unwinding rate, and DNA damage sensing.

  5. Proceedings of a Workshop on Antarctic Meteorite Stranding Surfaces

    NASA Technical Reports Server (NTRS)

    Cassidy, W. A. (Editor); Whillans, I. M. (Editor)

    1990-01-01

    The discovery of large numbers of meteorites on the Antarctic Ice Sheet is one of the most exciting developments in polar science in recent years. The meteorites are found on areas of ice called stranding surfaces. Because of the sudden availability of hundreds, and then thousands, of new meteorite specimens at these sites, the significance of the discovery of meteorite stranding surfaces in Antarctica had an immediate and profound impact on planetary science, but there is also in this discovery an enormous, largely unrealized potential to glaciology for records of climatic and ice sheet changes. The glaciological interest derives from the antiquity of the ice in meteorite stranding surfaces. This exposed ice covers a range of ages, probably between zero and more than 500,000 years. The Workshop on Antarctic Meteorite Stranding Surfaces was convened to explore this potential and to devise a course of action that could be recommended to granting agencies. The workshop recognized three prime functions of meteorite stranding surfaces. They provide: (1) A proxy record of climatic change (i.e., a long record of climatic change is probably preserved in the exposed ice stratigraphy); (2) A proxy record of ice volume change; and (3) A source of unique nonterrestrial material.

  6. An intercalation-locked parallel-stranded DNA tetraplex

    PubMed Central

    Tripathi, Shailesh; Zhang, Daoning; Paukstelis, Paul J.

    2015-01-01

    DNA has proved to be an excellent material for nanoscale construction because complementary DNA duplexes are programmable and structurally predictable. However, in the absence of Watson–Crick pairings, DNA can be structurally more diverse. Here, we describe the crystal structures of d(ACTCGGATGAT) and the brominated derivative, d(ACBrUCGGABrUGAT). These oligonucleotides form parallel-stranded duplexes with a crystallographically equivalent strand, resulting in the first examples of DNA crystal structures that contains four different symmetric homo base pairs. Two of the parallel-stranded duplexes are coaxially stacked in opposite directions and locked together to form a tetraplex through intercalation of the 5′-most A–A base pairs between adjacent G–G pairs in the partner duplex. The intercalation region is a new type of DNA tertiary structural motif with similarities to the i-motif. 1H–1H nuclear magnetic resonance and native gel electrophoresis confirmed the formation of a parallel-stranded duplex in solution. Finally, we modified specific nucleotide positions and added d(GAY) motifs to oligonucleotides and were readily able to obtain similar crystals. This suggests that this parallel-stranded DNA structure may be useful in the rational design of DNA crystals and nanostructures. PMID:25628357

  7. Regulation of DNA strand exchange in homologous recombination.

    PubMed

    Holthausen, J Thomas; Wyman, Claire; Kanaar, Roland

    2010-12-10

    Homologous recombination, the exchange of DNA strands between homologous DNA molecules, is involved in repair of many structural diverse DNA lesions. This versatility stems from multiple ways in which homologous DNA strands can be rearranged. At the core of homologous recombination are recombinase proteins such as RecA and RAD51 that mediate homology recognition and DNA strand exchange through formation of a dynamic nucleoprotein filament. Four stages in the life cycle of nucleoprotein filaments are filament nucleation, filament growth, homologous DNA pairing and strand exchange, and filament dissociation. Progression through this cycle requires a sequence of recombinase-DNA and recombinase protein-protein interactions coupled to ATP binding and hydrolysis. The function of recombinases is controlled by accessory proteins that allow coordination of strand exchange with other steps of homologous recombination and that tailor to the needs of specific aberrant DNA structures undergoing recombination. Accessory proteins are also able to reverse filament formation thereby guarding against inappropriate DNA rearrangements. The dynamic instability of the recombinase-DNA interactions allows both positive and negative action of accessory proteins thereby ensuring that genome maintenance by homologous recombination is not only flexible and versatile, but also accurate.

  8. Proceedings of a Workshop on Antarctic Meteorite Stranding Surfaces

    SciTech Connect

    Cassidy, W.A.; Whillans, I.M.

    1990-08-01

    The discovery of large numbers of meteorites on the Antarctic Ice Sheet is one of the most exciting developments in polar science in recent years. The meteorites are found on areas of ice called stranding surfaces. Because of the sudden availability of hundreds, and then thousands, of new meteorite specimens at these sites, the significance of the discovery of meteorite stranding surfaces in Antarctica had an immediate and profound impact on planetary science, but there is also in this discovery an enormous, largely unrealized potential to glaciology for records of climatic and ice sheet changes. The glaciological interest derives from the antiquity of the ice in meteorite stranding surfaces. This exposed ice covers a range of ages, probably between zero and more than 500,000 years. The Workshop on Antarctic Meteorite Stranding Surfaces was convened to explore this potential and to devise a course of action that could be recommended to granting agencies. The workshop recognized three prime functions of meteorite stranding surfaces. They provide: (1) A proxy record of climatic change (i.e., a long record of climatic change is probably preserved in the exposed ice stratigraphy); (2) A proxy record of ice volume change; and (3) A source of unique nonterrestrial material.

  9. Heavy ion induced double strand breaks in bacteria and bacteriophages

    NASA Astrophysics Data System (ADS)

    Micke, U.; Schäfer, M.; Anton, A.; Horneck, G.; Bücker, H.

    DNA damage induced by heavy ions in bacterial cells and bacteriophages such as Bacillus subtilis, E. coli and Bacteriophage Tl were investigated by analyzing the double strand breaks in the chromosomal DNA. This kind of lesion is considered as one of the main reasons for lethal events. To analyze double strand breaks in long molecules of DNA - up to some Mbp in length - the technique of pulse field agarose gel electrophoresis has been used. This allows the detection of one double strand break per genome. Cell lysis and DNA isolation were performed in small agarose blocks directly. This procedure secured minimum DNA destruction by shearing forces. After running a gel, the DNA was stained with ethidium bromide. The light intensity of ethidium bromide fluorescence for both the outcoming (running) DNA and the remaining intact DNA were measured by scanning. The mean number of double strand breaks was calculated by determining the quotient of these intensities. Strand break induction after heavy ion and X-ray irradiation was compared.

  10. Mass stranding of wedge-tailed shearwater chicks in Hawaii

    USGS Publications Warehouse

    Work, T.M.; Rameyer, R.A.

    1999-01-01

    Unusual numbers of wedge-tailed shearwater (Puffinus pacificus) chicks stranded on Oahu (Hawaii, USA) in 1994. Compared to healthy wedge-tailed shearwater (WTSW) chicks, stranded chicks were underweight, dehydrated, leukopenic, lymphopenic, eosinopenic, and heterophilic; some birds were toxemic and septic. Stranded chicks also were hypoglycemic and had elevated aspartate amino transferase levels. Most chicks apparently died from emaciation, dehydration, or bacteremia. Because many birds with bacteremia also had severe necrosis of the gastrointestinal (GI) mucosa associated with bacteria, we suspect the GI tract to be the source of disseminated bacterial infection. The identity of the bacteria was not confirmed. The daily number of chicks stranded was significantly related to average wind speeds, and the mortality coincided with the fledging period for WTSW. Strong southeasterly winds were a distinguishing meteorologic factor in 1994 and contributed to the distribution of stranded chicks on Oahu. More objective data on WTSW demographics would enhance future efforts to determine predisposing causes of WTSW wrecks and their effects on seabird colonies.

  11. DNA-directed mutations. Leading and lagging strand specificity

    NASA Technical Reports Server (NTRS)

    Sinden, R. R.; Hashem, V. I.; Rosche, W. A.

    1999-01-01

    The fidelity of replication has evolved to reproduce B-form DNA accurately, while allowing a low frequency of mutation. The fidelity of replication can be compromised, however, by defined order sequence DNA (dosDNA) that can adopt unusual or non B-DNA conformations. These alternative DNA conformations, including hairpins, cruciforms, triplex DNAs, and slipped-strand structures, may affect enzyme-template interactions that potentially lead to mutations. To analyze the effect of dosDNA elements on spontaneous mutagenesis, various mutational inserts containing inverted repeats or direct repeats were cloned in a plasmid containing a unidirectional origin of replication and a selectable marker for the mutation. This system allows for analysis of mutational events that are specific for the leading or lagging strands during DNA replication in Escherichia coli. Deletions between direct repeats, involving misalignment stabilized by DNA secondary structure, occurred preferentially on the lagging strand. Intermolecular strand switch events, correcting quasipalindromes to perfect inverted repeats, occurred preferentially during replication of the leading strand.

  12. The Effect of Basepair Mismatch on DNA Strand Displacement.

    PubMed

    Broadwater, D W Bo; Kim, Harold D

    2016-04-12

    DNA strand displacement is a key reaction in DNA homologous recombination and DNA mismatch repair and is also heavily utilized in DNA-based computation and locomotion. Despite its ubiquity in science and engineering, sequence-dependent effects of displacement kinetics have not been extensively characterized. Here, we measured toehold-mediated strand displacement kinetics using single-molecule fluorescence in the presence of a single basepair mismatch. The apparent displacement rate varied significantly when the mismatch was introduced in the invading DNA strand. The rate generally decreased as the mismatch in the invader was encountered earlier in displacement. Our data indicate that a single base pair mismatch in the invader stalls branch migration and displacement occurs via direct dissociation of the destabilized incumbent strand from the substrate strand. We combined both branch migration and direct dissociation into a model, which we term the concurrent displacement model, and used the first passage time approach to quantitatively explain the salient features of the observed relationship. We also introduce the concept of splitting probabilities to justify that the concurrent model can be simplified into a three-step sequential model in the presence of an invader mismatch. We expect our model to become a powerful tool to design DNA-based reaction schemes with broad functionality.

  13. Hydration of single-stranded phosphodiester and phosphorothioate oligodeoxyribonucleotides.

    PubMed Central

    White, A P; Reeves, K K; Snyder, E; Farrell, J; Powell, J W; Mohan, V; Griffey, R H

    1996-01-01

    Infrared spectroscopy was used to identify hydration-sensitive structural differences between single- stranded phosphorothioate (PS) and phosphodiester (PO) oligodeoxyribonucleotides. Spectra were recorded in the mid-infrared region, 500-1800 cm-1, at relative humidities between 0 and 98%; the PS and PO spectra are substantially different. The hydration effects on spectral bands in these single-stranded oligodeoxyribonucleotides is markedly different from such behavior in double- and triple-stranded oligodeoxyribonucleotides. A strong absorption occurs at 656 cm-1 in the phosphorothioate sample which is completely absent from the PO spectra. Gravimetric measurements were carried out on one PS and one PO sample to monitor and confirm hydration. The calculated BET adsorption constants [Brunauer, S., Emmett, RH. and Teller, E. (1938) J. Am. Chem. Soc., 60, 309-319] are 1.2 and 1.4 water molecules per nucleotide in the first hydration layer of PS and PO respectively. While the gravimetric data indicate that the single-stranded oligodeoxyribonucleotides hydrate very similarly to duplex DNA, the mid-infrared conformational marker bands are strikingly different from those observed for duplex DNA. In particular, the Vas of the phosphate group (PO2) at 1222 cm-1 in the single-stranded PO spectra is independent of relative humidity. PMID:8774910

  14. Mass stranding of wedge-tailed shearwater chicks in Hawaii.

    PubMed

    Work, T M; Rameyer, R A

    1999-07-01

    Unusual numbers of wedge-tailed shearwater (Puffinus pacificus) chicks stranded on Oahu (Hawaii, USA) in 1994. Compared to healthy wedge-tailed shearwater (WTSW) chicks, stranded chicks were underweight, dehydrated, leukopenic, lymphopenic, eosinopenic, and heterophilic; some birds were toxemic and septic. Stranded chicks also were hypoglycemic and had elevated aspartate amino transferase levels. Most chicks apparently died from emaciation, dehydration, or bacteremia. Because many birds with bacteremia also had severe necrosis of the gastrointestinal (GI) mucosa associated with bacteria, we suspect the GI tract to be the source of disseminated bacterial infection. The identity of the bacteria was not confirmed. The daily number of chicks stranded was significantly related to average wind speeds, and the mortality coincided with the fledging period for WTSW. Strong southeasterly winds were a distinguishing meteorologic factor in 1994 and contributed to the distribution of stranded chicks on Oahu. More objective data on WTSW demographics would enhance future efforts to determine predisposing causes of WTSW wrecks and their effects on seabird colonies.

  15. An intercalation-locked parallel-stranded DNA tetraplex

    DOE PAGES

    Tripathi, S.; Zhang, D.; Paukstelis, P. J.

    2015-01-27

    DNA has proved to be an excellent material for nanoscale construction because complementary DNA duplexes are programmable and structurally predictable. However, in the absence of Watson–Crick pairings, DNA can be structurally more diverse. Here, we describe the crystal structures of d(ACTCGGATGAT) and the brominated derivative, d(ACBrUCGGABrUGAT). These oligonucleotides form parallel-stranded duplexes with a crystallographically equivalent strand, resulting in the first examples of DNA crystal structures that contains four different symmetric homo base pairs. Two of the parallel-stranded duplexes are coaxially stacked in opposite directions and locked together to form a tetraplex through intercalation of the 5'-most A–A base pairs betweenmore » adjacent G–G pairs in the partner duplex. The intercalation region is a new type of DNA tertiary structural motif with similarities to the i-motif. 1H–1H nuclear magnetic resonance and native gel electrophoresis confirmed the formation of a parallel-stranded duplex in solution. Finally, we modified specific nucleotide positions and added d(GAY) motifs to oligonucleotides and were readily able to obtain similar crystals. This suggests that this parallel-stranded DNA structure may be useful in the rational design of DNA crystals and nanostructures.« less

  16. An intercalation-locked parallel-stranded DNA tetraplex

    SciTech Connect

    Tripathi, S.; Zhang, D.; Paukstelis, P. J.

    2015-01-27

    DNA has proved to be an excellent material for nanoscale construction because complementary DNA duplexes are programmable and structurally predictable. However, in the absence of Watson–Crick pairings, DNA can be structurally more diverse. Here, we describe the crystal structures of d(ACTCGGATGAT) and the brominated derivative, d(ACBrUCGGABrUGAT). These oligonucleotides form parallel-stranded duplexes with a crystallographically equivalent strand, resulting in the first examples of DNA crystal structures that contains four different symmetric homo base pairs. Two of the parallel-stranded duplexes are coaxially stacked in opposite directions and locked together to form a tetraplex through intercalation of the 5'-most A–A base pairs between adjacent G–G pairs in the partner duplex. The intercalation region is a new type of DNA tertiary structural motif with similarities to the i-motif. 1H–1H nuclear magnetic resonance and native gel electrophoresis confirmed the formation of a parallel-stranded duplex in solution. Finally, we modified specific nucleotide positions and added d(GAY) motifs to oligonucleotides and were readily able to obtain similar crystals. This suggests that this parallel-stranded DNA structure may be useful in the rational design of DNA crystals and nanostructures.

  17. Oligoarginine Peptides Slow Strand Annealing and Assist Nonenzymatic RNA Replication

    PubMed Central

    Jia, Tony Z.; Fahrenbach, Albert C.; Kamat, Neha P.; Adamala, Katarzyna P.; Szostak, Jack W.

    2016-01-01

    The nonenzymatic replication of RNA is thought to have been a critical process required for the origin of life. One unsolved difficulty with nonenzymatic RNA replication is that template-directed copying of RNA results in a double-stranded product; following strand separation, rapid strand reannealing outcompetes slow nonenzymatic template copying, rendering multiple rounds of RNA replication impossible. Here we show that oligoarginine peptides slow the annealing of complementary oligoribonucleotides by up to several thousand-fold; however, short primers and activated monomers can still bind to template strands, and template-directed primer extension can still occur within a phase-separated condensed state, or coacervate. Furthermore, we show that within this phase, partial template copying occurs even in the presence of full-length complementary strands. This method for enabling further rounds of replication suggests one mechanism by which short, non-coded peptides could have enhanced early cellular fitness, potentially explaining how longer, coded peptides, i.e. proteins, came to prominence in modern biology. PMID:27657866

  18. Strand displacement synthesis by yeast DNA polymerase ε

    PubMed Central

    Ganai, Rais A.; Zhang, Xiao-Ping; Heyer, Wolf-Dietrich; Johansson, Erik

    2016-01-01

    DNA polymerase ε (Pol ε) is a replicative DNA polymerase with an associated 3′–5′ exonuclease activity. Here, we explored the capacity of Pol ε to perform strand displacement synthesis, a process that influences many DNA transactions in vivo. We found that Pol ε is unable to carry out extended strand displacement synthesis unless its 3′–5′ exonuclease activity is removed. However, the wild-type Pol ε holoenzyme efficiently displaced one nucleotide when encountering double-stranded DNA after filling a gap or nicked DNA. A flap, mimicking a D-loop or a hairpin structure, on the 5′ end of the blocking primer inhibited Pol ε from synthesizing DNA up to the fork junction. This inhibition was observed for Pol ε but not with Pol δ, RB69 gp43 or Pol η. Neither was Pol ε able to extend a D-loop in reconstitution experiments. Finally, we show that the observed strand displacement synthesis by exonuclease-deficient Pol ε is distributive. Our results suggest that Pol ε is unable to extend the invading strand in D-loops during homologous recombination or to add more than two nucleotides during long-patch base excision repair. Our results support the hypothesis that Pol ε participates in short-patch base excision repair and ribonucleotide excision repair. PMID:27325747

  19. Availability: A Metric for Nucleic Acid Strand Displacement Systems

    PubMed Central

    2016-01-01

    DNA strand displacement systems have transformative potential in synthetic biology. While powerful examples have been reported in DNA nanotechnology, such systems are plagued by leakage, which limits network stability, sensitivity, and scalability. An approach to mitigate leakage in DNA nanotechnology, which is applicable to synthetic biology, is to introduce mismatches to complementary fuel sequences at key locations. However, this method overlooks nuances in the secondary structure of the fuel and substrate that impact the leakage reaction kinetics in strand displacement systems. In an effort to quantify the impact of secondary structure on leakage, we introduce the concepts of availability and mutual availability and demonstrate their utility for network analysis. Our approach exposes vulnerable locations on the substrate and quantifies the secondary structure of fuel strands. Using these concepts, a 4-fold reduction in leakage has been achieved. The result is a rational design process that efficiently suppresses leakage and provides new insight into dynamic nucleic acid networks. PMID:26875531

  20. Simultaneous binding to the tracking strand, displaced strand and the duplex of a DNA fork enhances unwinding by Dda helicase.

    PubMed

    Aarattuthodiyil, Suja; Byrd, Alicia K; Raney, Kevin D

    2014-10-01

    Interactions between helicases and the tracking strand of a DNA substrate are well-characterized; however, the role of the displaced strand is a less understood characteristic of DNA unwinding. Dda helicase exhibited greater processivity when unwinding a DNA fork compared to a ss/ds DNA junction substrate. The lag phase in the unwinding progress curve was reduced for the forked DNA compared to the ss/ds junction. Fewer kinetic steps were required to unwind the fork compared to the ss/ds junction, suggesting that binding to the fork leads to disruption of the duplex. DNA footprinting confirmed that interaction of Dda with a fork leads to two base pairs being disrupted whereas no disruption of base pairing was observed with the ss/ds junction. Neutralization of the phosphodiester backbone resulted in a DNA-footprinting pattern similar to that observed with the ss/ds junction, consistent with disruption of the interaction between Dda and the displaced strand. Several basic residues in the 1A domain which were previously proposed to bind to the incoming duplex DNA were replaced with alanines, resulting in apparent loss of interaction with the duplex. Taken together, these results suggest that Dda interaction with the tracking strand, displaced strand and duplex coordinates DNA unwinding.

  1. Mammalian Ino80 mediates double-strand break repair through its role in DNA end strand resection.

    PubMed

    Gospodinov, Anastas; Vaissiere, Thomas; Krastev, Dragomir B; Legube, Gaëlle; Anachkova, Boyka; Herceg, Zdenko

    2011-12-01

    Chromatin modifications/remodeling are important mechanisms by which cells regulate various functions through providing accessibility to chromatin DNA. Recent studies implicated INO80, a conserved chromatin-remodeling complex, in the process of DNA repair. However, the precise underlying mechanism by which this complex mediates repair in mammalian cells remains enigmatic. Here, we studied the effect of silencing of the Ino80 subunit of the complex on double-strand break repair in mammalian cells. Comet assay and homologous recombination repair reporter system analyses indicated that Ino80 is required for efficient double-strand break repair. Ino80 association with chromatin surrounding double-strand breaks suggested the direct involvement of INO80 in the repair process. Ino80 depletion impaired focal recruitment of 53BP1 but did not impede Rad51 focus formation, suggesting that Ino80 is required for the early steps of repair. Further analysis by using bromodeoxyuridine (BrdU)-labeled single-stranded DNA and replication protein A (RPA) immunofluorescent staining showed that INO80 mediates 5'-3' resection of double-strand break ends.

  2. Retroviral nucleocapsid proteins possess potent nucleic acid strand renaturation activity.

    PubMed Central

    Dib-Hajj, F.; Khan, R.; Giedroc, D. P.

    1993-01-01

    The nucleocapsid protein (NC) is the major genomic RNA binding protein that plays integral roles in the structure and replication of all animal retroviruses. In this report, select biochemical properties of recombinant Mason-Pfizer monkey virus (MPMV) and HIV-1 NCs are compared. Evidence is presented that two types of saturated Zn2 NC-polynucleotide complexes can be formed under conditions of low [NaCl] that differ in apparent site-size (n = 8 vs. n = 14). The formation of one or the other complex appears dependent on the molar ratio of NC to RNA nucleotide with the putative low site-size mode apparently predominating under conditions of protein excess. Both MPMV and HIV-1 NCs kinetically facilitate the renaturation of two complementary DNA strands, suggesting that this is a general property of retroviral NCs. NC proteins increase the second-order rate constant for renaturation of a 149-bp DNA fragment by more than four orders of magnitude over that obtained in the absence of protein at 37 degrees C. The protein-assisted rate is 100-200-fold faster than that obtained at 68 degrees C, 1 M NaCl, solution conditions considered to be optimal for strand renaturation. Provided that sufficient NC is present to coat all strands, the presence of 400-1,000-fold excess nonhomologous DNA does not greatly affect the reaction rate. The HIV-1 NC-mediated renaturation reaction functions stoichiometrically, requiring a saturated strand of DNA nucleotide:NC ratio of about 7-8, rather than 14. Under conditions of less protein, the rate acceleration is not realized. The finding of significant nucleic acid strand renaturation activity may have important implications for various events of reverse transcription particularly in initiation and cDNA strand transfer. PMID:8443601

  3. Electrodeless dielectrophoresis of single- and double-stranded DNA.

    PubMed Central

    Chou, Chia-Fu; Tegenfeldt, Jonas O; Bakajin, Olgica; Chan, Shirley S; Cox, Edward C; Darnton, Nicholas; Duke, Thomas; Austin, Robert H

    2002-01-01

    Dielectrophoretic trapping of molecules is typically carried out using metal electrodes to provide high field gradients. In this paper we demonstrate dielectrophoretic trapping using insulating constrictions at far lower frequencies than are feasible with metallic trapping structures because of water electrolysis. We demonstrate that electrodeless dielectrophoresis (EDEP) can be used for concentration and patterning of both single-strand and double-strand DNA. A possible mechanism for DNA polarization in ionic solution is discussed based on the frequency, viscosity, and field dependence of the observed trapping force. PMID:12324434

  4. Crystal structure of four-stranded Oxytricha telomeric DNA

    NASA Technical Reports Server (NTRS)

    Kang, C.; Zhang, X.; Ratliff, R.; Moyzis, R.; Rich, A.

    1992-01-01

    The sequence d(GGGGTTTTGGGG) from the 3' overhang of the Oxytricha telomere has been crystallized and its three-dimensional structure solved to 2.5 A resolution. The oligonucleotide forms hairpins, two of which join to make a four-stranded helical structure with the loops containing four thymine residues at either end. The guanine residues are held together by cyclic hydrogen bonding and an ion is located in the centre. The four guanine residues in each segment have a glycosyl conformation that alternates between anti and syn. There are two four-stranded molecules in the asymmetric unit showing that the structure has some intrinsic flexibility.

  5. DNA double-strand break repair in a cellular context.

    PubMed

    Shibata, A; Jeggo, P A

    2014-05-01

    Substantial insight into the mechanisms responding to DNA double-strand breaks has been gained from molecular, biochemical and structural approaches. Attention is now focusing on understanding the interplay between the pathways, how they interface through the cell cycle and the communication with other DNA transactions, such as replication and transcription. Understanding these aspects will facilitate an assessment of how cancer cells have modified these processes to achieve unlimited proliferative capacity and adaptability, and pave the way to identify targets suitable for therapy. Here, we briefly overview the processes responding to double-strand breaks and discuss our current understanding of their interplay in a cellular context.

  6. Apparatus and method for fabricating multi-strand superconducting cable

    DOEpatents

    Borden, Albert R.

    1986-01-01

    Multi-strand superconducting cables adapted to be used, for example, to wind a magnet is fabricated by directing wire strands inwardly from spools disposed on the perimeter of a rotating disk and wrapping them diagonally around a tapered mandrel with a flattened cross-sectional shape with a core having a wedge-shaped channel. As the cable is pulled axially, flexibly coupled wedge-shaped pieces are continuously passed through the channel in the mandrel and inserted into the cable as an internal support therefor.

  7. Partners and pathwaysrepairing a double-strand break.

    PubMed

    Haber, J E

    2000-06-01

    Double-strand chromosome breaks can arise in a number of ways, by ionizing radiation, by spontaneous chromosome breaks during DNA replication, or by the programmed action of endonucleases, such as in meiosis. Broken chromosomes can be repaired either by one of several homologous recombination mechanisms, or by a number of nonhomologous repair processes. Many of these pathways compete actively for the repair of a double-strand break. Which of these repair pathways is used appears to be regulated developmentally, genetically and during the cell cycle.

  8. Industry participation workshop: Chromium electroplating of superconductor strand. Proceedings

    SciTech Connect

    1994-12-13

    The primary objective of the workshop was to inform US plating vendors about the opportunity to participate in the effort on Cr plating of large quantities of superconducting wires required for the ITER and the TPX projects and DOE`s interest in developing several reliable and high quality suppliers of Chromium plating services for the superconducting strand industry. The objective was also to inform plating vendors about the Cr plating technology developed in LLNL and invite interested plating vendors to get the technology. Finally the workshop was intended to inform the plating vendors about the plan to get verification of capability of two to four vendors for Cr plating of superconducting strands.

  9. Interaction of DAPI with double-stranded ribonucleic acids.

    PubMed Central

    Manzini, G; Xodo, L; Barcellona, M L; Quadrifoglio, F

    1985-01-01

    The interaction of DAPI with natural and synthetic double-stranded polyribonucleotides was studied with different optical and calorimetric methods. The results were similar to those obtained previously with double-stranded polydeoxynucleotides, i.e. two interaction modes, the first of which shows high affinity for AU clusters and consequent strong fluorescence enhancement. The results suggest caution in the use of DAPI as selective fluorescent staining agent for DNA in the presence of RNA. A narrow groove binding model with hydrogen bonds between DAPI and AU pairs is proposed. An intercalation mechanism can be excluded because of the non planarity of DAPI molecule. PMID:4080554

  10. Three dimensional FEM quench simulations of superconducting strands

    SciTech Connect

    Yamada, Ryuji; Wake, Masayoshi; /KEK, Tsukuba

    2005-09-01

    The detailed phenomena in quench starting of Nb{sub 3}Sn strands are simulated in 3-D and in time using ANSYS and FEMLAB programs. The current sharing between the superconductor and copper stabilizer in strands at the beginning of a quench was studied and displayed in time. The differences in copper configuration and RRR value of copper were found to have large effect to the stability and quench propagation velocity. The MPZ theory was found to be effective for 3D multifilament situation.

  11. A single-stranded RNA copy of the Giardia lamblia virus double-stranded RNA genome is present in the infected Giardia lamblia.

    PubMed Central

    Furfine, E S; White, T C; Wang, A L; Wang, C C

    1989-01-01

    An isolate of Giardia lamblia infected with the double-stranded RNA virus (GLV) has two major species of RNA that are not present in an uninfected isolate. One of these species is the previously characterized double-stranded RNA genome of GLV (1). The second species of RNA appears to be a full length copy of one strand of the double-stranded RNA genome. This full length single-stranded RNA is not present in viral particles isolated from the growth medium. The cellular concentration of the single-stranded RNA changes during exponential and stationary phases of cell growth in a fashion consistent with a viral replicative intermediate or mRNA. The single-stranded species does not appear to be polyadenylated. Images PMID:2798099

  12. Targeting DNA double-strand breaks with TAL effector nucleases.

    PubMed

    Christian, Michelle; Cermak, Tomas; Doyle, Erin L; Schmidt, Clarice; Zhang, Feng; Hummel, Aaron; Bogdanove, Adam J; Voytas, Daniel F

    2010-10-01

    Engineered nucleases that cleave specific DNA sequences in vivo are valuable reagents for targeted mutagenesis. Here we report a new class of sequence-specific nucleases created by fusing transcription activator-like effectors (TALEs) to the catalytic domain of the FokI endonuclease. Both native and custom TALE-nuclease fusions direct DNA double-strand breaks to specific, targeted sites.

  13. Applications of Strand-Specific in situ Hybridization

    SciTech Connect

    Goodwin, E.H.; Meyne, J.; Bailey, S.M.; Quigley, D.; Smith, L.; Tennyson, R.

    1997-01-01

    This is the final report of a three-year, Laboratory-Directed Research and Development (LDRD) project at the Los Alamos National Laboratory (LANL). Fluorescence in situ hybridization (FISH) is used to determine the location of specific DNA sequences on chromosomes. It is an effective tool in genomic mapping and is finding increasing use in medical diagnosis. A ''strand-specific'' version of FISH has been developed in the Life Sciences Division of LANL. The new procedure, named CO-FISH, reveals not only location but also the 5'-to-3'direction of a target sequence, such as the sense strand of a gene. This project was designed to investigate applications of the new technique. Strand-specific FISH was found to be useful and informative for genomic mapping of repetitive DNA sequences. The method provide a valuable new tool for investigating the mechanisms of aneuploidy inducing agents and the cytogenetic phenomena called lateral asymmetry. Finally, using strand-specific FISH, the authors were able to detect certain types of chromosome aberrations (isochromosomes, inversions and Robertsonian translocations) that can be difficult to observe with standard techniques.

  14. Guide Strand 3'-End Modifications Regulate siRNA Specificity.

    PubMed

    Valenzuela, Rachel A P; Onizuka, Kazumitsu; Ball-Jones, Alexi A; Hu, Tiannan; Suter, Scott R; Beal, Peter A

    2016-12-14

    Short interfering RNA (siRNA)-triggered gene knockdown through the RNA interference (RNAi) pathway is widely used to study gene function, and siRNA-based therapeutics are in development. However, as the guide strand of an siRNA can function like a natural microRNA (miRNA), siRNAs often repress hundreds of off-target transcripts with complementarity only to the seed region (nucleotides 2-8) of the guide strand. Here, we describe novel guide strand 3'-end modifications derived from 1-ethynylribose (1-ER) and copper-catalyzed azide-alkyne cycloaddition reactions and evaluate their impact on target versus miRNA-like off-target knockdown. Surprisingly, when positioned at the guide strand 3'-end, the parent 1-ER modification substantially reduced off-target knockdown while having no measurable effect on on-target knockdown potency. In addition, these modifications were shown to modulate siRNA affinity for the hAgo2 PAZ domain. However, the change in PAZ domain binding affinity was not sufficient to predict the modification's effect on miRNA-like off targeting.

  15. Euler buckling and nonlinear kinking of double-stranded DNA

    PubMed Central

    Fields, Alexander P.; Meyer, Elisabeth A.; Cohen, Adam E.

    2013-01-01

    The bending stiffness of double-stranded DNA (dsDNA) at high curvatures is fundamental to its biological activity, yet this regime has been difficult to probe experimentally, and literature results have not been consistent. We created a ‘molecular vise’ in which base-pairing interactions generated a compressive force on sub-persistence length segments of dsDNA. Short dsDNA strands (<41 base pairs) resisted this force and remained straight; longer strands became bent, a phenomenon called ‘Euler buckling’. We monitored the buckling transition via Förster Resonance Energy Transfer (FRET) between appended fluorophores. For low-to-moderate concentrations of monovalent salt (up to ∼150 mM), our results are in quantitative agreement with the worm-like chain (WLC) model of DNA elasticity, without the need to invoke any ‘kinked’ states. Greater concentrations of monovalent salts or 1 mM Mg2+ induced an apparent softening of the dsDNA, which was best accounted for by a kink in the region of highest curvature. We tested the effects of all single-nucleotide mismatches on the DNA bending. Remarkably, the propensity to kink correlated with the thermodynamic destabilization of the mismatched DNA relative the perfectly complementary strand, suggesting that the kinked state is locally melted. The molecular vise is exquisitely sensitive to the sequence-dependent linear and nonlinear elastic properties of dsDNA. PMID:23956222

  16. Solid phase sequencing of double-stranded nucleic acids

    DOEpatents

    Fu, Dong-Jing; Cantor, Charles R.; Koster, Hubert; Smith, Cassandra L.

    2002-01-01

    This invention relates to methods for detecting and sequencing of target double-stranded nucleic acid sequences, to nucleic acid probes and arrays of probes useful in these methods, and to kits and systems which contain these probes. Useful methods involve hybridizing the nucleic acids or nucleic acids which represent complementary or homologous sequences of the target to an array of nucleic acid probes. These probe comprise a single-stranded portion, an optional double-stranded portion and a variable sequence within the single-stranded portion. The molecular weights of the hybridized nucleic acids of the set can be determined by mass spectroscopy, and the sequence of the target determined from the molecular weights of the fragments. Nucleic acids whose sequences can be determined include nucleic acids in biological samples such as patient biopsies and environmental samples. Probes may be fixed to a solid support such as a hybridization chip to facilitate automated determination of molecular weights and identification of the target sequence.

  17. On the Distinction between Preposition Stranding and Orphan Prepositions

    ERIC Educational Resources Information Center

    Roberge, Yves

    2012-01-01

    Poplack, Zentz and Dion (PZD; Poplack, Zentz & Dion, 2011, this issue) examine the often unquestioned assumption that the existence of preposition stranding (PS) in Canadian French is linked to the presence of a contact situation with English in the North American context. Although this issue has been the topic of previous research from a…

  18. The Ideological "Strands" of the 5-14 Educational Narrative.

    ERIC Educational Resources Information Center

    McAllister, John

    1993-01-01

    The Scottish 5-14 master educational narrative prescribes a rigid framework for curricular policies and planning. The ideological strands of 5-14 present education as a business, promote the maintenance of a common culture, and attack teacher professionalism. Argues that the program should be seen as a means of control over the practice and…

  19. Stability of DNA-linked nanoparticle crystals: Effect of number of strands, core size, and rigidity of strand attachment

    NASA Astrophysics Data System (ADS)

    Padovan-Merhar, Olivia; Lara, Fernando Vargas; Starr, Francis W.

    2011-06-01

    Three-dimensional ordered lattices of nanoparticles (NPs) linked by DNA have potential applications in novel devices and materials, but most experimental attempts to form crystals result in amorphous packing. Here we use a coarse-grained computational model to address three factors that impact the stability of bcc and fcc crystals formed by DNA-linked NPs : (i) the number of attached strands to the NP surface, (ii) the size of the NP core, and (iii) the rigidity of the strand attachment. We find that allowing mobility in the attachment of DNA strands to the core NP can very slightly increase or decrease melting temperature TM. Larger changes to TM result from increasing the number of strands, which increases TM, or by increasing the core NP diameter, which decreases TM. Both results are consistent with experimental findings. Moreover, we show that the behavior of TM can be quantitatively described by the model introduced previously [F. Vargas Lara and F. W. Starr, Soft Matter, 7, 2085 (2011)], 10.1039/c0sm00989j.

  20. TrmBL2 from Pyrococcus furiosus Interacts Both with Double-Stranded and Single-Stranded DNA

    PubMed Central

    Wierer, Sebastian; Daldrop, Peter; Ud Din Ahmad, Misbha; Boos, Winfried; Drescher, Malte; Welte, Wolfram; Seidel, Ralf

    2016-01-01

    In many hyperthermophilic archaea the DNA binding protein TrmBL2 or one of its homologues is abundantly expressed. TrmBL2 is thought to play a significant role in modulating the chromatin architecture in combination with the archaeal histone proteins and Alba. However, its precise physiological role is poorly understood. It has been previously shown that upon binding TrmBL2 covers double-stranded DNA, which leads to the formation of a thick and fibrous filament. Here we investigated the filament formation process as well as the stabilization of DNA by TrmBL2 from Pyroccocus furiosus in detail. We used magnetic tweezers that allow to monitor changes of the DNA mechanical properties upon TrmBL2 binding on the single-molecule level. Extended filaments formed in a cooperative manner and were considerably stiffer than bare double-stranded DNA. Unlike Alba, TrmBL2 did not form DNA cross-bridges. The protein was found to bind double- and single-stranded DNA with similar affinities. In mechanical disruption experiments of DNA hairpins this led to stabilization of both, the double- (before disruption) and the single-stranded (after disruption) DNA forms. Combined, these findings suggest that the biological function of TrmBL2 is not limited to modulating genome architecture and acting as a global repressor but that the protein acts additionally as a stabilizer of DNA secondary structure. PMID:27214207

  1. Detection of bacteriophage phi 6 minus-strand RNA and novel mRNA isoconformers synthesized in vivo and in vitro, by strand-separating agarose gels

    SciTech Connect

    Pagratis, N.; Revel, H.R. )

    1990-07-01

    Two urea-free agarose gel protocols that resolve the six individual strands of bacteriophage phi 6 dsRNA were developed and used to analyze phage RNA synthesis in vivo and in vitro. Citrate gels separate strands of the large and medium chromosomes while Tris-borate-EDTA (TBE) gels resolve the medium and small dsRNA segments. Minus strands migrate faster than plus strands on citrate gels but are retarded on TBE gels. A study of electrophoretic conditions showed that pH affects strand resolution on citrate gels, and that voltage gradient, agarose concentration, and ethidium bromide significantly alter strand migration on TBE gels. Analysis of native phi 6 RNA synthesized in vivo and in vitro showed that the large and medium message RNAs comigrate with the corresponding plus strands of denatured virion dsRNA. The small messenger RNA is exceptional. Native small mRNA was detected as three isoconformers in vivo and in vitro. The isoconformers were converted by heat denaturation to a single RNA species that comigrates with the virion s+ strand. Minus strands labeled in vivo were detected only after heat denaturation. Minus strand synthesis was detected also in heat-denatured samples from in vitro phi 6 nucleocapsid RNA polymerase reactions at pH values suboptimal for transcription.

  2. Homologous recombination between single-stranded DNA and chromosomal genes in Saccharomyces cerevisiae.

    PubMed Central

    Simon, J R; Moore, P D

    1987-01-01

    Transformation of Saccharomyces cerevisiae strains was examined by using the URA3 and TRP1 genes cloned into M13 vectors in the absence of sequences capable of promoting autonomous replication. These constructs transform S. cerevisiae cells to prototrophy by homologous recombination with the resident mutant gene. Single-stranded DNA was found to transform S. cerevisiae cells at efficiencies greater than that of double-stranded DNA. No conversion of single-stranded transforming DNA into duplex forms could be detected during the transformation process, and we conclude that single-stranded DNA may participate directly in recombination with chromosomal sequences. Transformation with single-stranded DNA gave rise to both gene conversion and reciprocal exchange events. Cotransformation with competing heterologous single-stranded DNA specifically inhibited transformation by single-stranded DNA, suggesting that one of the components in the transformation-recombination process has a preferential affinity for single-stranded DNA. Images PMID:3302673

  3. 78 FR 54867 - Proposed Information Collection; Comment Request; Marine Mammal Health and Stranding Response...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-09-06

    ... National Oceanic and Atmospheric Administration Proposed Information Collection; Comment Request; Marine... AGENCY: National Oceanic and Atmospheric Administration, Commerce. ACTION: Notice. SUMMARY: The... stranding report provides information on strandings so that the National Marine Fisheries Service (NMFS)...

  4. The invariance of the total direct DNA strand break yield

    SciTech Connect

    Bernal, M. A.; Almeida, C. E. de; Sampaio, C.; Incerti, S.; Champion, C.; Nieminen, P.

    2011-07-15

    Purpose: The invariance of the total direct strand break yield when DNA is irradiated by different types of particles and energies has been reported by previous works. This study is intended to explain the physical causes of this behavior. Methods: The geant4-dna extension of the geant4 general purpose Monte Carlo simulation toolkit has been used to determine direct strand break yields induced by protons and alpha particles impacting on a B-DNA geometrical model, including five organization levels of the human genetic material. The linear energy transfer (LET) of such particles ranges from 4.8 keV/{mu}m (10 MeV protons) to about 235 keV/{mu}m (2 MeV alpha particles), at 5.225 {mu}m depth (near the center of the region of interest). Direct total, single and double strand break probabilities have been determined in a liquid water homogeneous medium with a 1.06 g/cm {sup 3} density. The energetic spectra of single strand breaks (SSB), the number of energy deposition events, and the SSB/event ratio were determined. Results: The target-hit probability was found to be independent of both the type and the energy of the incident particle, even if this latter is a secondary electron. This probability is determined by the geometrical properties of the system. The total strand break yield and the number of energy deposition events required to reach a certain absorbed dose were found nearly independent of the type and energy of the incident ion (proton or alpha). In contrast, the double strand break (DSB) yield was found strongly dependent on the LET of the incident radiation. Conclusions: The SSB generation process is homogeneous and independent of the LET of the particles involved, at least within the proton and alpha particle energy range here studied. The target-hit probability is only determined by the ratio between the total volume occupied by targets and that of the ROI where the radiation deposits its energy. The maximum separation distance between two adjacent SSBs to

  5. 75 FR 28560 - Prestressed Concrete Steel Wire Strand From the People's Republic of China: Final Determination...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-05-21

    ... International Trade Administration Prestressed Concrete Steel Wire Strand From the People's Republic of China...'' section of this notice. \\1\\ See Prestressed Concrete Steel Wire Strand From the People's Republic of China...., Ltd. in the Antidumping Duty Investigation of Prestressed Concrete Steel Wire Strand From the...

  6. Folding DNA origami from a double-stranded source of scaffold

    PubMed Central

    Högberg, Björn; Liedl, Tim; Shih, William M.

    2009-01-01

    Combined heat and chemical denaturation of double-stranded DNA scaffold strands in the presence of staple strands, followed by a sudden temperature drop and then stepwise dialysis to remove the chemical denaturant, leads to self-assembly of two distinct DNA-origami structures. PMID:19566089

  7. 75 FR 32747 - Prestressed Concrete Steel Wire Strand from Mexico: Rescission of Antidumping Duty Administrative...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-06-09

    ... From the Federal Register Online via the Government Publishing Office DEPARTMENT OF COMMERCE INTERNATIONAL TRADE ADMINISTRATION Prestressed Concrete Steel Wire Strand from Mexico: Rescission of Antidumping... prestressed concrete steel wire strand (``PC Strand'') from Mexico for the period January 1, 2009...

  8. 7 CFR 1755.370 - RUS specification for seven wire galvanized steel strand.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 11 2014-01-01 2014-01-01 false RUS specification for seven wire galvanized steel... steel strand. (a) RUS incorporates by reference ASTM A475-78, Standard Specification for Zinc-Coated Steel Wire Strand, issued May 1978. All seven wire galvanized steel strand purchased after April 1,...

  9. 7 CFR 1755.370 - RUS specification for seven wire galvanized steel strand.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 11 2013-01-01 2013-01-01 false RUS specification for seven wire galvanized steel... steel strand. (a) RUS incorporates by reference ASTM A475-78, Standard Specification for Zinc-Coated Steel Wire Strand, issued May 1978. All seven wire galvanized steel strand purchased after April 1,...

  10. 7 CFR 1755.370 - RUS specification for seven wire galvanized steel strand.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 11 2012-01-01 2012-01-01 false RUS specification for seven wire galvanized steel... steel strand. (a) RUS incorporates by reference ASTM A475-78, Standard Specification for Zinc-Coated Steel Wire Strand, issued May 1978. All seven wire galvanized steel strand purchased after April 1,...

  11. 18 CFR 35.26 - Recovery of stranded costs by public utilities and transmitting utilities.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... requirements contract if such contract does not contain an exit fee or other explicit stranded cost provision... an exit fee or other explicit stranded cost provision, and the seller under the contract is a public... utility, and if the contract does not contain an exit fee or other explicit stranded cost provision,...

  12. 18 CFR 35.26 - Recovery of stranded costs by public utilities and transmitting utilities.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... requirements contract if such contract does not contain an exit fee or other explicit stranded cost provision... an exit fee or other explicit stranded cost provision, and the seller under the contract is a public... utility, and if the contract does not contain an exit fee or other explicit stranded cost provision,...

  13. Heart pathologies in dolphins stranded along the northwestern Italian coast.

    PubMed

    Scaglione, F E; Bollo, E; Pregel, P; Chiappino, L; Sereno, A; Mignone, W; Moschi, R; Garibaldi, F; Tittarelli, C; Guarda, F

    2013-11-25

    Nine striped dolphins Stenella coeruleoalba and 1 bottlenose dolphin Tursiops truncatus stranded along the Ligurian Sea coast of Italy were necropsied between February 2011 and April 2012. Macroscopic and histological findings were observed in the hearts of all animals and included saccular aneurysms of the pulmonary trunk (n = 3), cirsoid aneurysms (n = 1), right ventricular dilation (n = 1) associated with hypoplasia of the tricuspid chordae (n = 1), valvular fibrosis (n = 3), mitral leaflet thickening (n = 1), left ventricular hypertrophy (n = 1), lymphocytic myocarditis (n =1), and Lambl's excrescences (n = 4). To our best knowledge Lambl's excrescences, aneurysm of the pulmonary trunk, and cirsoid aneurysms have not previously been described in marine mammals, and some of these findings should be taken into account as possible causes of dolphin morbidity, mortality, and stranding.

  14. Single-Stranded DNA Curtains for Studying Homologous Recombination.

    PubMed

    Ma, C J; Steinfeld, J B; Greene, E C

    2017-01-01

    Homologous recombination is an important pathway involved in the repair of double-stranded DNA breaks. Genetic studies form the foundation of our knowledge on homologous recombination. Significant progress has also been made toward understanding the biochemical and biophysical properties of the proteins, complexes, and reaction intermediates involved in this essential DNA repair pathway. However, heterogeneous or transient recombination intermediates remain extremely difficult to assess through traditional ensemble methods, leaving an incomplete mechanistic picture of many steps that take place during homologous recombination. To help overcome some of these limitations, we have established DNA curtain methodologies as an experimental platform for studying homologous DNA recombination in real-time at the single-molecule level. Here, we present a detailed overview describing the preparation and use of single-stranded DNA curtains in applications related to the study of homologous DNA recombination with emphasis on recent work related to the study of the eukaryotic recombinase Rad51.

  15. Chromatin remodeling in DNA double-strand break repair.

    PubMed

    Bao, Yunhe; Shen, Xuetong

    2007-04-01

    ATP-dependent chromatin remodeling complexes use ATP hydrolysis to remodel nucleosomes and have well-established functions in transcription. However, emerging lines of evidence suggest that chromatin remodeling complexes are important players in DNA double-strand break (DSB) repair as well. The INO80 and SWI2 subfamilies of chromatin remodeling complexes have been found to be recruited to the double-strand lesions and to function directly in both homologous recombination and non-homologous end-joining, the two major conserved DSB repair pathways. Improperly repaired DSBs are implicated in cancer development in higher organisms. Understanding how chromatin remodeling complexes contribute to DSB repair should provide new insights into the mechanisms of carcinogenesis and might suggest new targets for cancer treatment.

  16. STRaND-2: Visual inspection, proximity operations & nanosatellite docking

    NASA Astrophysics Data System (ADS)

    Bridges, C. P.; Taylor, B.; Horri, N.; Underwood, C. I.; Kenyon, S.; Barrera-Ars, J.; Pryce, L.; Bird, R.

    The Surrey Training Research and Nanosatellite Demonstrator (STRaND) programme has been success in identifying and creating a leading low-cost nanosatellite programme with advanced attitude and orbit control system (AOCS) and experimental computing platforms based on smart-phone technologies. The next demonstration capabilities, that provide a challenging mission to the existing STRaND platform, is to perform visual inspection, proximity operations and nanosatellite docking. Visual inspection is to be performed using a COTS LIDAR system to estimate range and pose under 100 m. Proximity operations are controlled using a comprehensive guidance, navigation and control (GNC) loop in a polar form of the Hills Clohessy Wiltshire (HCW) frame including J2 perturbations. And finally, nanosatellite docking is performed at under 30 cm using a series of tuned magnetic coils. This paper will document the initial experiments and calculations used to qualify LIDAR components, size the mission thrust and tank requirements, and air cushion table demonstrations of the docking mechanism.

  17. HOMFLY polynomials in representation [3, 1] for 3-strand braids

    NASA Astrophysics Data System (ADS)

    Mironov, A.; Morozov, A.; Morozov, An.; Sleptsov, A.

    2016-09-01

    This paper is a new step in the project of systematic description of colored knot polynomials started in [1]. In this paper, we managed to explicitly find the inclusive Racah matrix, i.e. the whole set of mixing matrices in channels R ⊗3 -→ Q with all possible Q, for R = [3 , 1]. The calculation is made possible by the use of a newly-developed efficient highest-weight method, still it remains tedious. The result allows one to evaluate and investigate [3 , 1]-colored polynomials for arbitrary 3-strand knots, and this confirms many previous conjectures on various factorizations, universality, and differential expansions. We consider in some detail the next-to-twist-knots three-strand family ( n, -1 | 1 , -1) and deduce its colored HOMFLY. Also confirmed and clarified is the eigenvalue hypothesis for the Racah matrices, which promises to provide a shortcut to generic formulas for arbitrary representations.

  18. Scaling up digital circuit computation with DNA strand displacement cascades.

    PubMed

    Qian, Lulu; Winfree, Erik

    2011-06-03

    To construct sophisticated biochemical circuits from scratch, one needs to understand how simple the building blocks can be and how robustly such circuits can scale up. Using a simple DNA reaction mechanism based on a reversible strand displacement process, we experimentally demonstrated several digital logic circuits, culminating in a four-bit square-root circuit that comprises 130 DNA strands. These multilayer circuits include thresholding and catalysis within every logical operation to perform digital signal restoration, which enables fast and reliable function in large circuits with roughly constant switching time and linear signal propagation delays. The design naturally incorporates other crucial elements for large-scale circuitry, such as general debugging tools, parallel circuit preparation, and an abstraction hierarchy supported by an automated circuit compiler.

  19. Double-Stranded Water on Stepped Platinum Surfaces

    NASA Astrophysics Data System (ADS)

    Kolb, Manuel J.; Farber, Rachael G.; Derouin, Jonathan; Badan, Cansin; Calle-Vallejo, Federico; Juurlink, Ludo B. F.; Killelea, Daniel R.; Koper, Marc T. M.

    2016-04-01

    The interaction of platinum with water plays a key role in (electro)catalysis. Herein, we describe a combined theoretical and experimental study that resolves the preferred adsorption structure of water wetting the Pt(111)-step type with adjacent (111) terraces. Double stranded lines wet the step edge forming water tetragons with dissimilar hydrogen bonds within and between the lines. Our results qualitatively explain experimental observations of water desorption and impact our thinking of solvation at the Pt electrochemical interface.

  20. RNA STRAND: The RNA Secondary Structure and Statistical Analysis Database

    PubMed Central

    Andronescu, Mirela; Bereg, Vera; Hoos, Holger H; Condon, Anne

    2008-01-01

    Background The ability to access, search and analyse secondary structures of a large set of known RNA molecules is very important for deriving improved RNA energy models, for evaluating computational predictions of RNA secondary structures and for a better understanding of RNA folding. Currently there is no database that can easily provide these capabilities for almost all RNA molecules with known secondary structures. Results In this paper we describe RNA STRAND – the RNA secondary STRucture and statistical ANalysis Database, a curated database containing known secondary structures of any type and organism. Our new database provides a wide collection of known RNA secondary structures drawn from public databases, searchable and downloadable in a common format. Comprehensive statistical information on the secondary structures in our database is provided using the RNA Secondary Structure Analyser, a new tool we have developed to analyse RNA secondary structures. The information thus obtained is valuable for understanding to which extent and with which probability certain structural motifs can appear. We outline several ways in which the data provided in RNA STRAND can facilitate research on RNA structure, including the improvement of RNA energy models and evaluation of secondary structure prediction programs. In order to keep up-to-date with new RNA secondary structure experiments, we offer the necessary tools to add solved RNA secondary structures to our database and invite researchers to contribute to RNA STRAND. Conclusion RNA STRAND is a carefully assembled database of trusted RNA secondary structures, with easy on-line tools for searching, analyzing and downloading user selected entries, and is publicly available at . PMID:18700982

  1. Marine Mammals Ashore: A Field Guide for Strandings. Second Edition

    DTIC Science & Technology

    2005-01-01

    evidence of calicivirus infection in Atlantic marine mammals󈧨 . Poxvirus ( parapox ) skin lesions are common in stranded pinnipeds, particularly pups, and...poxvirus--a parapox virus that typically causes raised nodules on the head, neck, and flippers of infected animals-can cause painful, nodular skin...dolphin (Stenella North Pacific right whale (Eubalaena allenuata), 79, 83, 306 japonica), 79, 83, 287 Parapox . See Poxvirus Northern bottlenose whale

  2. Repair of DNA double strand breaks: in vivo biochemistry.

    PubMed

    Sugawara, Neal; Haber, James E

    2006-01-01

    Double strand breaks (DSBs) can cause damage to the genomic integrity of a cell as well as initiate genetic recombination processes. The HO and I-SceI endonucleases from budding yeast have provided a way to study these events by inducing a unique DSB in vivo under the control of a galactose-inducible promoter. The GAL::HO construct has been used extensively to study processes such as nonhomologous end joining, intra- and interchromosomal gene conversion, single strand annealing and break-induced recombination. Synchronously induced DSBs have also been important in the study of the DNA damage checkpoint, adaptation, and recovery pathways of yeast. This chapter describes methods of using GAL::HO to physically monitor the progression of events following a DSB, specifically the events leading to the switching of mating type by gene conversion of MAT using the silent donors at HML and HMR. Southern blot analysis can be used to follow the overall events in this process such as the formation of the DSB and product. Denaturing alkaline gels and slot blot techniques can be employed to follow the 5' to 3' resection of DNA starting at the DSB. After resection, the 3' tail initiates a homology search and then strand invades its homologous sequence at the donor cassette. Polymerase chain reaction is an important means to assay strand invasion and the priming of new DNA synthesis as well as the completion of gene conversion. Methods such as chromatin immunoprecipitation have provided a means to study many proteins that associate with a DSB, including not only recombination proteins, but also proteins involved in nonhomologous end joining, cell cycle arrest, chromatin remodeling, cohesin function, and mismatch repair.

  3. Structure of the guide-strand-containing argonaute silencing complex

    SciTech Connect

    Wang, Yanli; Sheng, Gang; Juranek, Stefan; Tuschl, Thomas; Patel, Dinshaw J.

    2009-01-15

    The slicer activity of the RNA-induced silencing complex is associated with argonaute, the RNase H-like PIWI domain of which catalyses guide-strand-mediated sequence-specific cleavage of target messenger RNA. Here we report on the crystal structure of Thermus thermophilus argonaute bound to a 5'-phosphorylated 21-base DNA guide strand, thereby identifying the nucleic-acid-binding channel positioned between the PAZ- and PIWI-containing lobes, as well as the pivot-like conformational changes associated with complex formation. The bound guide strand is anchored at both of its ends, with the solvent-exposed Watson-Crick edges of stacked bases 2 to 6 positioned for nucleation with the mRNA target, whereas two critically positioned arginines lock bases 10 and 11 at the cleavage site into an unanticipated orthogonal alignment. Biochemical studies indicate that key amino acid residues at the active site and those lining the 5'-phosphate-binding pocket made up of the Mid domain are critical for cleavage activity, whereas alterations of residues lining the 2-nucleotide 3'-end-binding pocket made up of the PAZ domain show little effect.

  4. Single strand transposition at the host replication fork

    PubMed Central

    Lavatine, Laure; He, Susu; Caumont-Sarcos, Anne; Guynet, Catherine; Marty, Brigitte; Chandler, Mick; Ton-Hoang, Bao

    2016-01-01

    Members of the IS200/IS605 insertion sequence family differ fundamentally from classical IS essentially by their specific single-strand (ss) transposition mechanism, orchestrated by the Y1 transposase, TnpA, a small HuH enzyme which recognizes and processes ss DNA substrates. Transposition occurs by the ‘peel and paste’ pathway composed of two steps: precise excision of the top strand as a circular ss DNA intermediate; and subsequent integration into a specific ssDNA target. Transposition of family members was experimentally shown or suggested by in silico high-throughput analysis to be intimately coupled to the lagging strand template of the replication fork. In this study, we investigated factors involved in replication fork targeting and analysed DNA-binding properties of the transposase which can assist localization of ss DNA substrates on the replication fork. We showed that TnpA interacts with the β sliding clamp, DnaN and recognizes DNA which mimics replication fork structures. We also showed that dsDNA can facilitate TnpA targeting ssDNA substrates. We analysed the effect of Ssb and RecA proteins on TnpA activity in vitro and showed that while RecA does not show a notable effect, Ssb inhibits integration. Finally we discuss the way(s) in which integration may be directed into ssDNA at the replication fork. PMID:27466393

  5. Commercial possibilities for stranded conventional gas from Alaska's North Slope

    USGS Publications Warehouse

    Attanasi, E.D.; Freeman, P.A.

    2014-01-01

    Stranded gas resources are defined for this study as gas resources in discrete accumulations that are not currently commercially producible, or producible at full potential, for either physical or economic reasons. Approximately 35 trillion cubic feet (TCF) of stranded gas was identified on Alaska’s North Slope. The commercialization of this resource requires facilities to transport gas to markets where sales revenue will be sufficient to offset the cost of constructing and operating a gas delivery system. With the advent of the shale gas revolution, plans for a gas pipeline to the conterminous US have been shelved (at least temporarily) and the State and resource owners are considering a liquefied natural gas (LNG) export project that targets Asian markets. This paper focuses on competitive conditions for Asian gas import markets by estimating delivered costs of competing supplies from central Asia, Russia, Indonesia, Malaysia, and Australia in the context of a range of import gas demand projections for the period from 2020 to 2040. These suppliers’ costs are based on the cost of developing, producing, and delivering to markets tranches of the nearly 600 TCF of recoverable gas from their own conventional stranded gas fields. The results of these analyses imply that Alaska’s gas exports to Asia will likely encounter substantial competitive challenges. The sustainability of Asia’s oil-indexed LNG pricing is also discussed in light of a potentially intense level of competition.

  6. Carbon Fiber Strand Tensile Failure Dynamic Event Characterization

    NASA Technical Reports Server (NTRS)

    Johnson, Kenneth L.; Reeder, James

    2016-01-01

    There are few if any clear, visual, and detailed images of carbon fiber strand failures under tension useful for determining mechanisms, sequences of events, different types of failure modes, etc. available to researchers. This makes discussion of physics of failure difficult. It was also desired to find out whether the test article-to-test rig interface (grip) played a part in some failures. These failures have nothing to do with stress rupture failure, thus representing a source of waste for the larger 13-00912 investigation into that specific failure type. Being able to identify or mitigate any competing failure modes would improve the value of the 13-00912 test data. The beginnings of the solution to these problems lay in obtaining images of strand failures useful for understanding physics of failure and the events leading up to failure. Necessary steps include identifying imaging techniques that result in useful data, using those techniques to home in on where in a strand and when in the sequence of events one should obtain imaging data.

  7. Load monitoring in multiwire strands by interwire ultrasonic measurements

    NASA Astrophysics Data System (ADS)

    Bartoli, Ivan; Phillips, Robert; Lanza di Scalea, Francesco; Salamone, Salvatore; Coccia, Stefano; Sikorsky, Charles S.

    2008-03-01

    Nearly 90% of the bridges in California are post-tensioned box-girders. Prestressing (PS) tendons are the main load-carrying components of these and other post-tensioned structures. Despite their criticality, much research is needed to develop and deploy techniques able to provide real-time information on the level of prestress and on the presence of structural defects (e.g. corrosion and broken wires) in the PS tendons. In collaboration with Caltrans, UCSD is investigating the combination of ultrasonic guided waves and embedded sensors as an approach to provide both prestress level monitoring and defect detection capabilities in concrete-embedded PS tendons. This paper will focus on the prestress level monitoring by first discussing the behavior of ultrasonic guided waves propagating in seven-wire, 0.6-in diameter twisted strands typically used in post-tensioned concrete structures. A semi-analytical finite element analysis is used to predict modal and forced wave solutions as a function of the applied prestress level. This analysis accounts for the changing inter-wire contact as a function of applied loads. A feature shown sensitive to load levels is the inter-wire energy leakage. In order to monitor such feature, the method uses low-profile piezoelectric sensors able to probe the individual, 0.2-in wires comprising the strand. Results of load monitoring in free and embedded strands during laboratory tests will be presented.

  8. Kinetics of DNA Strand Displacement Systems with Locked Nucleic Acids.

    PubMed

    Olson, Xiaoping; Kotani, Shohei; Yurke, Bernard; Graugnard, Elton; Hughes, William L

    2017-03-30

    Locked nucleic acids (LNAs) are conformationally restricted RNA nucleotides. Their increased thermal stability and selectivity toward their complements make them well-suited for diagnostic and therapeutic applications. Although the structural and thermodynamic properties of LNA-LNA, LNA-RNA, and LNA-DNA hybridizations are known, the kinetic effects of incorporating LNA nucleotides into DNA strand displacement systems are not. Here, we thoroughly studied the strand displacement kinetics as a function of the number and position of LNA nucleotides in DNA oligonucleotides. When compared to that of an all-DNA control, with an identical sequence, the leakage rate constant was reduced more than 50-fold, to an undetectable level, and the invasion rate was preserved for a hybrid DNA/LNA system. The total performance enhancement ratio also increased more than 70-fold when calculating the ratio of the invading rate to the leakage rate constants for a hybrid system. The rational substitution of LNA nucleotides for DNA nucleotides preserves sequence space while improving the signal-to-noise ratio of strand displacement systems. Hybrid DNA/LNA systems offer great potential for high-performance chemical reaction networks that include catalyzed hairpin assemblies, hairpin chain reactions, motors, walkers, and seesaw gates.

  9. A novel bio-sensor based on DNA strand displacement.

    PubMed

    Shi, Xiaolong; Wang, Zhiyu; Deng, Chenyan; Song, Tao; Pan, Linqiang; Chen, Zhihua

    2014-01-01

    DNA strand displacement technology performs well in sensing and programming DNA segments. In this work, we construct DNA molecular systems based on DNA strand displacement performing computation of logic gates. Specifically, a class of so-called "DNA neurons" are achieved, in which a "smart" way inspired by biological neurons encoding information is developed to encode and deliver information using DNA molecules. The "DNA neuron" is bistable, that is, it can sense DNA molecules as input signals, and release "negative" or "positive" signals DNA molecules. We design intelligent DNA molecular systems that are constructed by cascading some particularly organized "DNA neurons", which could perform logic computation, including AND, OR, XOR logic gates, automatically. Both simulation results using visual DSD (DNA strand displacement) software and experimental results are obtained, which shows that the proposed systems can detect DNA signals with high sensitivity and accretion; moreover, the systems can process input signals automatically with complex nonlinear logic. The method proposed in this work may provide a new way to construct a sensitive molecular signal detection system with neurons spiking behavior in vitro, and can be used to develop intelligent molecular processing systems in vivo.

  10. Direct observation of single flexible polymers using single stranded DNA†

    PubMed Central

    Brockman, Christopher; Kim, Sun Ju

    2012-01-01

    Over the last 15 years, double stranded DNA (dsDNA) has been used as a model polymeric system for nearly all single polymer dynamics studies. However, dsDNA is a semiflexible polymer with markedly different molecular properties compared to flexible chains, including synthetic organic polymers. In this work, we report a new system for single polymer studies of flexible chains based on single stranded DNA (ssDNA). We developed a method to synthesize ssDNA for fluorescence microscopy based on rolling circle replication, which generates long strands (>65 kb) of ssDNA containing “designer” sequences, thereby preventing intramolecular base pair interactions. Polymers are synthesized to contain amine-modified bases randomly distributed along the backbone, which enables uniform labelling of polymer chains with a fluorescent dye to facilitate fluorescence microscopy and imaging. Using this approach, we synthesized ssDNA chains with long contour lengths (>30 μm) and relatively low dye loading ratios (~1 dye per 100 bases). In addition, we used epifluorescence microscopy to image single ssDNA polymer molecules stretching in flow in a microfluidic device. Overall, we anticipate that ssDNA will serve as a useful model system to probe the dynamics of polymeric materials at the molecular level. PMID:22956981

  11. High-pressure liquid-monopropellant strand combustion.

    NASA Technical Reports Server (NTRS)

    Faeth, G. M.

    1972-01-01

    Examination of the influence of dissolved gases on the state of the liquid surface during high-pressure liquid-monopropellant combustion through the use of a strand burning experiment. Liquid surface temperatures were measured, using fine-wire thermocouples, during the strand combustion of ethyl nitrate, normal propyl nitrate, and propylene glycol dinitrate at pressures up to 81 atm. These measurements were compared with the predictions of a variable-property gas-phase analysis assuming an infinite activation energy for the decomposition reaction. The state of the liquid surface was estimated using a conventional low-pressure phase equilibrium model, as well as a high-pressure version that considered the presence of dissolved combustion-product gases in the liquid phase. The high-pressure model was found to give a superior prediction of measured liquid surface temperatures. Computed total pressures required for the surface to reach its critical mixing point during strand combustion were found to be in the range from 2.15 to 4.62 times the critical pressure of the pure propellant. Computed dissolved gas concentrations at the liquid surface were in the range from 35 to 50% near the critical combustion condition.

  12. Yields of single-strand breaks in double-stranded calf thymus DNA irradiated in aqueous solution in the presence of oxygen and scavengers

    SciTech Connect

    Udovicic, Lj.; Mark, F.; Bothe, E.

    1994-11-01

    Yields of radiation-induced single-strand breaks in double-stranded calf thymus DNA have been measured as a function of OH scavenger concentration in N{sub 2}O/O{sub 2}-saturated aqueous solution. The experimental data are well represented by a theoretical model based on non-homogeneous reaction kinetics, without the need to adjust any parameter. The good agreement between experimental and theoretical data is taken as evidence that, in the presence of oxygen, the main effect of added scavengers with respect to the formation of single-strand breaks in double-stranded DNA is OH radical scavenging. 30 refs., 3 figs., 1 tab.

  13. Markers of Decompression Stress of Mass Stranded/Live Caught and Released vs. Single Stranded Marine Mammals

    DTIC Science & Technology

    2014-09-30

    last dive. Aims 2 and 3: We have sampled and analyzed single and mass stranded dolphins (Aim 2) and live- restrained dolphins (Aim 3) for MPs. We...data. Aim 3: In the third year, blood samples from wild-caught dolphins in Sarasota were collected and analyzed for MPs concentrations for Pre...caught dolphins in Sarasota, Florida, were analyzed for MPs. The samples were obtained Pre-, Mid-, and Post-procedure. Whilst earlier analysis of

  14. Homologous DNA strand exchange activity of the human mitochondrial DNA helicase TWINKLE

    PubMed Central

    Sen, Doyel; Patel, Gayatri; Patel, Smita S.

    2016-01-01

    A crucial component of the human mitochondrial DNA replisome is the ring-shaped helicase TWINKLE—a phage T7-gene 4-like protein expressed in the nucleus and localized in the human mitochondria. Our previous studies showed that despite being a helicase, TWINKLE has unique DNA annealing activity. At the time, the implications of DNA annealing by TWINKLE were unclear. Herein, we report that TWINKLE uses DNA annealing function to actively catalyze strand-exchange reaction between the unwinding substrate and a homologous single-stranded DNA. Using various biochemical experiments, we demonstrate that the mechanism of strand-exchange involves active coupling of unwinding and annealing reactions by the TWINKLE. Unlike strand-annealing, the strand-exchange reaction requires nucleotide hydrolysis and greatly stimulated by short region of homology between the recombining DNA strands that promote joint molecule formation to initiate strand-exchange. Furthermore, we show that TWINKLE catalyzes branch migration by resolving homologous four-way junction DNA. These four DNA modifying activities of TWINKLE: strand-separation, strand-annealing, strand-exchange and branch migration suggest a dual role of TWINKLE in mitochondrial DNA maintenance. In addition to playing a major role in fork progression during leading strand DNA synthesis, we propose that TWINKLE is involved in recombinational repair of the human mitochondrial DNA. PMID:26887820

  15. E. coli recA protein possesses a strand separating activity on short duplex DNAs.

    PubMed Central

    Bianchi, M; Riboli, B; Magni, G

    1985-01-01

    RecA protein was found to catalyze the dissociation of the strands of a DNA substrate consisting of a 20-nucleotide primer annealed to circular single-stranded M13mp DNA. The strand separation reaction requires ATP hydrolysis and the presence of single-stranded DNA flanking the duplex DNA region to be unwound. RecA-catalyzed strand separation is effective only for very short duplexes, not exceeding 30 bp, and is not stimulated by single-stranded DNA-binding protein. These results are consistent with the ability of recA protein to disrupt regions of secondary structure in single-stranded DNA and to incorporate large non-homologies into heteroduplex DNA. Images Fig. 2. Fig. 3. Fig. 4. Fig. 5. Fig. 3. PMID:3905387

  16. The experimental evaluation of FBG sensors for strain measurement of prestressed steel strand

    NASA Astrophysics Data System (ADS)

    Li, Enbang; Xi, Jiangtao; Chicharo, Joe F.; Liu, Tiegen; Li, Xin; Jiang, Junfeng; Li, Lina; Wang, Yunxin; Zhang, Yimo

    2005-02-01

    Multi-wire steel strands have been widely used in various prestressed concrete structures. In this study, experimental evaluation of fiber Bragg grating (FBG) sensors for strain measurements in a seven-wire prestressed steel strand has been carried out. An installation technique of FBG sensors has been developed to fulfill the special requirements of the prestressed steel strand. The experiment results show that fiber Bragg gratings can represent the overall stress of the prestressed steel strand without being affected by the specific structure of the strand when it is only fixed on one wire. It is also demonstrated that the maximum strain that the FBG sensor can measure is 6260 μɛ, while the prestressed steel strand usually endures the strain greater than 10000 μɛ. This means that an offset of about 4000 μɛ is necessary to measure the maximum strain that the strand could experience in its applications.

  17. Simulation of the cabling process for Rutherford cables: An advanced finite element model

    NASA Astrophysics Data System (ADS)

    Cabanes, J.; Garlasche, M.; Bordini, B.; Dallocchio, A.

    2016-12-01

    In all existing large particle accelerators (Tevatron, HERA, RHIC, LHC) the main superconducting magnets are based on Rutherford cables, which are characterized by having: strands fully transposed with respect to the magnetic field, a significant compaction that assures a large engineering critical current density and a geometry that allows efficient winding of the coils. The Nb3Sn magnets developed in the framework of the HL-LHC project for improving the luminosity of the Large Hadron Collider (LHC) are also based on Rutherford cables. Due to the characteristics of Nb3Sn wires, the cabling process has become a crucial step in the magnet manufacturing. During cabling the wires experience large plastic deformations that strongly modify the geometrical dimensions of the sub-elements constituting the superconducting strand. These deformations are particularly severe on the cable edges and can result in a significant reduction of the cable critical current as well as of the Residual Resistivity Ratio (RRR) of the stabilizing copper. In order to understand the main parameters that rule the cabling process and their impact on the cable performance, CERN has developed a 3D Finite Element (FE) model based on the LS-Dyna® software that simulates the whole cabling process. In the paper the model is presented together with a comparison between experimental and numerical results for a copper cable produced at CERN.

  18. Heavy Metal Exposure Influences Double Strand Break DNA Repair Outcomes

    PubMed Central

    Morales, Maria E.; Derbes, Rebecca S.; Ade, Catherine M.; Ortego, Jonathan C.; Stark, Jeremy; Deininger, Prescott L.; Roy-Engel, Astrid M.

    2016-01-01

    Heavy metals such as cadmium, arsenic and nickel are classified as carcinogens. Although the precise mechanism of carcinogenesis is undefined, heavy metal exposure can contribute to genetic damage by inducing double strand breaks (DSBs) as well as inhibiting critical proteins from different DNA repair pathways. Here we take advantage of two previously published culture assay systems developed to address mechanistic aspects of DNA repair to evaluate the effects of heavy metal exposures on competing DNA repair outcomes. Our results demonstrate that exposure to heavy metals significantly alters how cells repair double strand breaks. The effects observed are both specific to the particular metal and dose dependent. Low doses of NiCl2 favored resolution of DSBs through homologous recombination (HR) and single strand annealing (SSA), which were inhibited by higher NiCl2 doses. In contrast, cells exposed to arsenic trioxide preferentially repaired using the “error prone” non-homologous end joining (alt-NHEJ) while inhibiting repair by HR. In addition, we determined that low doses of nickel and cadmium contributed to an increase in mutagenic recombination-mediated by Alu elements, the most numerous family of repetitive elements in humans. Sequence verification confirmed that the majority of the genetic deletions were the result of Alu-mediated non-allelic recombination events that predominantly arose from repair by SSA. All heavy metals showed a shift in the outcomes of alt-NHEJ repair with a significant increase of non-templated sequence insertions at the DSB repair site. Our data suggest that exposure to heavy metals will alter the choice of DNA repair pathway changing the genetic outcome of DSBs repair. PMID:26966913

  19. Heavy Metal Exposure Influences Double Strand Break DNA Repair Outcomes.

    PubMed

    Morales, Maria E; Derbes, Rebecca S; Ade, Catherine M; Ortego, Jonathan C; Stark, Jeremy; Deininger, Prescott L; Roy-Engel, Astrid M

    2016-01-01

    Heavy metals such as cadmium, arsenic and nickel are classified as carcinogens. Although the precise mechanism of carcinogenesis is undefined, heavy metal exposure can contribute to genetic damage by inducing double strand breaks (DSBs) as well as inhibiting critical proteins from different DNA repair pathways. Here we take advantage of two previously published culture assay systems developed to address mechanistic aspects of DNA repair to evaluate the effects of heavy metal exposures on competing DNA repair outcomes. Our results demonstrate that exposure to heavy metals significantly alters how cells repair double strand breaks. The effects observed are both specific to the particular metal and dose dependent. Low doses of NiCl2 favored resolution of DSBs through homologous recombination (HR) and single strand annealing (SSA), which were inhibited by higher NiCl2 doses. In contrast, cells exposed to arsenic trioxide preferentially repaired using the "error prone" non-homologous end joining (alt-NHEJ) while inhibiting repair by HR. In addition, we determined that low doses of nickel and cadmium contributed to an increase in mutagenic recombination-mediated by Alu elements, the most numerous family of repetitive elements in humans. Sequence verification confirmed that the majority of the genetic deletions were the result of Alu-mediated non-allelic recombination events that predominantly arose from repair by SSA. All heavy metals showed a shift in the outcomes of alt-NHEJ repair with a significant increase of non-templated sequence insertions at the DSB repair site. Our data suggest that exposure to heavy metals will alter the choice of DNA repair pathway changing the genetic outcome of DSBs repair.

  20. A strand invasion 3' polymerization intermediate of mammalian homologous recombination.

    PubMed

    Si, Weiduo; Mundia, Maureen M; Magwood, Alissa C; Mark, Adam L; McCulloch, Richard D; Baker, Mark D

    2010-06-01

    Initial events in double-strand break repair by homologous recombination in vivo involve homology searching, 3' strand invasion, and new DNA synthesis. While studies in yeast have contributed much to our knowledge of these processes, in comparison, little is known of the early events in the integrated mammalian system. In this study, a sensitive PCR procedure was developed to detect the new DNA synthesis that accompanies mammalian homologous recombination. The test system exploits a well-characterized gene targeting assay in which the transfected vector bears a gap in the region of homology to the single-copy chromosomal immunoglobulin mu heavy chain gene in mouse hybridoma cells. New DNA synthesis primed by invading 3' vector ends copies chromosomal mu-gene template sequences excluded by the vector-borne double-stranded gap. Following electroporation, specific 3' extension products from each vector end are detected with rapid kinetics: they appear after 0.5 hr, peak at 3-6 hr, and then decline, likely as a result of the combined effects of susceptibility to degradation and cell division. New DNA synthesis from each vector 3' end extends at least approximately 1000 nucleotides into the gapped region, but the efficiency declines markedly within the first approximately 200 nucleotides. Over this short distance, an average frequency of 3' extension for the two invading vector ends is approximately 0.007 events/vector backbone. DNA sequencing reveals precise copying of the cognate chromosomal mu-gene template. In unsynchronized cells, 3' extension is sensitive to aphidicolin supporting involvement of a replicative polymerase. Analysis suggests that the vast majority of 3' extensions reside on linear plasmid molecules.

  1. The growing problem of stranded used nuclear fuel.

    PubMed

    Alley, William M; Alley, Rosemarie

    2014-02-18

    By 2050, almost all U.S. nuclear reactors will have reached their 60 year maximum expected life. Many will shut down sooner. With no assurance that the current approach for finding a geologic repository or interim storage sites will succeed, used nuclear fuel could be stranded indefinitely at more than 70 sites in 35 states. Societal discussions about the future of nuclear waste should be framed in terms of the relative risks of all alternatives. We review and compare onsite storage, interim storage, and a geologic repository, as well as how these alternatives are presented to the public.

  2. Adenosine triphosphatases of thermophilic archaeal double-stranded DNA viruses

    PubMed Central

    2014-01-01

    Adenosine triphosphatases (ATPases) of double-stranded (ds) DNA archaeal viruses are structurally related to the AAA+ hexameric helicases and translocases. These ATPases have been implicated in viral life cycle functions such as DNA entry into the host, and viral genome packaging into preformed procapsids. We summarize bioinformatical analyses of a wide range of archaeal ATPases, and review the biochemical and structural properties of those archaeal ATPases that have measurable ATPase activity. We discuss their potential roles in genome delivery into the host, virus assembly and genome packaging in comparison to hexameric helicases and packaging motors from bacteriophages. PMID:25105011

  3. Chromatin organization and dynamics in double-strand break repair.

    PubMed

    Seeber, Andrew; Gasser, Susan M

    2016-10-31

    Chromatin is organized and segmented into a landscape of domains that serve multiple purposes. In contrast to transcription, which is controlled by defined sequences at distinct sites, DNA damage can occur anywhere. Repair accordingly must occur everywhere, yet it is inevitably affected by its chromatin environment. In this review, we summarize recent work investigating how changes in chromatin organization facilitate and/or guide DNA double-strand break repair. In addition, we examine new live cell studies on the dynamics of chromatin and the mechanisms that regulate its movement.

  4. Nucleosome remodelers in double-strand break repair.

    PubMed

    Seeber, Andrew; Hauer, Michael; Gasser, Susan M

    2013-04-01

    ATP-dependent nucleosome remodelers use ATP hydrolysis to shift, evict and exchange histone dimers or octamers and have well-established roles in transcription. Earlier work has suggested a role for nucleosome remodelers such as INO80 in double-strand break (DSB) repair. This review will begin with an update on recent studies that explore how remodelers are recruited to DSBs. We then examine their impact on various steps of repair, focusing on resection and the formation of the Rad51-ssDNA nucleofilament. Finally, we will explore new studies that implicate remodelers in the physical movement of chromatin in response to damage.

  5. DNA in motion during double-strand break repair.

    PubMed

    Miné-Hattab, Judith; Rothstein, Rodney

    2013-11-01

    DNA organization and dynamics profoundly affect many biological processes such as gene regulation and DNA repair. In this review, we present the latest studies on DNA mobility in the context of DNA damage. Recent studies demonstrate that DNA mobility is dramatically increased in the presence of double-strand breaks (DSBs) in the yeast Saccharomyces cerevisiae. As a consequence, chromosomes explore a larger nuclear volume, facilitating homologous pairing but also increasing the rate of ectopic recombination. Increased DNA dynamics is dependent on several homologous recombination (HR) proteins and we are just beginning to understand how chromosome dynamics is regulated after DNA damage.

  6. Herpetic keratoconjunctivitis: Therapy with synthetic double-stranded RNA

    USGS Publications Warehouse

    Friedman, I.; Evans, C.; Meighan, C.W.; Foote, L.J.; Aiello, P.V.; Park, J.H.; Baron, S.

    1968-01-01

    A study was undertaken in rabbits to determine how late in the course of keratoconjunctivitis caused by herpes simplex recovery could be effected by an inducer of interferon. Interferon was induced by means of synthetic double-stranded RNA copolymer formed with polynosinic acid : polycytidilic acid RNA. Therapy promotes recovery from severe and fully established keratoconjunctivitis for which treatment was begun as late as 3 days after virus inoculation. No drug toxicity was observed in the therapeutic dose range. These findings further support the proposed role of the interferon mechanism in the natural recovery of already established viral infection. They also suggest the usefulness of interferon inducers in viral infections of man.

  7. Acoustic emission strand burning technique for motor burning rate prediction

    NASA Technical Reports Server (NTRS)

    Christensen, W. N.

    1978-01-01

    An acoustic emission (AE) method is being used to measure the burning rate of solid propellant strands. This method has a precision of 0.5% and excellent burning rate correlation with both subscale and large rocket motors. The AE procedure burns the sample under water and measures the burning rate from the acoustic output. The acoustic signal provides a continuous readout during testing, which allows complete data analysis rather than the start-stop clockwires used by the conventional method. The AE method helps eliminate such problems as inhibiting the sample, pressure increase and temperature rise, during testing.

  8. Caenorhabditis elegans ALG-1 antimorphic mutations uncover functions for Argonaute in microRNA guide strand selection and passenger strand disposal.

    PubMed

    Zinovyeva, Anna Y; Veksler-Lublinsky, Isana; Vashisht, Ajay A; Wohlschlegel, James A; Ambros, Victor R

    2015-09-22

    MicroRNAs are regulators of gene expression whose functions are critical for normal development and physiology. We have previously characterized mutations in a Caenorhabditis elegans microRNA-specific Argonaute ALG-1 (Argonaute-like gene) that are antimorphic [alg-1(anti)]. alg-1(anti) mutants have dramatically stronger microRNA-related phenotypes than animals with a complete loss of ALG-1. ALG-1(anti) miRISC (microRNA induced silencing complex) fails to undergo a functional transition from microRNA processing to target repression. To better understand this transition, we characterized the small RNA and protein populations associated with ALG-1(anti) complexes in vivo. We extensively characterized proteins associated with wild-type and mutant ALG-1 and found that the mutant ALG-1(anti) protein fails to interact with numerous miRISC cofactors, including proteins known to be necessary for target repression. In addition, alg-1(anti) mutants dramatically overaccumulated microRNA* (passenger) strands, and immunoprecipitated ALG-1(anti) complexes contained nonstoichiometric yields of mature microRNA and microRNA* strands, with some microRNA* strands present in the ALG-1(anti) Argonaute far in excess of the corresponding mature microRNAs. We show complex and microRNA-specific defects in microRNA strand selection and microRNA* strand disposal. For certain microRNAs (for example mir-58), microRNA guide strand selection by ALG-1(anti) appeared normal, but microRNA* strand release was inefficient. For other microRNAs (such as mir-2), both the microRNA and microRNA* strands were selected as guide by ALG-1(anti), indicating a defect in normal specificity of the strand choice. Our results suggest that wild-type ALG-1 complexes recognize structural features of particular microRNAs in the context of conducting the strand selection and microRNA* ejection steps of miRISC maturation.

  9. Caenorhabditis elegans ALG-1 antimorphic mutations uncover functions for Argonaute in microRNA guide strand selection and passenger strand disposal

    PubMed Central

    Zinovyeva, Anna Y.; Veksler-Lublinsky, Isana; Vashisht, Ajay A.; Wohlschlegel, James A.; Ambros, Victor R.

    2015-01-01

    MicroRNAs are regulators of gene expression whose functions are critical for normal development and physiology. We have previously characterized mutations in a Caenorhabditis elegans microRNA-specific Argonaute ALG-1 (Argonaute-like gene) that are antimorphic [alg-1(anti)]. alg-1(anti) mutants have dramatically stronger microRNA-related phenotypes than animals with a complete loss of ALG-1. ALG-1(anti) miRISC (microRNA induced silencing complex) fails to undergo a functional transition from microRNA processing to target repression. To better understand this transition, we characterized the small RNA and protein populations associated with ALG-1(anti) complexes in vivo. We extensively characterized proteins associated with wild-type and mutant ALG-1 and found that the mutant ALG-1(anti) protein fails to interact with numerous miRISC cofactors, including proteins known to be necessary for target repression. In addition, alg-1(anti) mutants dramatically overaccumulated microRNA* (passenger) strands, and immunoprecipitated ALG-1(anti) complexes contained nonstoichiometric yields of mature microRNA and microRNA* strands, with some microRNA* strands present in the ALG-1(anti) Argonaute far in excess of the corresponding mature microRNAs. We show complex and microRNA-specific defects in microRNA strand selection and microRNA* strand disposal. For certain microRNAs (for example mir-58), microRNA guide strand selection by ALG-1(anti) appeared normal, but microRNA* strand release was inefficient. For other microRNAs (such as mir-2), both the microRNA and microRNA* strands were selected as guide by ALG-1(anti), indicating a defect in normal specificity of the strand choice. Our results suggest that wild-type ALG-1 complexes recognize structural features of particular microRNAs in the context of conducting the strand selection and microRNA* ejection steps of miRISC maturation. PMID:26351692

  10. Language Variation and Change in the Australian Curriculum English: Integrating Sub-Strands through a Pedagogy of Metalogue

    ERIC Educational Resources Information Center

    Willis, Linda-Dianne; Exley, Beryl

    2016-01-01

    The Language Strand of the Australian Curriculum: English (Australian Curriculum, Assessment & Reporting Authority (ACARA), 2016b) includes the sub-strand of "Language Variation and Change". This sub-strand is a marked space for discovery and discussion of the history and politics of language use. As such, this sub-strand points to…

  11. 75 FR 38977 - Pre-Stressed Concrete Steel Wire Strand from the People's Republic of China: Notice of Amended...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-07-07

    ... International Trade Administration Pre-Stressed Concrete Steel Wire Strand from the People's Republic of China... concrete steel wire strand (PC strand) from the People's Republic of China (PRC). On June 22, 2010, the ITC...-Stressed Concrete Steel Wire Strand from the People's Republic of China, USITC Pub. 4162, Inv. Nos....

  12. Verification and validation of the Spalart-Allmaras turbulence model for strand grids

    NASA Astrophysics Data System (ADS)

    Tong, Oisin

    The strand-Cartesian grid approach provides many advantages for complex moving- body flow simulations, including fully-automatic volume grid generation, highly scalable domain connectivity, and high-order accuracy. In this work the Spalart-Allmaras model is implemented, verified, and validated for high Reynolds number turbulent flows in a strand- Cartesian solver. Second-order convergence is achieved using the Method of Manufactured Solutions implying correct implementation of the turbulence model. By using the NASA- Langley online resource, specific flow cases are validated with two independent compressible codes: FUN3D and CFL3D. The strand solver is validated with zero-pressure gradient flat plate and bump-in-channel cases, and shows excellent agreement with FUN3D and CFL3D for various aspects of turbulent flow, including: velocity profiles, turbulent viscosity profile, coefficient of surface pressure, and drag. Methods of handling sharp corners with strand grids through combinations of strand vector smoothing, multiple strands emanating from a single surface node, and telescoping Cartesian refinement into corner regions of the near- body grid are investigated for a NACA 0012 case. For standard viscous high-aspect ratio grids, smoothed strands with telescoping Cartesian refinement provide the most accurate results with the least complexity. Mesh discontinuities associated with use of multiple strands at sharp corners produce more error than with smoothed strands. With both strand approaches -- vector smoothing and multiple strands -- targeted Cartesian refinement is critical to capture features near sharp corners where strand grids alone are too coarse to capture. Other results show agreement with FUN3D and CFL3D. By using strand vector smoothing and telescoping Cartesian refinement, a NACA 4412 trailing edge separation case is validated with comparison against CFL3D and FUN3D. Velocity profiles show reasonable agreement with CFL3D; however implementing

  13. Targeted guanine oxidation by a dinuclear copper(II) complex at single stranded/double stranded DNA junctions.

    PubMed

    Li, Lei; Murthy, Narasimha N; Telser, Joshua; Zakharov, Lev N; Yap, Glenn P A; Rheingold, Arnold L; Karlin, Kenneth D; Rokita, Steven E

    2006-09-04

    A dinuclear copper(II) complex [Cu(II)2(PD'O-)(H2O)2](ClO4)3 (5) with terminal Cu(II)-H(2)O moieties and a Cu...Cu distance of 4.13 A (X-ray structure) has been synthesized and characterized by EPR spectroscopy (ferromagnetic coupling observed) and cyclic voltammetry. Dizinc(II) and mononuclear copper(II) analogues [Zn(II)2(PD'O-)(H2O)2]3+ (7) and [Cu(II)(mPD'OH)(H2O)]2+ (6), respectively, have also been synthesized and structurally characterized. Reacting 5/MPA/O(2) (MPA = 3-mercaptopropionic acid) with DNA leads to a highly specific oxidation of guanine (G) at a junction between single- and double-stranded DNA. Mass spectrometric analysis of the major products indicates a gain of +18 and +34 amu relative to initial DNA strands. The most efficient reaction requires G at the first and second unpaired positions of each strand extending from the junction. Less reaction is observed for analogous targets in which the G cluster is farther from the junction or contains less than four Gs. Consistent with our previous systems, the multinuclear copper center is required for selective reaction; mononuclear complex 6 is not effective. Hydrogen peroxide as a substitute for MPA/O2 also does not lead to activity. Structural analysis of a [Cu(II)2(PD'O-)(G)]3+ complex (8) and dizinc analogue [Zn(II)(2)(PD'O-)(G)](ClO4)3 (9) (G = guanosine) reveals coordination of the G O6 and N7 atoms with the two copper (or zinc) centers and suggests that copper-G coordination likely plays a role in recognition of the DNA target. The Cu2-O2 intermediate responsible for guanine oxidation appears to be different from that responsible for direct-strand scission induced by other multinuclear copper complexes; the likely course of reaction is discussed.

  14. Genome-wide mapping of DNA strand breaks.

    PubMed

    Leduc, Frédéric; Faucher, David; Bikond Nkoma, Geneviève; Grégoire, Marie-Chantal; Arguin, Mélina; Wellinger, Raymund J; Boissonneault, Guylain

    2011-02-25

    Determination of cellular DNA damage has so far been limited to global assessment of genome integrity whereas nucleotide-level mapping has been restricted to specific loci by the use of specific primers. Therefore, only limited DNA sequences can be studied and novel regions of genomic instability can hardly be discovered. Using a well-characterized yeast model, we describe a straightforward strategy to map genome-wide DNA strand breaks without compromising nucleotide-level resolution. This technique, termed "damaged DNA immunoprecipitation" (dDIP), uses immunoprecipitation and the terminal deoxynucleotidyl transferase-mediated dUTP-biotin end-labeling (TUNEL) to capture DNA at break sites. When used in combination with microarray or next-generation sequencing technologies, dDIP will allow researchers to map genome-wide DNA strand breaks as well as other types of DNA damage and to establish a clear profiling of altered genes and/or intergenic sequences in various experimental conditions. This mapping technique could find several applications for instance in the study of aging, genotoxic drug screening, cancer, meiosis, radiation and oxidative DNA damage.

  15. Dynamic control of strand excision during human DNA mismatch repair.

    PubMed

    Jeon, Yongmoon; Kim, Daehyung; Martín-López, Juana V; Lee, Ryanggeun; Oh, Jungsic; Hanne, Jeungphill; Fishel, Richard; Lee, Jong-Bong

    2016-03-22

    Mismatch repair (MMR) is activated by evolutionarily conserved MutS homologs (MSH) and MutL homologs (MLH/PMS). MSH recognizes mismatched nucleotides and form extremely stable sliding clamps that may be bound by MLH/PMS to ultimately authorize strand-specific excision starting at a distant 3'- or 5'-DNA scission. The mechanical processes associated with a complete MMR reaction remain enigmatic. The purified human (Homo sapien or Hs) 5'-MMR excision reaction requires the HsMSH2-HsMSH6 heterodimer, the 5' → 3' exonuclease HsEXOI, and the single-stranded binding heterotrimer HsRPA. The HsMLH1-HsPMS2 heterodimer substantially influences 5'-MMR excision in cell extracts but is not required in the purified system. Using real-time single-molecule imaging, we show that HsRPA or Escherichia coli EcSSB restricts HsEXOI excision activity on nicked or gapped DNA. HsMSH2-HsMSH6 activates HsEXOI by overcoming HsRPA/EcSSB inhibition and exploits multiple dynamic sliding clamps to increase tract length. Conversely, HsMLH1-HsPMS2 regulates tract length by controlling the number of excision complexes, providing a link to 5' MMR.

  16. The RNA synthesis machinery of negative-stranded RNA viruses

    SciTech Connect

    Ortín, Juan; Martín-Benito, Jaime

    2015-05-15

    The group of Negative-Stranded RNA Viruses (NSVs) includes many human pathogens, like the influenza, measles, mumps, respiratory syncytial or Ebola viruses, which produce frequent epidemics of disease and occasional, high mortality outbreaks by transmission from animal reservoirs. The genome of NSVs consists of one to several single-stranded, negative-polarity RNA molecules that are always assembled into mega Dalton-sized complexes by association to many nucleoprotein monomers. These RNA-protein complexes or ribonucleoproteins function as templates for transcription and replication by action of the viral RNA polymerase and accessory proteins. Here we review our knowledge on these large RNA-synthesis machines, including the structure of their components, the interactions among them and their enzymatic activities, and we discuss models showing how they perform the virus transcription and replication programmes. - Highlights: • Overall organisation of NSV RNA synthesis machines. • Structure and function of the ribonucleoprotein components: Atomic structure of the RNA polymerase complex. • Commonalities and differences between segmented- and non-segmented NSVs. • Transcription versus replication programmes.

  17. Entropy in DNA Double-Strand Break, Detection and Signaling

    NASA Astrophysics Data System (ADS)

    Zhang, Yang; Schindler, Christina; Heermann, Dieter

    2014-03-01

    In biology, the term entropy is often understood as a measure of disorder - a restrictive interpretation that can even be misleading. Recently it has become clearer and clearer that entropy, contrary to conventional wisdom, can help to order and guide biological processes in living cells. DNA double-strand breaks (DSBs) are among the most dangerous lesions and efficient damage detection and repair is essential for organism viability. However, what remains unknown is the precise mechanism of targeting the site of damage within billions of intact nucleotides and a crowded nuclear environment, a process which is often referred to as recruitment or signaling. Here we show that the change in entropy associated with inflicting a DSB facilitates the recruitment of damage sensor proteins. By means of computational modeling we found that higher mobility and local chromatin structure accelerate protein association at DSB ends. We compared the effect of different chromatin architectures on protein dynamics and concentrations in the vicinity of DSBs, and related these results to experiments on repair in heterochromatin. Our results demonstrate how entropy contributes to a more efficient damage detection. We identify entropy as the physical basis for DNA double-strand break signaling.

  18. Dynamics of single-stranded DNA tethered to a solid

    NASA Astrophysics Data System (ADS)

    Radiom, Milad; Paul, Mark R.; Ducker, William A.

    2016-06-01

    Tethering is used to deliver specific biological and industrial functions. For example, single-stranded DNA (ssDNA) is tethered to polymerases and long sequences of double-stranded DNA (dsDNA) during replication, and to solids in DNA microarrays. However, tethering ssDNA to a large object limits not only the available ssDNA conformations, but also the range of time-scales over which the mechanical responses of ssDNA are important. In this work we examine the effect of tethering by measurement of the mechanical response of ssDNA that is tethered at each end to two separate atomic force microscope cantilevers in aqueous solution. Thermal motion of the cantilevers drives the ends of the ssDNA chain at frequencies near 2 kHz. The presence of a tethered molecule makes a large difference to the asymmetric cross-correlation of two cantilevers, which enables resolution of the mechanical properties in our experiments. By analysis of the correlated motion of the cantilevers we extract the friction and stiffness of the ssDNA. We find that the measured friction is much larger than the friction that is usually associated with the unencumbered motion of ssDNA. We also find that the measured relaxation time, ∼30 μs, is much greater than prior measurements of the free-molecule relaxation time. We attribute the difference to the loss of conformational possibilities as a result of constraining the ends of the ssDNA.

  19. DNA strand scission induced by adriamycin and aclacinomycin A.

    PubMed

    Someya, A; Tanaka, N

    1979-08-01

    The binding of adriamycin and aclacinomycin A with PM2 DNA, and the consequent cleavage of DNA have been demonstrated by agarose gel electrophoresis, using an ethidium bromide assay. Adriamycin was observed to induce a single strand scission of DNA in the presence of a reducing agent, but aclacinomycin A caused much less degree of DNA breaks. The DNA cleavage was enhanced by Cu2+ and Fe2+, but not significantly by Ni2+, Zn2+, Mg2+ and Ca2+, suggesting that reduction and auto-oxidation of the quinone moiety and H2O2 production participate in the DNA-cutting effect. The DNA degradation was dependent upon concentrations of the anthracyclines and CuCl2. The degree of DNA cleavage at 0.04 mM adriamycin was similar to that at 0.4 mM aclacinomycin A in the presence of 1 mM NADPH and 0.4 mM CuCl2. DNA was degraded to small fragments at 0.4 mM adriamycin and 0.2 mM CuCl2. The anthracycline-induced DNA cleavage was stimulated by H2O2, but partially inhibited by potassium iodide, superoxide dismutase, catalase and nitrogen gas atmosphere. The results suggested that both free radical of anthracycline quinones and hydroxyl radical directly react with DNA strands.

  20. Characterization of CRISPR RNA transcription by exploiting stranded metatranscriptomic data

    PubMed Central

    Ye, Yuzhen; Zhang, Quan

    2016-01-01

    CRISPR–Cas systems are bacterial adaptive immune systems, each typically composed of a locus of cas genes and a CRISPR array of spacers flanked by repeats. Processed transcripts of CRISPR arrays (crRNAs) play important roles in the interference process mediated by these systems, guiding targeted immunity. Here we developed computational approaches that allow us to characterize the expression of many CRISPRs in their natural environments, using community RNA-seq (metatranscriptomic) data. By exploiting public human gut metatranscriptomic data sets, we studied the expression of 56 repeat-sequence types of CRISPRs, revealing that most CRISPRs are transcribed in one direction (producing crRNAs). In rarer cases, including a type II system associated with Bacteroides fragilis, CRISPRs are transcribed in both directions. Type III CRISPR–Cas systems were found in the microbiomes, but metatranscriptomic reads were barely found for their CRISPRs. We observed individual-level variation of the crRNA transcription, and an even greater transcription of a CRISPR from the antisense strand than the crRNA strand in one sample. The orientations of CRISPR expression implicated by metatranscriptomic data are largely in agreement with prior predictions for CRISPRs, with exceptions. Our study shows the promise of exploiting community RNA-seq data for investigating the transcription of CRISPR–Cas systems. PMID:27190232

  1. Wheeling and stranded investment-is there a better way

    SciTech Connect

    Ferrar, T.

    1994-03-25

    Under current franchise law, retail wheeling must be addressed on a state-by-state basis, and (therefore) it will not sweep the electric power industry as deregulation has been visited upon the telecommunications, airline, natural gas and other industries. Nevertheless, many industry observers remain concerned that retail competition will create a significant stranded investment problem. That is, broadened competition among power generators for customers will result in the market value of some existing (previously market-protected) generation assets falling below book value. The significance of such asset revaluations, and the time required for adjustment, increases with the capital intensity of the industry; this is the reason for the heightened concern regarding the introduction of retail wheeling into the electric power industry. One policy direction that may be worthy of further debate and losses during the power market's transition to a more competitive equilibrium - i.e., until regulation-induced differentials between market and book values are mitigated. A two-part policy proposal is offered for consideration. First, the use of intra-pool transfer payments; second, if stranded investment continues to exist, a temporary uniform pool-wide wheeling surcharge.

  2. Interfacial and emulsifying properties of designed β-strand peptides.

    PubMed

    Dexter, Annette F

    2010-12-07

    The structural and surfactant properties of a series of amphipathic β-strand peptides have been studied as a function of pH. Each nine-residue peptide has a framework of hydrophobic proline and phenylalanine amino acid residues, alternating with acidic or basic amino acids to give a sequence closely related to known β-sheet formers. Surface activity, interfacial mechanical properties, electronic circular dichroism (ECD), droplet sizing and zeta potential measurements were used to gain an overview of the peptide behavior as the molecular charge varied from ±4 to 0 with pH. ECD data suggest that the peptides form polyproline-type helices in bulk aqueous solution when highly charged, but may fold to β-hairpins rather than β-sheets when uncharged. In the uncharged state, the peptides adsorb readily at a macroscopic fluid interface to form mechanically strong interfacial films, but tend to give large droplet sizes on emulsification, apparently due to flocculation at a low droplet zeta potential. In contrast, highly charged peptide states gave a low interfacial coverage, but retained good emulsifying activity as judged by droplet size. Best emulsification was generally seen for intermediate charged states of the peptides, possibly representing a compromise between droplet zeta potential and interfacial binding affinity. The emulsifying properties of β-strand peptides have not been previously reported. Understanding the interfacial properties of such peptides is important to their potential development as biosurfactants.

  3. A double-strand break can trigger immunoglobulin gene conversion

    PubMed Central

    Bastianello, Giulia; Arakawa, Hiroshi

    2017-01-01

    All three B cell-specific activities of the immunoglobulin (Ig) gene re-modeling system—gene conversion, somatic hypermutation and class switch recombination—require activation-induced deaminase (AID). AID-induced DNA lesions must be further processed and dissected into different DNA recombination pathways. In order to characterize potential intermediates for Ig gene conversion, we inserted an I-SceI recognition site into the complementarity determining region 1 (CDR1) of the Ig light chain locus of the AID knockout DT40 cell line, and conditionally expressed I-SceI endonuclease. Here, we show that a double-strand break (DSB) in CDR1 is sufficient to trigger Ig gene conversion in the absence of AID. The pattern and pseudogene usage of DSB-induced gene conversion were comparable to those of AID-induced gene conversion; surprisingly, sometimes a single DSB induced multiple gene conversion events. These constitute direct evidence that a DSB in the V region can be an intermediate for gene conversion. The fate of the DNA lesion downstream of a DSB had more flexibility than that of AID, suggesting two alternative models: (i) DSBs during the physiological gene conversion are in the minority compared to single-strand breaks (SSBs), which are frequently generated following DNA deamination, or (ii) the physiological gene conversion is mediated by a tightly regulated DSB that is locally protected from non-homologous end joining (NHEJ) or other non-homologous DNA recombination machineries. PMID:27701075

  4. Giant Stark effect in double-stranded porphyrin ladder polymers

    NASA Astrophysics Data System (ADS)

    Pramanik, Anup; Kang, Hong Seok

    2011-03-01

    Using the first-principles calculations, we have investigated the stability and the electronic structure of two types of recently synthesized one-dimensional nanoribbons, i.e., double-stranded zinc(II) porphyrin ladder polymer (LADDER) arrays. First, electronic structure calculations were used to show that the LADDER is a semiconductor. Most importantly, the application of a transverse electric field significantly reduces the band gap of the LADDER, ultimately converting the LADDER to a metal at a field strength of 0.1 V/Å. The giant Stark effect in this case is almost as strong as that in boron nitride nanotubes and nanoribbons. In the presence of an electric field, hole conduction and electronic conduction will occur entirely through spatially separated strands, rendering these materials useful for nanoelectronic devices. Second, the substitution of hydrogen atoms in the porphyrin units or that of zinc ions with other kinds of chemical species is found to increase the binding strength of the LADDER and reduce the band gap.

  5. An effective mesoscopic model of double-stranded DNA.

    PubMed

    Jeon, Jae-Hyung; Sung, Wokyung

    2014-01-01

    Watson and Crick's epochal presentation of the double helix structure in 1953 has paved the way to intense exploration of DNA's vital functions in cells. Also, recent advances of single molecule techniques have made it possible to probe structures and mechanics of constrained DNA at length scales ranging from nanometers to microns. There have been a number of atomistic scale quantum chemical calculations or molecular level simulations, but they are too computationally demanding or analytically unfeasible to describe the DNA conformation and mechanics at mesoscopic levels. At micron scales, on the other hand, the wormlike chain model has been very instrumental in describing analytically the DNA mechanics but lacks certain molecular details that are essential in describing the hybridization, nano-scale confinement, and local denaturation. To fill this fundamental gap, we present a workable and predictive mesoscopic model of double-stranded DNA where the nucleotides beads constitute the basic degrees of freedom. With the inter-strand stacking given by an interaction between diagonally opposed monomers, the model explains with analytical simplicity the helix formation and produces a generalized wormlike chain model with the concomitant large bending modulus given in terms of the helical structure and stiffness. It also explains how the helical conformation undergoes overstretch transition to the ladder-like conformation at a force plateau, in agreement with the experiment.

  6. Euler buckling and nonlinear kinking of double-stranded DNA

    NASA Astrophysics Data System (ADS)

    Fields, Alexander; Axelrod, Kevin; Cohen, Adam

    2012-02-01

    Bare double-stranded DNA is a stiff biopolymer with a persistence length of roughly 53 nm under physiological conditions. Cells and viruses employ extensive protein machinery to overcome this stiffness and bend, twist, and loop DNA to accomplish tasks such as packaging, recombination, gene regulation, and repair. The mechanical properties of DNA are of fundamental importance to the mechanism and thermodynamics of these processes, but physiologically relevant curvature has been difficult to access experimentally. We designed and synthesized a DNA hairpin construct in which base-pairing interactions generated a compressive force on a short segment of duplex DNA, inducing Euler buckling followed by bending to thermally inaccessible radii of curvature. The efficiency of F"orster resonance energy transfer (FRET) between two fluorophores covalently linked to the hairpin indicated the degree of buckling. Bulk and single-molecule measurements yielded distinctly different force-compression curves for intact DNA and for strands with single nicks, base pair mismatches, and damage sites. These results suggest that changes in local mechanical properties may play a significant role in the recognition of these features by DNA-binding proteins.

  7. Simulation of 125I induced DNA strand breaks in a CAP-DNA complex.

    PubMed

    Li, W; Friedland, W; Jacob, P; Paretzke, H G; Panyutin, I; Neumann, R D

    2002-01-01

    The E. coli catabolite gene activator protein (CAP)-DNA complex with 125I located at the position of the H5 atom of the cytosine near the centre was incorporated into the PARTRAC track structure code. DNA strand breaks due to irradiation were calculated by track structure and radical attack simulations; strand breaks due to neutralisation of the highly charged 125Te ion were derived from a semi-empirical distribution. According to the calculations, the neutralisation effect dominates the strand breakage frequency at 2 bases away from the 125I decay site on both strands. The first breakage distribution counted from a 32P labelled end on the strand with 125I agreed well with experimental data, but on the opposite strand, the calculated distribution is more concentrated around the decay site and its yield is about 20% larger than the measured data.

  8. Estimation of Prestress Force Distribution in the Multi-Strand System of Prestressed Concrete Structures

    PubMed Central

    Cho, Keunhee; Park, Sung Yong; Cho, Jeong-Rae; Kim, Sung Tae; Park, Young-Hwan

    2015-01-01

    Prestressed concrete (PSC) is one of the most reliable, durable and widely used construction materials, which overcomes the weakness of concrete in tension by the introduction of a prestress force. Smart strands enabling measurement of the prestress force have recently been developed to maintain PSC structures throughout their lifetime. However, the smart strand cannot give a representative indication of the whole prestress force when used in multi-strand systems since each strand sustains a different prestress force. In this paper, the actual distribution of the prestress force in a multi-strand system is examined using elastomagnetic (EM) sensors to develop a method for tracking representative indicators of the prestress force using smart strands. PMID:26083230

  9. Low-molecular-weight DNA replication intermediates in Escherichia coli: mechanism of formation and strand specificity.

    PubMed

    Amado, Luciana; Kuzminov, Andrei

    2013-11-15

    Chromosomal DNA replication intermediates, revealed in ligase-deficient conditions in vivo, are of low molecular weight (LMW) independently of the organism, suggesting discontinuous replication of both the leading and the lagging DNA strands. Yet, in vitro experiments with purified enzymes replicating sigma-structured substrates show continuous synthesis of the leading DNA strand in complete absence of ligase, supporting the textbook model of semi-discontinuous DNA replication. The discrepancy between the in vivo and in vitro results is rationalized by proposing that various excision repair events nick continuously synthesized leading strands after synthesis, producing the observed LMW intermediates. Here, we show that, in an Escherichia coli ligase-deficient strain with all known excision repair pathways inactivated, new DNA is still synthesized discontinuously. Furthermore, hybridization to strand-specific targets demonstrates that the LMW replication intermediates come from both the lagging and the leading strands. These results support the model of discontinuous leading strand synthesis in E. coli.

  10. Vacuum-ultraviolet circular dichroism reveals DNA duplex formation between short strands of adenine and thymine.

    PubMed

    Nielsen, Lisbeth Munksgaard; Hoffmann, Søren Vrønning; Brøndsted Nielsen, Steen

    2012-11-21

    Absorbance spectroscopy is used extensively to tell when two DNA single strands come together and form a double strand. Here we show that circular dichroism in the vacuum ultraviolet region provides an even stronger indication for duplex formation in the case of short strands of adenine and thymine (4 to 16 bases in each strand). Indeed, our results show that a strong positive CD band appears at 179 nm when double strands are formed. Melting experiments were done in aqueous solution with and without added Na(+) counter ions. With additional salt present a huge increase in the 179 nm CD band was observed when lowering the temperature. A 179 nm CD marker band for duplex formation can be used to measure the kinetics for the association of two single strands. Such experiments rely on large changes at one particular wavelength since it is too time-consuming to record a full-wavelength spectrum.

  11. Switching from single-stranded to double-stranded DNA limits the unwinding processivity of ring-shaped T7 DNA helicase.

    PubMed

    Jeong, Yong-Joo; Rajagopal, Vaishnavi; Patel, Smita S

    2013-04-01

    Phage T7 helicase unwinds double-stranded DNA (dsDNA) by encircling one strand while excluding the complementary strand from its central channel. When T7 helicase translocates on single-stranded DNA (ssDNA), it has kilobase processivity; yet, it is unable to processively unwind linear dsDNA, even 60 base-pairs long. Particularly, the GC-rich dsDNAs are unwound with lower amplitudes under single-turnover conditions. Here, we provide evidence that T7 helicase switches from ssDNA to dsDNA during DNA unwinding. The switching propensity is higher when dsDNA is GC-rich or when the 3'-overhang of forked DNA is <15 bases. Once helicase encircles dsDNA, it travels along dsDNA and dissociates from the end of linear DNA without strand separation, which explains the low unwinding amplitude of these substrates. Trapping the displaced strand with ssDNA binding protein or changing its composition to morpholino oligomer that does not interact with helicase increases the unwinding amplitude. We conclude that the displaced strand must be continuously excluded and kept away from the central channel for processive DNA unwinding. The finding that T7 helicase can switch from ssDNA to dsDNA binding mode during unwinding provides new insights into ways of limiting DNA unwinding and triggering fork regression when stalled forks need to be restarted.

  12. Base specific binding of deoxyguanylate and deoxycytidylate antibodies to double stranded DNA.

    PubMed Central

    Jacob, A; Jacob, T M

    1982-01-01

    Antibodies raised in rabbits against deoxyguanylate and deoxycytidylate bind to 3H-lambda double stranded DNA and the binding is base specific. The concentrations of antibody populations that bind to double stranded DNA are much less than those binding to denatured DNA. Due to their low concentrations, these antibodies were not detected in earlier studies. These antibodies are expected to be useful to probe the conformational flexibilities of double stranded DNAs. PMID:6217448

  13. Edwardsiella tarda sepsis in a live-stranded sperm whale (Physeter macrocephalus).

    PubMed

    Cools, Piet; Haelters, Jan; Lopes dos Santos Santiago, Guido; Claeys, Geert; Boelens, Jerina; Leroux-Roels, Isabel; Vaneechoutte, Mario; Deschaght, Pieter

    2013-09-27

    Whale strandings remain poorly understood, although bacterial infections have been suggested to contribute. We isolated Edwardsiella tarda from the blood of a stranded sperm whale. The pathogen was identified with MALDI-TOF MS, confirmed by 16S rRNA gene sequencing and quantified in blood by qPCR. We report the first case of sepsis in a sperm whale. The zoonotic potential of E. tarda and the possible role of bacterial infections in the enigmatic strandings of cetaceans are discussed.

  14. Interpreting the spatio-temporal patterns of sea turtle strandings: Going with the flow

    USGS Publications Warehouse

    Hart, K.M.; Mooreside, P.; Crowder, L.B.

    2006-01-01

    Knowledge of the spatial and temporal distribution of specific mortality sources is crucial for management of species that are vulnerable to human interactions. Beachcast carcasses represent an unknown fraction of at-sea mortalities. While a variety of physical (e.g., water temperature) and biological (e.g., decomposition) factors as well as the distribution of animals and their mortality sources likely affect the probability of carcass stranding, physical oceanography plays a major role in where and when carcasses strand. Here, we evaluate the influence of nearshore physical oceanographic and wind regimes on sea turtle strandings to decipher seasonal trends and make qualitative predictions about stranding patterns along oceanfront beaches. We use results from oceanic drift-bottle experiments to check our predictions and provide an upper limit on stranding proportions. We compare predicted current regimes from a 3D physical oceanographic model to spatial and temporal locations of both sea turtle carcass strandings and drift bottle landfalls. Drift bottle return rates suggest an upper limit for the proportion of sea turtle carcasses that strand (about 20%). In the South Atlantic Bight, seasonal development of along-shelf flow coincides with increased numbers of strandings of both turtles and drift bottles in late spring and early summer. The model also predicts net offshore flow of surface waters during winter - the season with the fewest relative strandings. The drift bottle data provide a reasonable upper bound on how likely carcasses are to reach land from points offshore and bound the general timeframe for stranding post-mortem (< two weeks). Our findings suggest that marine turtle strandings follow a seasonal regime predictable from physical oceanography and mimicked by drift bottle experiments. Managers can use these findings to reevaluate incidental strandings limits and fishery takes for both nearshore and offshore mortality sources. ?? 2005 Elsevier Ltd

  15. DNA ligase III acts as a DNA strand break sensor in the cellular orchestration of DNA strand break repair

    PubMed Central

    Abdou, Ismail; Poirier, Guy G.; Hendzel, Michael J.; Weinfeld, Michael

    2015-01-01

    In the current model of DNA SSBR, PARP1 is regarded as the sensor of single-strand breaks (SSBs). However, biochemical studies have implicated LIG3 as another possible SSB sensor. Using a laser micro-irradiation protocol that predominantly generates SSBs, we were able to demonstrate that PARP1 is dispensable for the accumulation of different single-strand break repair (SSBR) proteins at sites of DNA damage in live cells. Furthermore, we show in live cells for the first time that LIG3 plays a role in mediating the accumulation of the SSBR proteins XRCC1 and PNKP at sites of DNA damage. Importantly, the accumulation of LIG3 at sites of DNA damage did not require the BRCT domain-mediated interaction with XRCC1. We were able to show that the N-terminal ZnF domain of LIG3 plays a key role in the enzyme's SSB sensing function. Finally, we provide cellular evidence that LIG3 and not PARP1 acts as the sensor for DNA damage caused by the topoisomerase I inhibitor, irinotecan. Our results support the existence of a second damage-sensing mechanism in SSBR involving the detection of nicks in the genome by LIG3. PMID:25539916

  16. Human Cell Assays for Synthesis-Dependent Strand Annealing and Crossing over During Double-Strand Break Repair

    PubMed Central

    Zapotoczny, Grzegorz; Sekelsky, Jeff

    2017-01-01

    DNA double-strand breaks (DSBs) are one of the most deleterious types of lesions to the genome. Synthesis-dependent strand annealing (SDSA) is thought to be a major pathway of DSB repair, but direct tests of this model have only been conducted in budding yeast and Drosophila. To better understand this pathway, we developed an SDSA assay for use in human cells. Our results support the hypothesis that SDSA is an important DSB repair mechanism in human cells. We used siRNA knockdown to assess the roles of a number of helicases suggested to promote SDSA. None of the helicase knockdowns reduced SDSA, but knocking down BLM or RTEL1 increased SDSA. Molecular analysis of repair products suggests that these helicases may prevent long-tract repair synthesis. Since the major alternative to SDSA (repair involving a double-Holliday junction intermediate) can lead to crossovers, we also developed a fluorescent assay that detects crossovers generated during DSB repair. Together, these assays will be useful in investigating features and mechanisms of SDSA and crossover pathways in human cells. PMID:28179392

  17. Genetic Requirements for the Single-Strand Annealing Pathway of Double-Strand Break Repair in Saccharomyces Cerevisiae

    PubMed Central

    Ivanov, E. L.; Sugawara, N.; Fishman-Lobell, J.; Haber, J. E.

    1996-01-01

    HO endonuclease-induced double-strand breaks (DSBs) within a direct duplication of Escherichia coli lacZ genes are repaired either by gene conversion or by single-strand annealing (SSA), with >80% being SSA. Previously it was demonstrated that the RAD52 gene is required for DSB-induced SSA. In the present study, the effects of other genes belonging to the RAD52 epistasis group were analyzed. We show that RAD51, RAD54, RAD55, and RAD57 genes are not required for SSA irrespective of whether recombination occurred in plasmid or chromosomal DNA. In both plasmid and chromosomal constructs with homologous sequences in direct orientation, the proportion of SSA events over gene conversion was significantly elevated in the mutant strains. However, gene conversion was not affected when the two lacZ sequences were in inverted orientation. These results suggest that there is a competition between SSA and gene conversion processes that favors SSA in the absence of RAD51, RAD54, RAD55 and RAD57. Mutations in RAD50 and XRS2 genes do not prevent the completion, but markedly retard the kinetics, of DSB repair by both mechanisms in the lacZ direct repeat plasmid, a result resembling the effects of these genes during mating-type (MAT) switching. PMID:8849880

  18. Structure-spectrophotometric selectivity relationship in interactions of quercetin related flavonoids with double stranded and single stranded RNA

    NASA Astrophysics Data System (ADS)

    Piantanida, Ivo; Mašić, Lozika; Rusak, Gordana

    2009-04-01

    Interactions of five flavonoids with dsRNA and single stranded ssRNA were studied by UV/vis titrations. The results obtained supported the intercalative binding mode as a dominant interaction of studied flavonoids with dsRNA as well as major interaction with ssRNA. Furthermore, changes of the UV/vis spectra of flavonoids induced by addition of poly G or poly C, respectively, are significantly stronger than changes induced by double stranded poly G-poly C, pointing to essential role of the free poly G or poly C sequence (not hydrogen bonded in double helix). Exclusively poly G caused significant batochromic shift of the UV/vis maxima of all studied flavonoids, whereby the intensity of batochromic shift is nicely correlated to the number of OH groups of flavonoid. Unlikely to poly G, addition of poly A and poly U induced measurable changes only in the UV/vis spectra of flavonoids characterised by no OH (galangin) or three OH groups (myricetin) on the phenyl part of the molecule. Consequently, flavonoids with one- or two-OH groups on the phenyl part of the molecule (luteolin, fisetin, kaempferol) specifically differentiate between poly A, poly U (negligible changes in the UV/Vis spectra) and poly G (strong changes in the UV/Vis spectra) as well as poly C (moderate changes in the UV/Vis spectra).

  19. Conformational polymorphism in G-tetraplex structures: strand reversal by base flipover or sugar flipover.

    PubMed Central

    Mohanty, D; Bansal, M

    1993-01-01

    Guanine rich sequences adopt a variety of four stranded structures, which differ in strand orientation and conformation about the glycosidic bond even though they are all stabilised by Hoogsteen hydrogen bonded guanine tetrads. Detailed model building and molecular mechanics calculations have been carried out to investigate various possible conformations of guanines along a strand and different possible orientations of guanine strands in a G-tetraplex structure. It is found that for an oligo G stretch per se, a parallel four stranded structure with all guanines in anti conformation is favoured over other possible tetraplex structures. Hence an alternating syn-anti arrangement of guanines along a strand is likely to occur only in folded back tetraplex structures with antiparallel G strands. Our study provides a theoretical rationale for the observed alternation of glycosidic conformation and the inverted stacking arrangement arising from base flipover, in antiparallel G-tetraplex structures and also highlights the various structural features arising due to different types of strand orientations. The molecular mechanics calculations help in elucidating the various interactions which stabilize different G-tetraplex structures and indicate that screening of phosphate charge by counterions could have a dramatic effect on groove width in these four stranded structures. PMID:8493095

  20. Yeast deRNA viral transcriptase pause products: identification of the transcript strand.

    PubMed Central

    Brennan, V E; Bobek, L A; Bruenn, J A

    1981-01-01

    ScV-L is a double-stranded RNA virus of the yeast Saccharomyces cerevisiae. The virus possesses a capsid-associated transcriptase activity the product of which is a single-stranded RNA complementary to only one strand of the double-stranded RNA template (L). We show that the U-rich 3' terminus of L is the initiation site of transcription and that a number of pause products are made. One prominent product has the sequence pppGAAAAAUUUUUAAAUUCAUAUAACUOH. Images PMID:7031603

  1. Workshop on effects of chromium coating on Nb{sub 3}Sn superconductor strand: Proceedings

    SciTech Connect

    Not Available

    1994-04-12

    This report discusses the following topics: Chromium coating on superconductor strand -- an overview; technology of chromium plating; comparison of wires plated by different platers; search for chromium in copper; strand manufactures` presentations; chromium plating at the Lawrence Livermore National Laboratory; a first look at a chromium plating process development project tailored for T.P.X. and I.T.E.R. strand; and influence of chromium diffusion and related phenomena on the reference ratios of bare and chromium plated Nb{sub 3}Sn strand.

  2. A euryarchaeal histone modulates strand displacement synthesis by replicative DNA polymerases.

    PubMed

    Sun, Fei; Huang, Li

    2016-07-01

    Euryarchaeota and Crenarchaeota, the two main lineages of the domain Archaea, encode different chromatin proteins and differ in the use of replicative DNA polymerases. Crenarchaea possess a single family B DNA polymerase (PolB), which is capable of strand displacement modulated by the chromatin proteins Cren7 and Sul7d. Euryarchaea have two distinct replicative DNA polymerases, PolB and PolD, a family D DNA polymerase. Here we characterized the strand displacement activities of PolB and PolD from the hyperthermophilic euryarchaeon Pyrococcus furiosus and investigated the influence of HPfA1, a homolog of eukaryotic histones from P. furiosus, on these activities. We showed that both PolB and PolD were efficient in strand displacement. HPfA1 inhibited DNA strand displacement by both DNA polymerases but exhibited little effect on the displacement of a RNA strand annealed to single-stranded template DNA. This is consistent with the finding that HPfA1 bound more tightly to double-stranded DNA than to a RNA:DNA hybrid. Our results suggest that, although crenarchaea and euryarchaea differ in chromosomal packaging, they share similar mechanisms in modulating strand displacement by DNA polymerases during lagging strand DNA synthesis.

  3. π-ELECTRONS in a Single Strand of Dna:

    NASA Astrophysics Data System (ADS)

    Iguchi, Kazumoto

    We revisit the problem of the electronic properties of a single strand of DNA, formulating the Hückel approximation for π-electrons in both the sugar-phosphate backbone chain and the π-stacking of nitrogenous bases in a single strand of DNA where the nitrogenous bases are adenine (A), guanine (G), cytosine (C) and thymine (T), respectively. We calculate the electronic band structure of π-electrons: (i) in the single nitrogenous base molecules such as A, G, C and T, (ii) in the single sugar-phosphate molecule, (iii) in the single nucleotide systems such as A, G, C, T with the single sugar-phosphate group, and (iv) in the system of a single strand of DNA with an infinite repetition of a nucleotide such as A, G, C and T, respectively. We find the following: In the case of (i), there is an energy gap between the energy levels for the HOMO and LUMO in the nitrogenous base. This guarantees the semiconducting character of the bases as a mother material. In the case of (ii), there are the HOMO localized at the oxygen site with a double bond and the LUMO localized around the phosphorus atom, which have a quite large energy gap. In the case of (iii), the energy levels for the HOMO and LUMO of the nitrogenous base remain almost the same as those of the nucleotide, while those of the sugar-phosphate group remain the same as well. The HOMO of the sugar-phosphate group exists right below the HOMO of the nitrogenous base. Therefore, comparing the energy levels for the HOMOs of the nitrogenous base group with those of the sugar-phosphate group, the nitrogenous base group behaves as a donor while the sugar-phosphate group behaves as an acceptor. In the case of (iv), there are energy bands and band gaps for the extended states in the nitrogenous base group and the sugar-phosphate group as well as the discrete levels for the localized states at the phosphate site in the spectrum. There is a transition from semiconductor to semimetal as the π-electron hopping between the

  4. Optimization of CFETR CSMC cabling based on numerical modeling and experiments

    NASA Astrophysics Data System (ADS)

    Qin, Jinggang; Dai, Chao; Liu, Bo; Wu, Yu; Liu, Fang; Liao, Guojun; Xue, Tianjun; Wei, Zhourong; Nijhuis, Arend; Zhou, Chao; Devred, Arnaud

    2015-12-01

    The China Fusion Engineering Test Reactor (CFETR) is a new tokamak device, whose magnet system includes toroidal field (TF), central solenoid (CS) and poloidal field (PF) coils. The main goal is to build a fusion engineering tokamak reactor with 50-200 MW fusion power and self-sufficiency by blanket, which means that the deuterium-tritium reaction in the plasma produces neutrons and alpha particles, and the neutrons react with the lithium-containing blanket surrounding the plasma, breeding the tritium by lithium-neutron reaction. To develop the manufacturing technique for the full-size CS coil, the Central Solenoid Model Coil (CSMC) project for CFETR was launched first. A Nb3Sn conductor is to be used in the CFETR CSMC, whose design refers to the ITER CS conductor with the same short-twist-pitch cable pattern. Due to the short twist pitch and relatively low void fraction, a high compaction ratio is required during cabling and the risk of strand damage is increased significantly. Although it is impossible to avoid strand deformation for this design, it is crucial to find a way to reduce strand damage as much as possible. A numerical model was used to analyze the causes of strand damage, including variation in twist pitch length as well as different mechanical properties for copper and Nb3Sn strands. Several experiments have been performed to verify the numerical results, including cabling trials for different conditions and critical current (I c) tests on strands with/without deformation. The results show that the numerical analysis is consistent with the experiments and provides the optimal cabling conditions for the CFETR CSMC.

  5. Electromagnetic fields and the induction of DNA strand breaks.

    PubMed

    Ruiz-Gómez, Miguel J; Martínez-Morillo, Manuel

    2009-01-01

    The International Agency for Research on Cancer (IARC) has classified the extremely low-frequency (ELF) electromagnetic fields (EMF) as "possible carcinogenic" based on the reported effects. The purpose of this work is to review and compare the recent findings related to the induction of DNA strand breaks (DNA-SB) by magnetic field (MF) exposure. We found 29 studies (genotoxic and epigenetic) about the induction of DNA-SB by MF. 50% showed effect of MF and 50% showed no DNA-SB. Nevertheless, considering only genotoxic or only epigenetic studies, 37.5% and 69.2% found induction of DNA-SB by MF, respectively. In relation to these data it seems that MF could act as a co-inductor of DNA damage rather than as a genotoxic agent per se. Nevertheless, the published results, in some cases conflicting with negative findings, do not facilitate to obtain a common consensus about MF effects and biophysical interaction mechanisms.

  6. Using both strands: The fundamental nature of antisense transcription.

    PubMed

    Murray, Struan C; Mellor, Jane

    2016-01-01

    Non-coding transcription across the antisense strands of genes is an abundant, pervasive process in eukaryotes from yeast to humans, however its biological function remains elusive. Here, we provide commentary on a recent study of ours, which demonstrates a genome-wide role for antisense transcription: establishing a unique, dynamic chromatin architecture over genes. Antisense transcription increases the level of nucleosome occupancy and histone acetylation at the promoter and body of genes, without necessarily modulating the level of protein-coding sense transcription. It is also associated with high levels of histone turnover. By allowing genes to sample a wider range of chromatin configurations, antisense transcription could serve to make genes more sensitive to changing signals, priming them for responses to developmental programs or stressful cellular environments. Given the abundance of antisense transcription and the breadth of these chromatin changes, we propose that antisense transcription represents a fundamental, canonical feature of eukaryotic genes.

  7. Nuclear Proteins Hijacked by Mammalian Cytoplasmic Plus Strand RNA Viruses

    PubMed Central

    Lloyd, Richard E.

    2015-01-01

    Plus strand RNA viruses that replicate in the cytoplasm face challenges in supporting the numerous biosynthetic functions required for replication and propagation. Most of these viruses are genetically simple and rely heavily on co-opting cellular proteins, particularly cellular RNA-binding proteins, into new roles for support of virus infection at the level of virus-specific translation, and building RNA replication complexes. In the course of infectious cycles many nuclear-cytoplasmic shuttling proteins of mostly nuclear distribution are detained in the cytoplasm by viruses and re-purposed for their own gain. Many mammalian viruses hijack a common group of the same factors. This review summarizes recent gains in our knowledge of how cytoplasmic RNA viruses use these co-opted host nuclear factors in new functional roles supporting virus translation and virus RNA replication and common themes employed between different virus groups. PMID:25818028

  8. In-flight rescue of stranded TDRS-1 spacecraft

    NASA Technical Reports Server (NTRS)

    Schmeichel, H.; Ehlers, B. J.

    1984-01-01

    On April 4, 1983, the first Tracking and Data Relay Satellite (TDRS-1), one of six to be built for SPACECOM and NASA, was launched by the Space Shuttle Challenger. During the ascent to geosynchronous orbit, the Inertial Upper Stage (IUS) booster malfunctioned, leaving TDRS stranded in a low, elliptical orbit. This report describes the amazing satellite recovery from a wild tumble and the dramatic three-month rescue effort to move TDRS into synchronous orbit. It took a total burn time of 44 hours from a pair of tiny one-pound thrusters, about 800 pounds of propellant, an adaptable, robust attitude control system and much resourcefulness from ground operators to accomplish this feat. TDRS-1 reached its proper earth orbit on June 29, 1983 and then began its ten-year mission as a data relay satellite.

  9. Repair of DNA Double-Strand Breaks in Heterochromatin

    PubMed Central

    Watts, Felicity Z.

    2016-01-01

    DNA double-strand breaks (DSBs) are among the most damaging lesions in DNA, since, if not identified and repaired, they can lead to insertions, deletions or chromosomal rearrangements. DSBs can be in the form of simple or complex breaks, and may be repaired by one of a number of processes, the nature of which depends on the complexity of the break or the position of the break within the chromatin. In eukaryotic cells, nuclear DNA is maintained as either euchromatin (EC) which is loosely packed, or in a denser form, much of which is heterochromatin (HC). Due to the less accessible nature of the DNA in HC as compared to that in EC, repair of damage in HC is not as straightforward as repair in EC. Here we review the literature on how cells deal with DSBs in HC. PMID:27999260

  10. DNA Strand Exchange and RecA Homologs in Meiosis

    PubMed Central

    Brown, M. Scott; Bishop, Douglas K.

    2015-01-01

    Homology search and DNA strand–exchange reactions are central to homologous recombination in meiosis. During meiosis, these processes are regulated such that the probability of choosing a homolog chromatid as recombination partner is enhanced relative to that of choosing a sister chromatid. This regulatory process occurs as homologous chromosomes pair in preparation for assembly of the synaptonemal complex. Two strand–exchange proteins, Rad51 and Dmc1, cooperate in regulated homology search and strand exchange in most organisms. Here, we summarize studies on the properties of these two proteins and their accessory factors. In addition, we review current models for the assembly of meiotic strand–exchange complexes and the possible mechanisms through which the interhomolog bias of recombination partner choice is achieved. PMID:25475089

  11. Roles of chromatin remodellers in DNA double strand break repair.

    PubMed

    Jeggo, Penny A; Downs, Jessica A

    2014-11-15

    Now that we have a good understanding of the DNA double strand break (DSB) repair mechanisms and DSB-induced damage signalling, attention is focusing on the changes to the chromatin environment needed for efficient DSB repair. Mutations in chromatin remodelling complexes have been identified in cancers, making it important to evaluate how they impact upon genomic stability. Our current understanding of the DSB repair pathways suggests that each one has distinct requirements for chromatin remodelling. Moreover, restricting the extent of chromatin modifications could be a significant factor regulating the decision of pathway usage. In this review, we evaluate the distinct DSB repair pathways for their potential need for chromatin remodelling and review the roles of ATP-driven chromatin remodellers in the pathways.

  12. DNA double-strand break repair pathway choice and cancer.

    PubMed

    Aparicio, Tomas; Baer, Richard; Gautier, Jean

    2014-07-01

    Since DNA double-strand breaks (DSBs) contribute to the genomic instability that drives cancer development, DSB repair pathways serve as important mechanisms for tumor suppression. Thus, genetic lesions, such as BRCA1 and BRCA2 mutations, that disrupt DSB repair are often associated with cancer susceptibility. In addition, recent evidence suggests that DSB "mis-repair", in which DSBs are resolved by an inappropriate repair pathway, can also promote genomic instability and presumably tumorigenesis. This notion has gained currency from recent cancer genome sequencing studies which have uncovered numerous chromosomal rearrangements harboring pathological DNA repair signatures. In this perspective, we discuss the factors that regulate DSB repair pathway choice and their consequences for genome stability and cancer.

  13. Nuclear proteins hijacked by mammalian cytoplasmic plus strand RNA viruses.

    PubMed

    Lloyd, Richard E

    2015-05-01

    Plus strand RNA viruses that replicate in the cytoplasm face challenges in supporting the numerous biosynthetic functions required for replication and propagation. Most of these viruses are genetically simple and rely heavily on co-opting cellular proteins, particularly cellular RNA-binding proteins, into new roles for support of virus infection at the level of virus-specific translation, and building RNA replication complexes. In the course of infectious cycles many nuclear-cytoplasmic shuttling proteins of mostly nuclear distribution are detained in the cytoplasm by viruses and re-purposed for their own gain. Many mammalian viruses hijack a common group of the same factors. This review summarizes recent gains in our knowledge of how cytoplasmic RNA viruses use these co-opted host nuclear factors in new functional roles supporting virus translation and virus RNA replication and common themes employed between different virus groups.

  14. Strand-specific RNA-seq applied to malaria samples

    PubMed Central

    Ponts, Nadia; Chung, Duk-Won D.; Roch, Karine G. Le

    2014-01-01

    Summary Over the past few years only, next-generation sequencing technologies became accessible and many applications were rapidly derived, such as the development of RNA-seq, a technique that uses deep sequencing to profile whole transcriptomes. RNA-seq has the power to discover new transcripts and splicing variants, single nucleotide variations, fusion genes, and mRNA levels-based expression profiles. Preparing RNA-seq libraries can be delicate and usually obligates buying expensive kits that require large amounts of stating materials. The method presented here is flexible and cost-effective. Using this method, we prepared high quality strand-specific RNA-seq libraries from RNA extracted from the human malaria parasite Plasmodium falciparum. The libraries are compatible with Illumina®'s sequencers Genome Analyzer and Hi-Seq. The method can however be easily adapted to other platforms. PMID:22589124

  15. Stranded cost recovery presents stumbling block to open access

    SciTech Connect

    Del Roccili, J.A.

    1996-04-01

    Much of the impetus for the movement to competitive power markets is a result of the tremendous variance in energy prices across the country. Large commercial and industrial customers are becoming increasingly aware of these discrepancies and are marshaling the market and political forces required to guarantee the eventual development of a national open-access transmission policy. Such a policy will facilitate competition and equalize prices on a regional, and to some extent, national level. The stumbling block, however, is the recovery of stranded investment. Under traditional regulation, historical costs could be collected through approved rates for a bundled service. With the protection of a monopoly franchise, average electricity prices provide the possibility of cost recovery for assets that might not be recoverable in a competitive market.

  16. Current-voltage characteristics of double-strand DNA sequences

    NASA Astrophysics Data System (ADS)

    Bezerril, L. M.; Moreira, D. A.; Albuquerque, E. L.; Fulco, U. L.; de Oliveira, E. L.; de Sousa, J. S.

    2009-09-01

    We use a tight-binding formulation to investigate the transmissivity and the current-voltage (I-V) characteristics of sequences of double-strand DNA molecules. In order to reveal the relevance of the underlying correlations in the nucleotides distribution, we compare the results for the genomic DNA sequence with those of artificial sequences (the long-range correlated Fibonacci and Rudin-Shapiro one) and a random sequence, which is a kind of prototype of a short-range correlated system. The random sequence is presented here with the same first neighbors pair correlations of the human DNA sequence. We found that the long-range character of the correlations is important to the transmissivity spectra, although the I-V curves seem to be mostly influenced by the short-range correlations.

  17. Electronic transport in double-strand DNA segments

    NASA Astrophysics Data System (ADS)

    Albuquerque, E. L.; Mauriz, P. W.; Moreira, D. A.

    2008-03-01

    We report in this work a numerical study of the electronic density of states in π-stacked arrays of DNA double-strand segments made up from the nucleotides guanine G, adenine A, cytosine C and thymine T. In order to reveal the relevance of the underlying correlations in the nucleotides distribution, we compare the results for a genomic DNA sequence, considering a segment of the first sequenced human chromosome 22 (Ch 22), with those of two artificial sequences forming a Rudin-Shapiro (RS) as well as a Fibonacci (FB) polyGC quasiperiodic sequences. Our theoretical method uses an electronic tight-binding Hamiltonian suitable to describe the DNA segments modeled by the quasiperiodic chains.

  18. Regulatory RNA design through evolutionary computation and strand displacement.

    PubMed

    Rostain, William; Landrain, Thomas E; Rodrigo, Guillermo; Jaramillo, Alfonso

    2015-01-01

    The discovery and study of a vast number of regulatory RNAs in all kingdoms of life over the past decades has allowed the design of new synthetic RNAs that can regulate gene expression in vivo. Riboregulators, in particular, have been used to activate or repress gene expression. However, to accelerate and scale up the design process, synthetic biologists require computer-assisted design tools, without which riboregulator engineering will remain a case-by-case design process requiring expert attention. Recently, the design of RNA circuits by evolutionary computation and adapting strand displacement techniques from nanotechnology has proven to be suited to the automated generation of DNA sequences implementing regulatory RNA systems in bacteria. Herein, we present our method to carry out such evolutionary design and how to use it to create various types of riboregulators, allowing the systematic de novo design of genetic control systems in synthetic biology.

  19. Catalysts of DNA Strand Cleavage at Apurinic/Apyrimidinic Sites

    PubMed Central

    Minko, Irina G.; Jacobs, Aaron C.; de Leon, Arnie R.; Gruppi, Francesca; Donley, Nathan; Harris, Thomas M.; Rizzo, Carmelo J.; McCullough, Amanda K.; Lloyd, R. Stephen

    2016-01-01

    Apurinic/apyrimidinic (AP) sites are constantly formed in cellular DNA due to instability of the glycosidic bond, particularly at purines and various oxidized, alkylated, or otherwise damaged nucleobases. AP sites are also generated by DNA glycosylases that initiate DNA base excision repair. These lesions represent a significant block to DNA replication and are extremely mutagenic. Some DNA glycosylases possess AP lyase activities that nick the DNA strand at the deoxyribose moiety via a β- or β,δ-elimination reaction. Various amines can incise AP sites via a similar mechanism, but this non-enzymatic cleavage typically requires high reagent concentrations. Herein, we describe a new class of small molecules that function at low micromolar concentrations as both β- and β,δ-elimination catalysts at AP sites. Structure-activity relationships have established several characteristics that appear to be necessary for the formation of an iminium ion intermediate that self-catalyzes the elimination at the deoxyribose ring. PMID:27363485

  20. Membranous Replication Factories Induced by Plus-Strand RNA Viruses

    PubMed Central

    Romero-Brey, Inés; Bartenschlager, Ralf

    2014-01-01

    In this review, we summarize the current knowledge about the membranous replication factories of members of plus-strand (+) RNA viruses. We discuss primarily the architecture of these complex membrane rearrangements, because this topic emerged in the last few years as electron tomography has become more widely available. A general denominator is that two “morphotypes” of membrane alterations can be found that are exemplified by flaviviruses and hepaciviruses: membrane invaginations towards the lumen of the endoplasmatic reticulum (ER) and double membrane vesicles, representing extrusions also originating from the ER, respectively. We hypothesize that either morphotype might reflect common pathways and principles that are used by these viruses to form their membranous replication compartments. PMID:25054883

  1. Assembly of large icosahedral double-stranded RNA viruses.

    PubMed

    Poranen, Minna M; Bamford, Dennis H

    2012-01-01

    Double-stranded RNA (dsRNA) viruses are a diverse group of viruses infecting hosts from bacteria to higher eukaryotes. Among the hosts are humans, domestic animals, and economically important plant species. Fine details of high-resolution virion structures have revealed common structural characteristics unique to these viruses including an internal icosahedral capsid built from 60 asymmetric dimers (120 monomers!) of the major coat protein. Here we focus mainly on the structures and assembly principles of large icosahedral dsRNA viruses belonging to the families of Cystoviridae and Reoviridae. It is obvious that there are a variety of assembly pathways utilized by different viruses starting from similar building blocks and reaching in all cases a similar capsid architecture. This is true even with closely related viruses indicating that the assembly pathway per se is not an indicator of relatedness and is achieved with minor changes in the interacting components.

  2. Dynamic profiling of double-stranded RNA binding proteins

    PubMed Central

    Wang, Xinlei; Vukovic, Lela; Koh, Hye Ran; Schulten, Klaus; Myong, Sua

    2015-01-01

    Double-stranded (ds) RNA is a key player in numerous biological activities in cells, including RNA interference, anti-viral immunity and mRNA transport. The class of proteins responsible for recognizing dsRNA is termed double-stranded RNA binding proteins (dsRBP). However, little is known about the molecular mechanisms underlying the interaction between dsRBPs and dsRNA. Here we examined four human dsRBPs, ADAD2, TRBP, Staufen 1 and ADAR1 on six dsRNA substrates that vary in length and secondary structure. We combined single molecule pull-down (SiMPull), single molecule protein-induced fluorescence enhancement (smPIFE) and molecular dynamics (MD) simulations to investigate the dsRNA-dsRBP interactions. Our results demonstrate that despite the highly conserved dsRNA binding domains, the dsRBPs exhibit diverse substrate specificities and dynamic properties when in contact with different RNA substrates. While TRBP and ADAR1 have a preference for binding simple duplex RNA, ADAD2 and Staufen1 display higher affinity to highly structured RNA substrates. Upon interaction with RNA substrates, TRBP and Staufen1 exhibit dynamic sliding whereas two deaminases ADAR1 and ADAD2 mostly remain immobile when bound. MD simulations provide a detailed atomic interaction map that is largely consistent with the affinity differences observed experimentally. Collectively, our study highlights the diverse nature of substrate specificity and mobility exhibited by dsRBPs that may be critical for their cellular function. PMID:26184879

  3. Non-Specific Blocking of miR-17-5p Guide Strand in Triple Negative Breast Cancer Cells by Amplifying Passenger Strand Activity.

    PubMed

    Jin, Yuan-Yuan; Andrade, Jade; Wickstrom, Eric

    2015-01-01

    Conventional wisdom holds that only one of the two strands in a micro ribonucleic acid (miRNA) precursor duplex is selected as the active miRNA guide strand. The complementary miRNA passenger strand, however, is thought to be inactive. High levels of the oncogenic miRNA (oncomiR) guide strand called miR-17-5p is overexpressed in triple negative breast cancer (TNBC) and can inhibit ribosomal translation of tumor suppressor gene mRNAs, such as programmed cell death 4 (PDCD4) or phosphatase and tensin homolog (PTEN). We hypothesized that knocking down the oncogenic microRNA (oncomiR) miR-17-5p might restore the expression levels of PDCD4 and PTEN tumor suppressor proteins, illustrating a route to oligonucleotide therapy of TNBC. Contrary to conventional wisdom, antisense knockdown of oncomiR miR-17-5p guide strand reduced PDCD4 and PTEN proteins by 1.8±0.3 fold in human TNBC cells instead of raising them. Bioinformatics analysis and folding energy calculations revealed that mRNA targets of miR-17-5p guide strand, such as PDCD4 and PTEN, could also be regulated by miR-17-3p passenger strand. Due to high sequence homology between the antisense molecules and miR-17-3p passenger strand, as well as the excess binding sites for the passenger strand on the 3'UTR of PDCD4 and PTEN mRNAs, introducing a miR-17-3p DNA-LNA mimic to knock down miR-17-5p reduced PDCD4 and PTEN protein expression instead of raising them. Our results imply that therapeutic antisense sequences against miRNAs should be designed to target the miRNA strand with the greatest number of putative binding sites in the target mRNAs, while minimizing affinity for the minor strand.

  4. Validation test of fusion grade superconductors

    NASA Astrophysics Data System (ADS)

    Prasad, U.; Pradhan, S.; Raj, P.; Varmora, P.; Panchal, A.; Bano, A.; Ghate, M.

    2017-02-01

    The need of high magnetic field for long pulse operation of Tokamaks and future fusion reactors is an essential requirement. The superconducting magnets operating at low temperature, high current and produce high magnetic field for long time can certainly full-fill this requirement. Three types of magnets namely central solenoid, toroidal filed and poloidal filed are used for initiation, confinement and equilibrium of plasma. The presently available basic conductors for these magnets are Nb3Sn, Nb3Al, NbTi and MgB2. The presently operating SST-1 Tokamak has superconducting magnets made up of NbTi as basic conductor. The design and prototype initiative for SST-2 magnets has also begun at IPR. The low temperature and high magnetic field characterization of in-house developed and commercial superconducting strands have also been initiated in the custom made standard test facility at IPR. Encouraging results on testing of Nb3Sn, NbTi and MgB2 have been found for suitability of these conductors for magnets and current leads. The basic test set up and test results of fusion grade conductors will be discussed in this presentation.

  5. A sensitive method for the quantification of virion-sense and complementary-sense DNA strands of circular single-stranded DNA viruses

    PubMed Central

    Rodríguez-Negrete, Edgar A.; Sánchez-Campos, Sonia; Cañizares, M. Carmen; Navas-Castillo, Jesús; Moriones, Enrique; Bejarano, Eduardo R.; Grande-Pérez, Ana

    2014-01-01

    Circular single-stranded DNA (ssDNA) viruses are the smallest viruses known to infect eukaryotes. High recombination and mutation rates have conferred these viruses with an evolutionary potential that has facilitated their emergence. Their damaging effects on livestock (circoviruses) and crops (geminiviruses and nanoviruses), and the ubiquity of anelloviruses in human populations and other mammalian species, have resulted in increased interest in better understanding their epidemiology and infection mechanisms. Circular ssDNA viral replication involves the synthesis of dsDNA intermediates containing complementary-sense (CS) and virion-sense (VS) strands. Precise quantification of VS and CS accumulation during viral infections can provide insights into the molecular mechanisms underlying viral replication and the host invasion process. Although qPCR protocols for quantifying viral molecules exist, none of them discriminate VS and CS strands. Here, using a two-step qPCR protocol we have quantified VS and CS molecule accumulation during the infection process of Tomato yellow leaf curl virus (TYLCV) and Tomato yellow leaf curl Sardinia virus (TYLCSV) (genus Begomovirus, family Geminiviridae). Our results show that the VS/CS strand ratio and overall dsDNA amounts vary throughout the infection process. Moreover, we show that these values depend on the virus-host combination, and that most CS strands are present as double-stranded molecules. PMID:25241765

  6. Replication of simian virus 40 DNA after UV irradiation: evidence of growing fork blockage and single-stranded gaps in daughter strands

    SciTech Connect

    Mezzina, M.; Menck, C.F.M.; Courtin, P.; Sarasin, A.

    1988-11-01

    The molecular mechanisms of in vivo inhibition of mammalian DNA replication by exposure to UV light (at 254 nm) was studied in monkey and human cells infected with simian virus 40. Analysis of viral DNA by electron microscopy and sucrose gradients confirmed that the presence of UV-induced lesions severely blocks DNA synthesis, and thus the conversion of replicative intermediates (RIs) into fully replicated form I DNA is inhibited by UV irradiation. These blocked RI molecules present several special features when visualized by electron microscopy. In excision repair-proficient monkey and human cells they are composed of a double-stranded circular DNA with a double-stranded tail whose size corresponds to the average interpyrimidine dimer distance, as determined by the dimer-specific T4 endonuclease V. In excision repair-deficient human cells from patients with xeroderma pigmentosum, UV-irradiated RIs present a Carins-like structure similar to that observed for replicating molecules obtained from unirradiated infected cells. Single-stranded gaps are visualized in the replicated portions of UV-irradiated RI molecules; such regions are detected and clearly distinguishable from double-stranded DNA when probed by a specific single-stranded DNA-binding protein such as the bacteriophage T4 gene 32 product. Consistent with the presence of gaps in UV-irradiated RI molecules, single-strand-specific S1 nuclease digestion causes a shift in their sedimentation properties when analyzed in neutral sucrose gradients compared with undamaged molecules.

  7. The eukaryotic RNA exosome.

    PubMed

    Januszyk, Kurt; Lima, Christopher D

    2014-02-01

    The eukaryotic RNA exosome is an essential multi-subunit ribonuclease complex that contributes to the degradation or processing of nearly every class of RNA in both the nucleus and cytoplasm. Its nine-subunit core shares structural similarity to phosphorolytic exoribonucleases such as bacterial PNPase. PNPase and the RNA exosome core feature a central channel that can accommodate single stranded RNA although unlike PNPase, the RNA exosome core is devoid of ribonuclease activity. Instead, the core associates with Rrp44, an endoribonuclease and processive 3'→5' exoribonuclease, and Rrp6, a distributive 3'→5' exoribonuclease. Recent biochemical and structural studies suggest that the exosome core is essential because it coordinates Rrp44 and Rrp6 recruitment, RNA can pass through the central channel, and the association with the core modulates Rrp44 and Rrp6 activities.

  8. Antibiotic efficacy in eliminating leptospiruria in California sea lions (Zalophus californianus) stranding with leptospirosis

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Infection of California sea lions with leptospirosis can result in stranding and death of the animals. Shedding of the infectious organism contributes to spread of the disease to other animals and also poses a threat to human health. This is both for the public interacting with stranded animals and ...

  9. Argonaute-3 activates the let-7a passenger strand microRNA

    PubMed Central

    Winter, Julia; Diederichs, Sven

    2013-01-01

    MicroRNA duplices are separated into a guide and a passenger strand. By convention, the guide represents the active microRNA while the passenger is supposedly degraded. However, passenger strands also emerge as active microRNAs. It is unknown whether the guide-to-passenger-strand ratio can be actively regulated and which factors influence strand incorporation into the RISC. Here, we identify a microRNA with a variable guide-to-passenger-strand ratio along with its regulatory factor: Human Argonaute-3 specifically enhances the passenger strand expression and activity of the tumor suppressor microRNA let-7a. This post-maturational effect is mediated by the Ago3 PAZ and MID domains yielding an elevated affinity for let-7a-3p. Notably, this is independent of the 5′-terminal basepair stability, challenging the universality of the respective rule for microRNA strand selection. Thus, this study uncovers the first protein regulator of the ratio between microRNA guide and passenger strand expression and activity. PMID:24100239

  10. A Framework for a Strand Curriculum: Grades K-12. English Language Arts Curriculum Series, Pamphlet 1.

    ERIC Educational Resources Information Center

    Burge, Georgia, Ed.

    The English language arts "strand curriculum" of the Iowa Department of Public Instruction depicts a "framework" for a K-12 program and encourages teachers to be concerned with three major dimensions of learning--concepts, attitudes, and skills. "Optimum Goals" and "Basic Considerations" are outlined for each "skill strand" and for each "content…

  11. Dolphin Morbillivirus Associated with a Mass Stranding of Sperm Whales, Italy

    PubMed Central

    Centelleghe, Cinzia; Di Provvido, Andrea; Di Renzo, Ludovica; Cardeti, Giusy; Cersini, Antonella; Fichi, Gianluca; Petrella, Antonio; Di Francesco, Cristina Esmeralda; Mignone, Walter; Casalone, Cristina; Di Guardo, Giovanni

    2017-01-01

    In September 2014, seven sperm whales were stranded along Italy’s Adriatic coastline. Postmortem investigations on 3 female adult whales and 1 male fetus carried by the largest female revealed molecular and immunohistochemical evidence of dolphin morbillivirus infection. A possible role of the virus in the stranding event was considered. PMID:27983493

  12. 77 FR 2958 - Prestressed Concrete Steel Wire Strand From Thailand: Correction to Notice of Opportunity To...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-01-20

    ... From the Federal Register Online via the Government Publishing Office DEPARTMENT OF COMMERCE International Trade Administration Prestressed Concrete Steel Wire Strand From Thailand: Correction to Notice of... administrative review of the antidumping duty order on prestressed concrete steel wire strand (``PC...

  13. Prediction of stress waves propagation in progressively loaded seven wire strands

    NASA Astrophysics Data System (ADS)

    Bartoli, Ivan; Castellazzi, Giovanni; Marzani, Alessandro; Salamone, Salvatore

    2012-04-01

    High tensile strength steel strands are widespread load carrying structural components in civil structures. Due to their critical role, several researchers have investigated nondestructive techniques to assess the presence of damage such as corrosion or the change in prestress level (prestress loss). Ultrasonic Guided Waves are known to be an effective approach for defect detection in components with waveguide geometry such as strands. However, Guided Wave propagation (dispersion properties) in steel strands is fairly complex partially due to the strand helical geometry and the influence of axial prestress. For instance, the strand axial stress generates a proportional radial stress between adjacent wires (interwire stress) that is responsible for inter-wire coupling effects. While experimental and numerical investigations have attempted to study and predict wave propagation in axially loaded strands, the propagation phenomenon is not yet fully understood. The present paper intends to improve the knowledge of dispersion properties in progressively loaded seven wire strands accounting for helical geometry and interwire contact forces. Full three dimensional Finite Element simulations as well as Semi-Analytical Models will be used to predict the dispersion curves in strands as a function of the axial stress.

  14. Dolphin Morbillivirus Associated with a Mass Stranding of Sperm Whales, Italy.

    PubMed

    Mazzariol, Sandro; Centelleghe, Cinzia; Di Provvido, Andrea; Di Renzo, Ludovica; Cardeti, Giusy; Cersini, Antonella; Fichi, Gianluca; Petrella, Antonio; Di Francesco, Cristina Esmeralda; Mignone, Walter; Casalone, Cristina; Di Guardo, Giovanni

    2017-01-01

    In September 2014, seven sperm whales were stranded along Italy's Adriatic coastline. Postmortem investigations on 3 female adult whales and 1 male fetus carried by the largest female revealed molecular and immunohistochemical evidence of dolphin morbillivirus infection. A possible role of the virus in the stranding event was considered.

  15. Double-Stranded RNAs and their Use for Characterization of Recalcitrant Viruses

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The presence of high molecular weight, virus-specific, double-stranded RNAs (dsRNAs) in virus-infected plants are probably formed during virus replication and consists of full-length and subgenomic RNAs of single-stranded RNA viruses or genomes of dsRNA viruses. The sizes and patterns of these viru...

  16. Tolerance of DNA Mismatches in Dmc1 Recombinase-mediated DNA Strand Exchange.

    PubMed

    Borgogno, María V; Monti, Mariela R; Zhao, Weixing; Sung, Patrick; Argaraña, Carlos E; Pezza, Roberto J

    2016-03-04

    Recombination between homologous chromosomes is required for the faithful meiotic segregation of chromosomes and leads to the generation of genetic diversity. The conserved meiosis-specific Dmc1 recombinase catalyzes homologous recombination triggered by DNA double strand breaks through the exchange of parental DNA sequences. Although providing an efficient rate of DNA strand exchange between polymorphic alleles, Dmc1 must also guard against recombination between divergent sequences. How DNA mismatches affect Dmc1-mediated DNA strand exchange is not understood. We have used fluorescence resonance energy transfer to study the mechanism of Dmc1-mediated strand exchange between DNA oligonucleotides with different degrees of heterology. The efficiency of strand exchange is highly sensitive to the location, type, and distribution of mismatches. Mismatches near the 3' end of the initiating DNA strand have a small effect, whereas most mismatches near the 5' end impede strand exchange dramatically. The Hop2-Mnd1 protein complex stimulates Dmc1-catalyzed strand exchange on homologous DNA or containing a single mismatch. We observed that Dmc1 can reject divergent DNA sequences while bypassing a few mismatches in the DNA sequence. Our findings have important implications in understanding meiotic recombination. First, Dmc1 acts as an initial barrier for heterologous recombination, with the mismatch repair system providing a second level of proofreading, to ensure that ectopic sequences are not recombined. Second, Dmc1 stepping over infrequent mismatches is likely critical for allowing recombination between the polymorphic sequences of homologous chromosomes, thus contributing to gene conversion and genetic diversity.

  17. Regulation of yeast DNA polymerase δ-mediated strand displacement synthesis by 5'-flaps.

    PubMed

    Koc, Katrina N; Stodola, Joseph L; Burgers, Peter M; Galletto, Roberto

    2015-04-30

    The strand displacement activity of DNA polymerase δ is strongly stimulated by its interaction with proliferating cell nuclear antigen (PCNA). However, inactivation of the 3'-5' exonuclease activity is sufficient to allow the polymerase to carry out strand displacement even in the absence of PCNA. We have examined in vitro the basic biochemical properties that allow Pol δ-exo(-) to carry out strand displacement synthesis and discovered that it is regulated by the 5'-flaps in the DNA strand to be displaced. Under conditions where Pol δ carries out strand displacement synthesis, the presence of long 5'-flaps or addition in trans of ssDNA suppress this activity. This suggests the presence of a secondary DNA binding site on the enzyme that is responsible for modulation of strand displacement activity. The inhibitory effect of a long 5'-flap can be suppressed by its interaction with single-stranded DNA binding proteins. However, this relief of flap-inhibition does not simply originate from binding of Replication Protein A to the flap and sequestering it. Interaction of Pol δ with PCNA eliminates flap-mediated inhibition of strand displacement synthesis by masking the secondary DNA site on the polymerase. These data suggest that in addition to enhancing the processivity of the polymerase PCNA is an allosteric modulator of other Pol δ activities.

  18. Impact of torsion and stretching on the thermal conductivity of polyethylene strands

    NASA Astrophysics Data System (ADS)

    Tu, Runchun; Liao, Quanwen; Zeng, Lingping; Liu, Zhichun; Liu, Wei

    2017-03-01

    A single polyethylene chain was reported to have a high metal-like thermal conductivity (TC), which stands in sharp contrast to the thermally insulating feature of common bulk polyethylene materials. This work numerically investigates the impact of torsion and stretching on the TC of polyethylene strands by using equilibrium molecular dynamics simulations. The simulation results show that torsion slightly reduces the TC of a single polyethylene chain. In contrast, the heat conduction of polyethylene strands could be slightly enhanced under torsional loading with a specific torsional angle. Particularly, an apparent improvement of TC of polyethylene strands is achieved by combining torsion and stretching functions. It is found that the TC of torsional polyethylene strands is sensitive to torsional patterns. Our study proposes a specific torsional pattern of polyethylene strands that significantly enhances the heat conduction of the original counterpart. This study will play an essential role in guiding the improvements of thermal conduction property of polymers.

  19. Renaturation of complementary single-stranded DNA circles: complete rewinding facilitated by the DNA untwisting enzyme.

    PubMed Central

    Champoux, J J

    1977-01-01

    Renaturation of two complementary single-stranded circles should be limited by topological constraints against the rewinding of the DNA helix. If a mixture of complementary single-stranded rings is annealed and then treated with the DNA untwisting enzyme, the DNA circles completely renature as judged by (i) the presence of interlocked rings that sediment at 53 S in alkali, (ii) the buoyant density of the renatured DNA in CsCl gradients containing ethidium bromide, and (iii) the resistance of the product to the single-strand-specific S1 nuclease. Therefore, the DNA untwisting enzyme is able to provide a transient single-strand break that is sufficient to allow the two strands to completely rewind. The possibility that the untwisting enzyme might facilitate the initiation of the process of genetic recombination is discussed. PMID:202951

  20. Antioxidant activity and protective effect on DNA strand scission of Rooibos tea (Aspalathus linearis).

    PubMed

    Lee, Eun-Jung; Jang, Hae-Dong

    2004-01-01

    Rooibos tea (Aspalathus linearis) was extracted by refluxing with water and 75% ethanol as a solvent. Antioxidant activity and protective effect on DNA strand scission were investigated by using different antioxidant assay systems and DNA strand nicking assay, respectively. 75% Ethanol extract has higher content of total soluble phenolics and flavonoid than water extract. Antioxidant activities such as hydrogen donating capacity and scavenging activity of hydrogen peroxide were higher in 75% ethanol extract than in water extract except the rate constant with hydroxyl radical. Peroxyl radical induced DNA strand scission was prevented by both 75% ethanol and water extract and hydroxyl radical induced DNA strand scission was not. This result indicates that total soluble phenolics, specially flavonoid, of Rooibos tea are responsible for several kinds of antioxidant activities and preventive activity on peroxyl radical induced DNA strand scission.

  1. Electronic transport in DNA sequences: The role of correlations and inter-strand coupling

    NASA Astrophysics Data System (ADS)

    Albuquerque, E. L.; Lyra, M. L.; de Moura, F. A. B. F.

    2006-10-01

    We investigate the electronic properties in sequences of single and double-strand DNA molecules made up from the nucleotides guanine G, adenine A, cytosine C and thymine T. Using a tight-binding formulation we solve the time-dependent Schrödinger equation to compute the spread of initially localized wave packets. We also compute the localization length in finite segments by employing a Green's function recursion method. We compare the results for the genomic DNA sequence with those of two artificial sequences, namely the quasiperiodic Rudin-Shapiro one, which has long-range correlations, and a intra-strand pair correlated DNA sequence. We found that the short-range character of the intra-strand correlations suffices for a quantitative description of the one-electron wave-packet dynamics in the double-strand real DNA sequences. Further, the inter-strand coupling promotes electronic transport over a longer segment.

  2. Enzyme-free colorimetric detection systems based on the DNA strand displacement competition reaction

    NASA Astrophysics Data System (ADS)

    Zhang, Z.; Birkedal, V.; Gothelf, K. V.

    2016-05-01

    The strand displacement competition assay is based on the dynamic equilibrium of the competitive hybridization of two oligonucleotides (A and B) to a third oligonucleotide (S). In the presence of an analyte that binds to a specific affinity-moiety conjugated to strand B, the equilibrium shifts, which can be detected by a shift in the fluorescence resonance energy transfer signal between dyes attached to the DNA strands. In the present study we have integrated an ATP aptamer in the strand B and demonstrated the optical detection of ATP. Furthermore we explore a new readout method using a split G-quadruplex DNAzyme for colorimetric readout of the detection of streptavidin by the naked eye. Finally, we integrate the whole G-quadruplex DNAzyme system in a single DNA strand and show that it is applicable to colorimetric detection.

  3. Inter-strand current sharing and ac loss measurements in superconducting YBCO Roebel cables

    SciTech Connect

    Majoros, M.; Sumption, M. D.; Collings, E. W.; Long, N. J.

    2015-04-08

    A Roebel cable, one twist pitch long, was modified from its as-received state by soldering copper strips between the strands to provide inter-strand connections enabling current sharing. Various DC transport currents (representing different percentages of its critical current) were applied to a single strand of such a modified cable at 77 K in a liquid nitrogen bath. Simultaneous monitoring of I–V curves in different parts of the strand as well as in its interconnections with other strands was made using a number of sensitive Keithley nanovoltmeters in combination with a multichannel high-speed data acquisition card, all controlled via LabView software. Current sharing onset was observed at about 1.02 of strand Ic. At a strand current of 1.3Ic about 5% of the current was shared through the copper strip interconnections. A finite element method modeling was performed to estimate the inter-strand resistivities required to enable different levels of current sharing. The relative contributions of coupling and hysteretic magnetization (and loss) were compared, and for our cable and tape geometry, and at dB/dt=1 T s-1, and our inter-strand resistance of 0.77 mΩ, (enabling a current sharing of 5% at 1.3Ic) the coupling component was 0.32% of the hysteretic component. However, inter-strand contact resistance values of 100–1000 times smaller (close to those of NbTi and Nb3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.

  4. Rotavirus Replication: Plus-Sense Templates for Double-Stranded RNA Synthesis Are Made in Viroplasms

    PubMed Central

    Silvestri, Lynn S.; Taraporewala, Zenobia F.; Patton, John T.

    2004-01-01

    Rotavirus plus-strand RNAs not only direct protein synthesis but also serve as templates for the synthesis of the segmented double-stranded RNA (dsRNA) genome. In this study, we identified short-interfering RNAs (siRNAs) for viral genes 5, 8, and 9 that suppressed the expression of NSP1, a nonessential protein; NSP2, a component of viral replication factories (viroplasms); and VP7, an outer capsid protein, respectively. The loss of NSP2 expression inhibited viroplasm formation, genome replication, virion assembly, and synthesis of the other viral proteins. In contrast, the loss of VP7 expression had no effect on genome replication; instead, it inhibited only outer-capsid morphogenesis. Similarly, neither genome replication nor any other event of the viral life cycle was affected by the loss of NSP1. The data indicate that plus-strand RNAs templating dsRNA synthesis within viroplasms are not susceptible to siRNA-induced RNase degradation. In contrast, plus-strand RNAs templating protein synthesis in the cytosol are susceptible to degradation and thus are not the likely source of plus-strand RNAs for dsRNA synthesis in viroplasms. Indeed, immunofluorescence analysis of bromouridine (BrU)-labeled RNA made in infected cells provided evidence that plus-strand RNAs are synthesized within viroplasms. Furthermore, transfection of BrU-labeled viral plus-strand RNA into infected cells suggested that plus-strand RNAs introduced into the cytosol do not localize to viroplasms. From these results, we propose that plus-strand RNAs synthesized within viroplasms are the primary source of templates for genome replication and that trafficking pathways do not exist within the cytosol that transport plus-strand RNAs to viroplasms. The lack of such pathways confounds the development of reverse genetics systems for rotavirus. PMID:15220450

  5. Inter-strand current sharing and ac loss measurements in superconducting YBCO Roebel cables

    SciTech Connect

    sumption, Mike; Majoros, Milan; Collings, E. W.; Van der Laan, D. C.

    2014-11-07

    A Roebel cable, one twist pitch long, was modified from its as-received state by soldering copper strips between the strands to provide inter-strand connections enabling current sharing. Various DC transport currents (representing different percentages of its critical current) were applied to a single strand of such a modified cable at 77 K in a liquid nitrogen bath. Simultaneous monitoring of I–V curves in different parts of the strand as well as in its interconnections with other strands was made using a number of sensitive Keithley nanovoltmeters in combination with a multichannel high-speed data acquisition card, all controlled via LabView software. Current sharing onset was observed at about 1.02 of strand Ic. At a strand current of 1.3Ic about 5% of the current was shared through the copper strip interconnections. A finite element method modeling was performed to estimate the inter-strand resistivities required to enable different levels of current sharing. The relative contributions of coupling and hysteretic magnetization (and loss) were compared, and for our cable and tape geometry, and at dB/dt=1 T s-1, and our inter-strand resistance of 0.77 mΩ, (enabling a current sharing of 5% at 1.3Ic ) the coupling component was 0.32% of the hysteretic component. However, inter-strand contact resistance values of 100–1000 times smaller (close to those of NbTi and Nb3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.

  6. Factors affecting stranding of juvenile salmonids by wakes from ship passage in the Lower Columbia River

    SciTech Connect

    Pearson, Walter H.; Skalski, John R.

    2011-09-01

    The effects of deep-draft vessel traffic in confined riverine channels on shorelines and fish are of widespread concern. In the Pacific Northwest of the United States, wakes and subsequent beach run-up from ships transiting the Lower Columbia River have been observed to strand juvenile salmon and other fish. As part of a before-and-after study to assess stranding effects that may be associated with channel deepening, we measured 19 co-variables from observations of 126 vessel passages at three low-slope beaches and used multiple logistic regression to discern the significant factors influencing the frequency of stranding. Subyearling Chinook salmon were 82% of the fish stranded over all sites and seasons. Given a low-slope beach, stranding frequencies for juvenile salmon were significantly related to river location, salmon density in the shallows, a proxy for ship kinetic energy, tidal height, and two interactions. The beach types selected for our study do not include all the beach types along the Lower Columbia River so that the stranding probabilities described here cannot be extrapolated river-wide. A more sophisticated modeling effort, informed by additional field data, is needed to assess salmon losses by stranding for the entire lower river. Such modeling needs to include river-scale factors such as beach type, berms, proximity to navigation channel, and perhaps, proximity to tributaries that act as sources of out-migrating juvenile salmon. At both river and beach scales, no one factor produces stranding; rather interactions among several conditions produce a stranding event and give stranding its episodic nature.

  7. High resolution atomic force microscopy of double-stranded RNA

    NASA Astrophysics Data System (ADS)

    Ares, Pablo; Fuentes-Perez, Maria Eugenia; Herrero-Galán, Elías; Valpuesta, José M.; Gil, Adriana; Gomez-Herrero, Julio; Moreno-Herrero, Fernando

    2016-06-01

    Double-stranded (ds) RNA mediates the suppression of specific gene expression, it is the genetic material of a number of viruses, and a key activator of the innate immune response against viral infections. The ever increasing list of roles played by dsRNA in the cell and its potential biotechnological applications over the last decade has raised an interest for the characterization of its mechanical properties and structure, and that includes approaches using Atomic Force Microscopy (AFM) and other single-molecule techniques. Recent reports have resolved the structure of dsDNA with AFM at unprecedented resolution. However, an equivalent study with dsRNA is still lacking. Here, we have visualized the double helix of dsRNA under near-physiological conditions and at sufficient resolution to resolve the A-form sub-helical pitch periodicity. We have employed different high-sensitive force-detection methods and obtained images with similar spatial resolution. Therefore, we show here that the limiting factors for high-resolution AFM imaging of soft materials in liquid medium are, rather than the imaging mode, the force between the tip and the sample and the sharpness of the tip apex.Double-stranded (ds) RNA mediates the suppression of specific gene expression, it is the genetic material of a number of viruses, and a key activator of the innate immune response against viral infections. The ever increasing list of roles played by dsRNA in the cell and its potential biotechnological applications over the last decade has raised an interest for the characterization of its mechanical properties and structure, and that includes approaches using Atomic Force Microscopy (AFM) and other single-molecule techniques. Recent reports have resolved the structure of dsDNA with AFM at unprecedented resolution. However, an equivalent study with dsRNA is still lacking. Here, we have visualized the double helix of dsRNA under near-physiological conditions and at sufficient resolution to

  8. Materials, Strands, and Cables for Superconducting Accelerator Magnets. Final Report

    SciTech Connect

    Sumption, Mike D.; Collings, Edward W.

    2014-09-19

    This report focuses on Materials, Strands and Cables for High Energy Physics Particle accelerators. In the materials area, work has included studies of basic reactions, diffusion, transformations, and phase assemblage of Nb3Sn. These materials science aspects have been married to results, in the form of flux pinning, Bc2, Birr, and transport Jc, with an emphasis on obtaining the needed Jc for HEP needs. Attention has also been paid to the “intermediate-temperature superconductor”, magnesium diboride emphasis being placed on (i) irreversibility field enhancement, (ii) critical current density and flux pinning, and (iii) connectivity. We also report on studies of Bi-2212. The second area of the program has been in the area of “Strands” in which, aside from the materials aspect of the conductor, its physical properties and their influence on performance have been studied. Much of this work has been in the area of magnetization estimation and flux jump calculation and control. One of the areas of this work was strand instabilities in high-performance Nb3Sn conductors due to combined fields and currents. Additionally, we investigated quench and thermal propagation in YBCO coated conductors at low temperatures and high fields. The last section, “Cables”, focussed on interstrand contact resistance, ICR, it origins, control, and implications. Following on from earlier work in NbTi, the present work in Nb3Sn has aimed to make ICR intermediate between the two extremes of too little contact (no current sharing) and too much (large and unacceptable magnetization and associated beam de-focussing). Interstrand contact and current sharing measurements are being made on YBCO based Roebel cables using transport current methods. Finally, quench was investigated for YBCO cables and the magnets wound from them, presently with a focus on 50 T solenoids for muon collider applications.

  9. Double strand break unwinding and resection by the mycobacterial helicase-nuclease AdnAB in the presence of single strand DNA-binding protein (SSB).

    PubMed

    Unciuleac, Mihaela-Carmen; Shuman, Stewart

    2010-11-05

    Mycobacterial AdnAB is a heterodimeric DNA helicase-nuclease and 3' to 5' DNA translocase implicated in the repair of double strand breaks (DSBs). The AdnA and AdnB subunits are each composed of an N-terminal motor domain and a C-terminal nuclease domain. Inclusion of mycobacterial single strand DNA-binding protein (SSB) in reactions containing linear plasmid dsDNA allowed us to study the AdnAB helicase under conditions in which the unwound single strands are coated by SSB and thereby prevented from reannealing or promoting ongoing ATP hydrolysis. We found that the AdnAB motor catalyzed processive unwinding of 2.7-11.2-kbp linear duplex DNAs at a rate of ∼250 bp s(-1), while hydrolyzing ∼5 ATPs per bp unwound. Crippling the AdnA phosphohydrolase active site did not affect the rate of unwinding but lowered energy consumption slightly, to ∼4.2 ATPs bp(-1). Mutation of the AdnB phosphohydrolase abolished duplex unwinding, consistent with a model in which the "leading" AdnB motor propagates a Y-fork by translocation along the 3' DNA strand, ahead of the "lagging" AdnA motor domain. By tracking the resection of the 5' and 3' strands at the DSB ends, we illuminated a division of labor among the AdnA and AdnB nuclease modules during dsDNA unwinding, whereby the AdnA nuclease processes the unwound 5' strand to liberate a short oligonucleotide product, and the AdnB nuclease incises the 3' strand on which the motor translocates. These results extend our understanding of presynaptic DSB processing by AdnAB and engender instructive comparisons with the RecBCD and AddAB clades of bacterial helicase-nuclease machines.

  10. Holocene geologic slip rate for Mission Creek strand of the southern San Andreas Fault

    NASA Astrophysics Data System (ADS)

    Fryer, R.; Behr, W. M.; Sharp, W. D.; Gold, P. O.

    2015-12-01

    The San Andreas Fault (SAF) is the primary structure accommodating motion between the Pacific and North American plates. The Coachella Valley segment of the southern SAF has not ruptured historically, and is considered overdue for an earthquake because it has exceeded its average recurrence interval. In the northwestern Coachella Valley, this fault splits into three additional fault strands: the Mission Creek strand, which strikes northwest in the San Bernardino Mountains, and the Banning and Garnet Hill strands, which continue west, transferring slip into San Gorgonio Pass. Determining how slip is partitioned between these faults is critical for southern California seismic hazard models. Recent work near the southern end of the Mission Creek strand at Biskra Palms yielded a slip rate of ~14-17 mm/yr since 50 ka, and new measurements from Pushawalla Canyon suggest a possible rate of ~20 mm/yr since 2.5 ka and 70 ka. Slip appears to transfer away from the Mission Creek strand and to the Banning and Garnet Hill strands within the Indio Hills, but the slip rate for the Garnet Hill strand is unknown and the 4-5 mm/yr slip rate for the Banning strand is applicable only since the mid Holocene. Additional constraints on the Holocene slip rate for the Mission Creek strand are critical for resolving the total slip rate for the southern SAF, and also for comparing slip rates on all three fault strands in the northern Coachella Valley over similar time scales. We have identified a new slip rate site at the southern end of the Mission Creek strand between Pushawalla and Biskra Palms. At this site, (the Three Palms Site), three alluvial fans sourced from three distinct catchments have been displaced approximately 80 meters by the Mission Creek Strand. Initial observations from an exploratory pit excavated into the central fan show soil development consistent with Holocene fan deposition and no evidence of soil profile disruption. To more precisely constrain the minimum

  11. Development of Ta-matrix Nb3Al Strand and Cable for High-Field Accelerator Magnet

    SciTech Connect

    Tsuchiya, K.; Ghosh, A.; Kikuchi, A.; Takeuchi, T.; Banno, N.; Iijima, Y.; Nimori, S.; Takigawa, H.; Terashima, A.; Nakamoto, T.; Kuroda, Y.; Maruyama, M.; Takao, T.; Tanaka, K.; Nakagawa, K.; Barzi, E.; Yamada, R.; Zlobin, A.

    2011-08-03

    Research and development of Nb{sub 3}Al strands and cables for a high field accelerator magnet is ongoing under the framework of the CERN-KEK collaboration. In this program, new Ta-matrix Nb{sub 3}Al strands were developed and their mechanical properties and superconducting properties were studied. The non-Cu J{sub c} values of these strands were 750 {approx} 800 A/mm{sup 2} at 15 T and 4.2 K. Using these strands, test fabrication of 27-strand Rutherford cable was carried out in collaboration with NIMS and Fermilab. The properties of the strands extracted from the cable were examined and it was found that there was no degradation of the superconducting properties of the strands. In this paper, we report the fabrication of the strands and the cable in brief and present some of the results obtained by studying their properties.

  12. A novel single-stranded RNA virus in Nesidiocoris tenuis.

    PubMed

    Xu, Pengjun; Song, Xueru; Yang, Xianming; Tang, Zhaoqi; Ren, Guangwei; Lu, Yanhui

    2017-04-01

    The complete genome sequence of a novel single-stranded RNA virus in Nesidiocoris tenuis was determined by RNA-seq and rapid amplification of cDNA ends (RACE) methodologies and was named N. tenuis virus 1. The genomic RNA was 3970 nucleotides (nt) in length and contained two putative open reading frames (ORFs). ORF1 encoded a polypeptide with 283 amino acids containing a viral (superfamily 1) RNA helicase (Hel) domain, and ORF2 encoded a polypeptide with 294 amino acids containing an RNA-dependent RNA polymerase (RdRP) domain. Phylogenetic analysis using the deduced amino acid sequences indicated that the N. tenuis virus 1 clustered with Blackford virus; however, the low bootstrap values and unique genomic structure suggested that the virus is a prototype of a new type of unclassified viruses. The prevalence of N. tenuis virus 1 infection in field populations of N. tenuis differed between three locations, with 28.32% of the 113 sampled individuals testing positive for the virus.

  13. Nuclear proteins hijacked by mammalian cytoplasmic plus strand RNA viruses

    SciTech Connect

    Lloyd, Richard E.

    2015-05-15

    Plus strand RNA viruses that replicate in the cytoplasm face challenges in supporting the numerous biosynthetic functions required for replication and propagation. Most of these viruses are genetically simple and rely heavily on co-opting cellular proteins, particularly cellular RNA-binding proteins, into new roles for support of virus infection at the level of virus-specific translation, and building RNA replication complexes. In the course of infectious cycles many nuclear-cytoplasmic shuttling proteins of mostly nuclear distribution are detained in the cytoplasm by viruses and re-purposed for their own gain. Many mammalian viruses hijack a common group of the same factors. This review summarizes recent gains in our knowledge of how cytoplasmic RNA viruses use these co-opted host nuclear factors in new functional roles supporting virus translation and virus RNA replication and common themes employed between different virus groups. - Highlights: • Nuclear shuttling host proteins are commonly hijacked by RNA viruses to support replication. • A limited group of ubiquitous RNA binding proteins are commonly hijacked by a broad range of viruses. • Key virus proteins alter roles of RNA binding proteins in different stages of virus replication.

  14. Diffusion of human Replication Protein A along single stranded DNA

    PubMed Central

    Nguyen, Binh; Sokoloski, Joshua; Galletto, Roberto; Elson, Elliot L.; Wold, Marc S.; Lohman, Timothy M.

    2014-01-01

    Replication Protein A (RPA) is a eukaryotic single stranded (ss) DNA binding protein that plays critical roles in most aspects of genome maintenance, including replication, recombination and repair. RPA binds ssDNA with high affinity, destabilizes DNA secondary structure and facilitates binding of other proteins to ssDNA. However, RPA must be removed from or redistributed along ssDNA during these processes. To probe the dynamics of RPA-DNA interactions, we combined ensemble and single molecule fluorescence approaches to examine human RPA diffusion along ssDNA and find that an hRPA hetero-trimer can diffuse rapidly along ssDNA. Diffusion of hRPA is functional in that it provides the mechanism by which hRPA can transiently disrupt DNA hairpins by diffusing in from ssDNA regions adjacent to the DNA hairpin. hRPA diffusion was also monitored by the fluctuations in fluorescence intensity of a Cy3 fluorophore attached to the end of ssDNA. Using a novel method to calibrate the Cy3 fluorescence intensity as a function of hRPA position on the ssDNA, we estimate a one-dimensional diffusion coefficient of hRPA on ssDNA of D1 ~5000 nucleotide2s−1 at 37°C. Diffusion of hRPA while bound to ssDNA enables it to be readily repositioned to allow other proteins access to ssDNA. PMID:25058683

  15. Pilus-dependent, double-stranded DNA bacteriophage for Caulobacter.

    PubMed Central

    Scholl, D R; Jollick, J D

    1980-01-01

    Caulobacter phage phi 6, previously reported to adsorb specifically to bacterial flagella, was shown here to attach to pili more frequently than to flagella. Phage phi 6 was shown to contain double-stranded DNA by circular dichroism spectroscopy and thermal denaturation accompanied by a hyperchromic shift at 260 nm. Morphologically, phage phi 6 fits group B2 (H.-W. Ackermann, in A. I. Laskin and H. A. Lechevalier, ed., Handbook of Microbiology, vol. 1, p. 638-643, 1973) with a long, noncontractile tail and an elongate head. Pilus-less mutants of the host Caulobacter vibrioides CV6 are phage phi 6 resistant, whereas flagellum-less mutants, which produce pili, are phage susceptible. Treatments of susceptible cells which remove or immobilize pili and flagella, e.g., blending or cyanide, inhibited phage phi 6 infection. Our evidence suggests that phage of phi 6 initiates infection in a manner similar to the pilus-specific phages for Pseudomonas described previously (D. E. Bradley, Virology 51:489-492, 1973; D. E. Bradley and T. L. Pitt, J. Gen. Virol. 24:1-15, 1974). Images PMID:6106721

  16. DNA double-strand break repair pathway choice in Dictyostelium.

    PubMed

    Hsu, Duen-Wei; Kiely, Rhian; Couto, C Anne-Marie; Wang, Hong-Yu; Hudson, Jessica J R; Borer, Christine; Pears, Catherine J; Lakin, Nicholas D

    2011-05-15

    DNA double-strand breaks (DSBs) can be repaired by homologous recombination (HR) or non-homologous end joining (NHEJ). The mechanisms that govern whether a DSB is repaired by NHEJ or HR remain unclear. Here, we characterise DSB repair in the amoeba Dictyostelium. HR is the principal pathway responsible for resistance to DSBs during vegetative cell growth, a stage of the life cycle when cells are predominantly in G2. However, we illustrate that restriction-enzyme-mediated integration of DNA into the Dictyostelium genome is possible during this stage of the life cycle and that this is mediated by an active NHEJ pathway. We illustrate that Dclre1, a protein with similarity to the vertebrate NHEJ factor Artemis, is required for NHEJ independently of DNA termini complexity. Although vegetative dclre1(-) cells are not radiosensitive, they exhibit delayed DSB repair, further supporting a role for NHEJ during this stage of the life cycle. By contrast, cells lacking the Ku80 component of the Ku heterodimer that binds DNA ends to facilitate NHEJ exhibit no such defect and deletion of ku80 suppresses the DSB repair defect of dclre1(-) cells through increasing HR efficiency. These data illustrate a functional NHEJ pathway in vegetative Dictyostelium and the importance of Ku in regulating DSB repair choice during this phase of the life cycle.

  17. Divalent counterion-induced condensation of triple-strand DNA

    PubMed Central

    Qiu, Xiangyun; Parsegian, V. Adrian; Rau, Donald C.

    2010-01-01

    Understanding and manipulation of the forces assembling DNA/RNA helices have broad implications for biology, medicine, and physics. One subject of significance is the attractive force between dsDNA mediated by polycations of valence ≥3. Despite extensive studies, the physical origin of the “like-charge attraction” remains unsettled among competing theories. Here we show that triple-strand DNA (tsDNA), a more highly charged helix than dsDNA, is precipitated by alkaline-earth divalent cations that are unable to condense dsDNA. We further show that our observation is general by examining several cations (Mg2+, Ba2+, and Ca2+) and two distinct tsDNA constructs. Cation-condensed tsDNA forms ordered hexagonal arrays that redissolve upon adding monovalent salts. Forces between tsDNA helices, measured by osmotic stress, follow the form of hydration forces observed with condensed dsDNA. Probing a well-defined system of point-like cations and tsDNAs with more evenly spaced helical charges, the counterintuitive observation that the more highly charged tsDNA (vs. dsDNA) is condensed by cations of lower valence provides new insights into theories of polyelectrolytes and the biological and pathological roles of tsDNA. Cations and tsDNAs also hold promise as a model system for future studies of DNA–DNA interactions and electrostatic interactions in general. PMID:21098260

  18. Architecture and regulation of negative-strand viral enzymatic machinery

    PubMed Central

    Kranzusch, Philip J.; Whelan, Sean P.J.

    2012-01-01

    Negative-strand (NS) RNA viruses initiate infection with a unique polymerase complex that mediates both mRNA transcription and subsequent genomic RNA replication. For nearly all NS RNA viruses, distinct enzymatic domains catalyzing RNA polymerization and multiple steps of 5′ mRNA cap formation are contained within a single large polymerase protein (L). While NS RNA viruses include a variety of emerging human and agricultural pathogens, the enzymatic machinery driving viral replication and gene expression remains poorly understood. Recent insights with Machupo virus and vesicular stomatitis virus have provided the first structural information of viral L proteins, and revealed how the various enzymatic domains are arranged into a conserved architecture shared by both segmented and nonsegmented NS RNA viruses. In vitro systems reconstituting RNA synthesis from purified components provide new tools to understand the viral replicative machinery, and demonstrate the arenavirus matrix protein regulates RNA synthesis by locking a polymerase–template complex. Inhibition of gene expression by the viral matrix protein is a distinctive feature also shared with influenza A virus and nonsegmented NS RNA viruses, possibly illuminating a conserved mechanism for coordination of viral transcription and polymerase packaging PMID:22767259

  19. DNA double strand break repair, aging and the chromatin connection.

    PubMed

    Gorbunova, Vera; Seluanov, Andrei

    2016-06-01

    Are DNA damage and mutations possible causes or consequences of aging? This question has been hotly debated by biogerontologists for decades. The importance of DNA damage as a possible driver of the aging process went from being widely recognized to then forgotten, and is now slowly making a comeback. DNA double strand breaks (DSBs) are particularly relevant to aging because of their toxicity, increased frequency with age and the association of defects in their repair with premature aging. Recent studies expand the potential impact of DNA damage and mutations on aging by linking DNA DSB repair and age-related chromatin changes. There is overwhelming evidence that increased DNA damage and mutations accelerate aging. However, an ultimate proof of causality would be to show that enhanced genome and epigenome stability delays aging. This is not an easy task, as improving such complex biological processes is infinitely more difficult than disabling it. We will discuss the possibility that animal models with enhanced DNA repair and epigenome maintenance will be generated in the near future.

  20. How a short double-stranded DNA bends

    NASA Astrophysics Data System (ADS)

    Shin, Jaeoh; Lee, O.-Chul; Sung, Wokyung

    2015-04-01

    A recent experiment using fluorescence microscopy showed that double-stranded DNA fragments shorter than 100 base pairs loop with the probabilities higher by the factor of 102-106 than predicted by the worm-like chain (WLC) model [R. Vafabakhsh and T. Ha, Science 337, 1101(2012)]. Furthermore, the looping probabilities were found to be nearly independent of the loop size. The results signify a breakdown of the WLC model for DNA mechanics which works well on long length scales and calls for fundamental understanding for stressed DNA on shorter length scales. We develop an analytical, statistical mechanical model to investigate what emerges to the short DNA under a tight bending. A bending above a critical level initiates nucleation of a thermally induced bubble, which could be trapped for a long time, in contrast to the bubbles in both free and uniformly bent DNAs, which are either transient or unstable. The trapped bubble is none other than the previously hypothesized kink, which releases the bending energy more easily as the contour length decreases. It leads to tremendous enhancement of the cyclization probabilities, in a reasonable agreement with experiment.